IRESite_Id:238 characteristics of UtrA IRES studied in pbetaGAL/UtrA/CAT plasmid

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `238`	Version: `2`
Originaly submitted by: Václav Vopálenský
Reviewed by: Václav Vopálenský	Last change: `2009-09-02 23:43:01`

IRESite record type:

plasmid_with_promoter_and_putative_IRES_translationally_characterized

The shape of the nucleic acid molecule translated:
linear The quality of the mRNA/+RNA sequence:
hopefully_full-length_mRNA

The mRNA/+RNA description:

Putative in vivo CMV promoter-derived transcript produced from bicistronic plasmid pbetaGAL/UtrA/CAT which
comprises beta galactosidase and chloramphenicol acetyltransferase as the first and the second cistron
respectively and the whole part of mouse Utrn 5' UTR (from nt -506 to nt -1 of the original sequence) mRNA
cloned between them.
The sequence ends at its 3'-end right after the poly(A) signal from BGH mRNA and thus the 3'-UTR might be
slightly wrong.

The mRNA/+RNA sequence represented in the +DNA notation:

agagaaccca ctgcttactg gcttatcgaa attaatacga ctcactatag ggagacccaa gcttggtacc gagctcggat ccactagtaa cggccgccag 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

tgtgctggaa ttctgcagat atccatcaca ctggcggccg caattcccgg ggatcgaaag agcctgctaa agcaaaaaag aagtcaccat gtcgtttact 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

ttgaccaaca agaacgtgat tttcgttgcc ggtctgggag gcattggtct ggacaccagc aaggagctgc tcaagcgcga tcccgtcgtt ttacaacgtc 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

gtgactggga aaaccctggc gttacccaac ttaatcgcct tgcagcacat ccccctttcg ccagctggcg taatagcgaa gaggcccgca ccgatcgccc 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

ttcccaacag ttgcgcagcc tgaatggcga atggcgcttt gcctggtttc cggcaccaga agcggtgccg gaaagctggc tggagtgcga tcttcctgag 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

gccgatactg tcgtcgtccc ctcaaactgg cagatgcacg gttacgatgc gcccatctac accaacgtaa cctatcccat tacggtcaat ccgccgtttg 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

ttcccacgga gaatccgacg ggttgttact cgctcacatt taatgttgat gaaagctggc tacaggaagg ccagacgcga attatttttg atggcgttaa 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

ctcggcgttt catctgtggt gcaacgggcg ctgggtcggt tacggccagg acagtcgttt gccgtctgaa tttgacctga gcgcattttt acgcgccgga 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

gaaaaccgcc tcgcggtgat ggtgctgcgt tggagtgacg gcagttatct ggaagatcag gatatgtggc ggatgagcgg cattttccgt gacgtctcgt 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

tgctgcataa accgactaca caaatcagcg atttccatgt tgccactcgc tttaatgatg atttcagccg cgctgtactg gaggctgaag ttcagatgtg 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

cggcgagttg cgtgactacc tacgggtaac agtttcttta tggcagggtg aaacgcaggt cgccagcggc accgcgcctt tcggcggtga aattatcgat 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

gagcgtggtg gttatgccga tcgcgtcaca ctacgtctga acgtcgaaaa cccgaaactg tggagcgccg aaatcccgaa tctctatcgt gcggtggttg 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

aactgcacac cgccgacggc acgctgattg aagcagaagc ctgcgatgtc ggtttccgcg aggtgcggat tgaaaatggt ctgctgctgc tgaacggcaa 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

gccgttgctg attcgaggcg ttaaccgtca cgagcatcat cctctgcatg gtcaggtcat ggatgagcag acgatggtgc aggatatcct gctgatgaag 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

cagaacaact ttaacgccgt gcgctgttcg cattatccga accatccgct gtggtacacg ctgtgcgacc gctacggcct gtatgtggtg gatgaagcca 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

atattgaaac ccacggcatg gtgccaatga atcgtctgac cgatgatccg cgctggctac cggcgatgag cgaacgcgta acgcgaatgg tgcagcgcga 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

tcgtaatcac ccgagtgtga tcatctggtc gctggggaat gaatcaggcc acggcgctaa tcacgacgcg ctgtatcgct ggatcaaatc tgtcgatcct 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

tcccgcccgg tgcagtatga aggcggcgga gccgacacca cggccaccga tattatttgc ccgatgtacg cgcgcgtgga tgaagaccag cccttcccgg 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

ctgtgccgaa atggtccatc aaaaaatggc tttcgctacc tggagagacg cgcccgctga tcctttgcga atacgcccac gcgatgggta acagtcttgg 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

cggtttcgct aaatactggc aggcgtttcg tcagtatccc cgtttacagg gcggcttcgt ctgggactgg gtggatcagt cgctgattaa atatgatgaa 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

aacggcaacc cgtggtcggc ttacggcggt gattttggcg atacgccgaa cgatcgccag ttctgtatga acggtctggt ctttgccgac cgcacgccgc 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

atccagcgct gacggaagca aaacaccagc agcagttttt ccagttccgt ttatccgggc aaaccatcga agtgaccagc gaatacctgt tccgtcatag 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

cgataacgag ctcctgcact ggatggtggc gctggatggt aagccgctgg caagcggtga agtgcctctg gatgtcgctc cacaaggtaa acagttgatt 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

gaactgcctg aactaccgca gccggagagc gccgggcaac tctggctcac agtacgcgta gtgcaaccga acgcgaccgc atggtcagaa gccgggcaca 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

tcagcgcctg gcagcagtgg cgtctggcgg aaaacctcag tgtgacgctc cccgccgcgt cccacgccat cccgcatctg accaccagcg aaatggattt 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

ttgcatcgag ctgggtaata agcgttggca atttaaccgc cagtcaggct ttctttcaca gatgtggatt ggcgataaaa aacaactgct gacgccgctg 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

cgcgatcagt tcacccgtgc accgctggat aacgacattg gcgtaagtga agcgacccgc attgacccta acgcctgggt cgaacgctgg aaggcggcgg 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

gccattacca ggccgaagca gcgttgttgc agtgcacggc agatacactt gctgatgcgg tgctgattac gaccgctcac gcgtggcagc atcaggggaa 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

aaccttattt atcagccgga aaacctaccg gattgatggt agtggtcaaa tggcgattac cgttgatgtt gaagtggcga gcgatacacc gcatccggcg 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

cggattggcc tgaactgcca gctggcgcag gtagcagagc gggtaaactg gctcggatta gggccgcaag aaaactatcc cgaccgcctt actgccgcct 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

gttttgaccg ctgggatctg ccattgtcag acatgtatac cccgtacgtc ttcccgagcg aaaacggtct gcgctgcggg acgcgcgaat tgaattatgg 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

cccacaccag tggcgcggcg acttccagtt caacatcagc cgctacagtc aacagcaact gatggaaacc agccatcgcc atctgctgca cgcggaagaa 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

ggcacatggc tgaatatcga cggtttccat atggggattg gtggcgacga ctcctggagc ccgtcagtat cggcggaatt acagctgagc gccggtcgct 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

accattacca gttggtctgg tgtcaaaaat aataataacc gggcaggcca tgtctgcccg tatttcgcgt aaggaaatcc attatgtact atttaaaaaa 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

cacaaacttt tggatgttcg gtttattctt tttcttttac ttttttatca tgggagccta cttcccgttt ttcccgattt ggctacatga catcaaccat 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

atcagcaaaa gtgatacggg tattattttt gccgctattt ctctgttctc gctattattc caaccgctgt ttggtctgct ttctgacaaa ctcggcctcg 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

actctaggcg gccgctcgag ttgtggagtc gcccttcccc cgaggagggg agcgggcagc gccgggcgcg ggatttctcc cgcccagggc cgaggaggag 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

ccctgggctc ctcaaccgat cgggccacct ccgggagcgg cgcccctttt ctttcgggtc attcctgcag agggaaaact cctgcgtgcg cctgccccca 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

ggctagcgtt tggactgttt tgtttttggc ggaactaccg ggcaggaaga ttgcacaagt cagggggcgt ttccaatcgg gtgtcaattt tggatctccc 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

cccccccacc cccctttgga tcttgtcggg ctttccacgt ttcacttaaa aaaaattctt gtaacgtcca aggcaagctc cccacgaccc gaacacgccc 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

agaggaacct tggggcctct ggggacttgg ctagcaggta ttcatgctag cctggaccat ttttcagatt tagccttcag aagaggatct gggaaagcct 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

ttggattata ctgaaactca ttcaagctcg agatggagaa aaaaatcact ggatatacca ccgttgatat atcccaatgg catcgtaaag aacattttga 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

ggcatttcag tcagttgctc aatgtaccta taaccagacc gttcagctgg atattacggc ctttttaaag accgtaaaga aaaataagca caagttttat 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

ccggccttta ttcacattct tgcccgcctg atgaatgctc atccggaatt ccgtatggca atgaaagacg gtgagctggt gatatgggat agtgttcacc 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

cttgttacac cgttttccat gagcaaactg aaacgttttc atcgctctgg agtgaatacc acgacgattt ccggcagttt ctacacatat attcgcaaga 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

tgtggcgtgt tacggtgaaa acctggccta tttccctaaa gggtttattg agaatatgtt tttcgtctca gccaatccct gggtgagttt caccagtttt 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

gatttaaacg tggccaatat ggacaacttc ttcgcccccg ttttcaccat gggcaaatat tatacgcaag gcgacaaggt gctgatgccg ctggcgattc 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

aggttcatca tgccgtctgt gatggcttcc atgtcggcag aatgcttaat gaattacaac agtactgcga tgagtggcag ggcggggcgt aattttttta 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

aggcagttat tggtgccctt aaacgcctgg tgctacgcct gaataagtga taataagcgg atgaatggca gaaattcgcc ggatctttgt gaaggaacct 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

tacttctgtg gtgtgacata attggacaaa ctacctacag agatttaaag ctctaaggta aatataaaat ttttaagtgt ataatgtgtt aaactactga 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

ttctaattgt ttgtgtattt tagattccaa cctatggaac tgatgaatgg gagcagtggt ggaatgcctt taatgaggaa aacctgtttt gctcagaaga 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

aatgccatct agtgatgatg aggctactgc tgactctcaa cattctactc ctccaaaaaa gaagagaaag gtagaagacc ccaaggactt tccttcagaa 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

ttgctaagtt ttttgagtca tgctgtgttt agtaatagaa ctcttgcttg ctttgctatt tacaccacaa aggaaaaagc tgcactgcta tacaagaaaa 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

ttatggaaaa atattctgta acctttataa gtaggcataa cagttataat cataacatac tgttttttct tactccacac aggcatagag tgtctgctat 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

taataactat gctcaaaaat tgtgtacctt tagcttttta atttgtaaag gggttaataa ggaatatttg atgtatagtg ccttgactag agatcataat 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

cagccatacc acatttgtag aggttttact tgctttaaaa aacctcccac acctccccct gaacctgaaa cataaaatga atgcaattgt tgttgttaac 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

ttgtttattg cagcttataa tggttacaaa taaagcaata gcatcacaaa tttcacaaat aaagcatttt tttcactgca ttctagttgt ggtttgtcca 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

aactcatcaa tgtatcttat catgtctgcc tagagggccc tattctatag tgtcacctaa atgctagagc tcgctgatca gcctcgactg tgccttctag 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

ttgccagcca tctgttgttt gcccctcccc cgtgccttcc ttgaccctgg aaggtgccac tcccactgtc ctttcctaat aa
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881

Credibility of mRNA sequence:

end-to-end_sequence_reverse_engineered_and_should_match_experiment

The name of the plasmid:
pbetaGAL/UtrA/CAT The name of the promoter used to express this mRNA:
CMV

Description of the plasmid (facultative for promoter-less plasmid records):
Plasmid containing the whole part of human Utrn 5' UTR (nt from -506 to nt -1 of the original sequence) inserted between beta galactosidase and chloramphenicol acetyltransferase reporter genes.

The in vivo produced transcripts are heterogeneous (due to any of promoter?/splicing?/cleavage?/breakage?):

no

The in vivo produced heterogeneous transcripts occur due to alternative splicing:

no

A promoter reported in cDNA corresponding to IRES sequence:

no

Summary of possible issues when IRES cDNA is experimentally transcribed in vivo:

Summary of experiments studying integrity of the in vivo transcripts in a particular host:

Integrity (uniformity) of mRNA tested using Northern-blot:
homogeneous_population_of_molecules_confirmed

Integrity (uniformity) of mRNA tested using RNase protection:
not_tested

Integrity (uniformity) of mRNA tested using 5'-RACE:
not_tested

Integrity (uniformity) of mRNA tested using primer extension :
not_tested

Integrity (uniformity) of mRNA tested using RT-PCR:
homogeneous_population_of_molecules_confirmed

Integrity (uniformity) of mRNA tested using real-time quantitative polymerase chain reaction (rtqPCR):
not_tested

Integrity (uniformity) of mRNA tested using RNAi:
not_tested

Integrity (uniformity) of mRNA tested using S1 nuclease mapping:
not_tested

Cryptic promoter presence was confirmed by expression from a promoter-less plasmid:
no_promoter_confirmed

Cryptic promoter presence was confirmed in an experimental setup involving inducible promoter:
not_tested

Integrity (uniformity) of mRNA molecules or possible promoter presence expressed in vivo was tested using another method, please specify in Remarks:
not_tested

The organism used:

Mus musculus C2C12

The abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
Utrn

The origin of IRES in the plasmid:

nuclear

The donor organism of the IRES segment:

Mus musculus C2C12

The DNA sequence of the plasmid in (+) orientation annotated by its secondary structure:

agcatttatc agggttattg tctcatgagc ggatacatat ttgaatgtat ttagaaaaat aaacaaatag gggttccgcg cacatttccc cgaaaagtgc 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

cacctgacgt cgacggatcg ggagatctcc cgatccccta tggtcgactc tcagtacaat ctgctctgat gccgcatagt taagccagta tctgctccct 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

gcttgtgtgt tggaggtcgc tgagtagtgc gcgagcaaaa tttaagctac aacaaggcaa ggcttgaccg acaattgcat gaagaatctg cttagggtta 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ggcgttttgc gctgcttcgc gatgtacggg ccagatatac gcgttgacat tgattattga ctagttatta atagtaatca attacggggt cattagttca 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

tagcccatat atggagttcc gcgttacata acttacggta aatggcccgc ctggctgacc gcccaacgac ccccgcccat tgacgtcaat aatgacgtat 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

gttcccatag taacgccaat agggactttc cattgacgtc aatgggtgga ctatttacgg taaactgccc acttggcagt acatcaagtg tatcatatgc 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

caagtacgcc ccctattgac gtcaatgacg gtaaatggcc cgcctggcat tatgcccagt acatgacctt atgggacttt cctacttggc agtacatcta 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

cgtattagtc atcgctatta ccatggtgat gcggttttgg cagtacatca atgggcgtgg atagcggttt gactcacggg gatttccaag tctccacccc 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

attgacgtca atgggagttt gttttggcac caaaatcaac gggactttcc aaaatgtcgt aacaactccg ccccattgac gcaaatgggc ggtaggcgtg 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

tacggtggga ggtctatata agcagagctc tctggctaac tagagaaccc actgcttact ggcttatcga aattaatacg actcactata gggagaccca 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

agcttggtac cgagctcgga tccactagta acggccgcca gtgtgctgga attctgcaga tatccatcac actggcggcc gcaattcccg gggatcgaaa 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

gagcctgcta aagcaaaaaa gaagtcacca tgtcgtttac tttgaccaac aagaacgtga ttttcgttgc cggtctggga ggcattggtc tggacaccag 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

caaggagctg ctcaagcgcg atcccgtcgt tttacaacgt cgtgactggg aaaaccctgg cgttacccaa cttaatcgcc ttgcagcaca tccccctttc 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

gccagctggc gtaatagcga agaggcccgc accgatcgcc cttcccaaca gttgcgcagc ctgaatggcg aatggcgctt tgcctggttt ccggcaccag 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

aagcggtgcc ggaaagctgg ctggagtgcg atcttcctga ggccgatact gtcgtcgtcc cctcaaactg gcagatgcac ggttacgatg cgcccatcta 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

caccaacgta acctatccca ttacggtcaa tccgccgttt gttcccacgg agaatccgac gggttgttac tcgctcacat ttaatgttga tgaaagctgg 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

ctacaggaag gccagacgcg aattattttt gatggcgtta actcggcgtt tcatctgtgg tgcaacgggc gctgggtcgg ttacggccag gacagtcgtt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

tgccgtctga atttgacctg agcgcatttt tacgcgccgg agaaaaccgc ctcgcggtga tggtgctgcg ttggagtgac ggcagttatc tggaagatca 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

ggatatgtgg cggatgagcg gcattttccg tgacgtctcg ttgctgcata aaccgactac acaaatcagc gatttccatg ttgccactcg ctttaatgat 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

gatttcagcc gcgctgtact ggaggctgaa gttcagatgt gcggcgagtt gcgtgactac ctacgggtaa cagtttcttt atggcagggt gaaacgcagg 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

tcgccagcgg caccgcgcct ttcggcggtg aaattatcga tgagcgtggt ggttatgccg atcgcgtcac actacgtctg aacgtcgaaa acccgaaact 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

gtggagcgcc gaaatcccga atctctatcg tgcggtggtt gaactgcaca ccgccgacgg cacgctgatt gaagcagaag cctgcgatgt cggtttccgc 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

gaggtgcgga ttgaaaatgg tctgctgctg ctgaacggca agccgttgct gattcgaggc gttaaccgtc acgagcatca tcctctgcat ggtcaggtca 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

tggatgagca gacgatggtg caggatatcc tgctgatgaa gcagaacaac tttaacgccg tgcgctgttc gcattatccg aaccatccgc tgtggtacac 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

gctgtgcgac cgctacggcc tgtatgtggt ggatgaagcc aatattgaaa cccacggcat ggtgccaatg aatcgtctga ccgatgatcc gcgctggcta 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

ccggcgatga gcgaacgcgt aacgcgaatg gtgcagcgcg atcgtaatca cccgagtgtg atcatctggt cgctggggaa tgaatcaggc cacggcgcta 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

atcacgacgc gctgtatcgc tggatcaaat ctgtcgatcc ttcccgcccg gtgcagtatg aaggcggcgg agccgacacc acggccaccg atattatttg 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

cccgatgtac gcgcgcgtgg atgaagacca gcccttcccg gctgtgccga aatggtccat caaaaaatgg ctttcgctac ctggagagac gcgcccgctg 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

atcctttgcg aatacgccca cgcgatgggt aacagtcttg gcggtttcgc taaatactgg caggcgtttc gtcagtatcc ccgtttacag ggcggcttcg 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

tctgggactg ggtggatcag tcgctgatta aatatgatga aaacggcaac ccgtggtcgg cttacggcgg tgattttggc gatacgccga acgatcgcca 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

gttctgtatg aacggtctgg tctttgccga ccgcacgccg catccagcgc tgacggaagc aaaacaccag cagcagtttt tccagttccg tttatccggg 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

caaaccatcg aagtgaccag cgaatacctg ttccgtcata gcgataacga gctcctgcac tggatggtgg cgctggatgg taagccgctg gcaagcggtg 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

aagtgcctct ggatgtcgct ccacaaggta aacagttgat tgaactgcct gaactaccgc agccggagag cgccgggcaa ctctggctca cagtacgcgt 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

agtgcaaccg aacgcgaccg catggtcaga agccgggcac atcagcgcct ggcagcagtg gcgtctggcg gaaaacctca gtgtgacgct ccccgccgcg 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

tcccacgcca tcccgcatct gaccaccagc gaaatggatt tttgcatcga gctgggtaat aagcgttggc aatttaaccg ccagtcaggc tttctttcac 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

agatgtggat tggcgataaa aaacaactgc tgacgccgct gcgcgatcag ttcacccgtg caccgctgga taacgacatt ggcgtaagtg aagcgacccg 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

cattgaccct aacgcctggg tcgaacgctg gaaggcggcg ggccattacc aggccgaagc agcgttgttg cagtgcacgg cagatacact tgctgatgcg 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

gtgctgatta cgaccgctca cgcgtggcag catcagggga aaaccttatt tatcagccgg aaaacctacc ggattgatgg tagtggtcaa atggcgatta 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

ccgttgatgt tgaagtggcg agcgatacac cgcatccggc gcggattggc ctgaactgcc agctggcgca ggtagcagag cgggtaaact ggctcggatt 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

agggccgcaa gaaaactatc ccgaccgcct tactgccgcc tgttttgacc gctgggatct gccattgtca gacatgtata ccccgtacgt cttcccgagc 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

gaaaacggtc tgcgctgcgg gacgcgcgaa ttgaattatg gcccacacca gtggcgcggc gacttccagt tcaacatcag ccgctacagt caacagcaac 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

tgatggaaac cagccatcgc catctgctgc acgcggaaga aggcacatgg ctgaatatcg acggtttcca tatggggatt ggtggcgacg actcctggag 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

cccgtcagta tcggcggaat tacagctgag cgccggtcgc taccattacc agttggtctg gtgtcaaaaa taataataac cgggcaggcc atgtctgccc 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

gtatttcgcg taaggaaatc cattatgtac tatttaaaaa acacaaactt ttggatgttc ggtttattct ttttctttta cttttttatc atgggagcct 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

acttcccgtt tttcccgatt tggctacatg acatcaacca tatcagcaaa agtgatacgg gtattatttt tgccgctatt tctctgttct cgctattatt 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

ccaaccgctg tttggtctgc tttctgacaa actcggcctc gactctaggc ggccgctcga gttgtggagt cgcccttccc ccgaggaggg gagcgggcag 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

cgccgggcgc gggatttctc ccgcccaggg ccgaggagga gccctgggct cctcaaccga tcgggccacc tccgggagcg gcgccccttt tctttcgggt 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

cattcctgca gagggaaaac tcctgcgtgc gcctgccccc aggctagcgt ttggactgtt ttgtttttgg cggaactacc gggcaggaag attgcacaag 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

tcagggggcg tttccaatcg ggtgtcaatt ttggatctcc ccccccccac ccccctttgg atcttgtcgg gctttccacg tttcacttaa aaaaaattct 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

tgtaacgtcc aaggcaagct ccccacgacc cgaacacgcc cagaggaacc ttggggcctc tggggacttg gctagcaggt attcatgcta gcctggacca 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

tttttcagat ttagccttca gaagaggatc tgggaaagcc tttggattat actgaaactc attcaagctc gagatggaga aaaaaatcac tggatatacc 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

accgttgata tatcccaatg gcatcgtaaa gaacattttg aggcatttca gtcagttgct caatgtacct ataaccagac cgttcagctg gatattacgg 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

cctttttaaa gaccgtaaag aaaaataagc acaagtttta tccggccttt attcacattc ttgcccgcct gatgaatgct catccggaat tccgtatggc 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

aatgaaagac ggtgagctgg tgatatggga tagtgttcac ccttgttaca ccgttttcca tgagcaaact gaaacgtttt catcgctctg gagtgaatac 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

cacgacgatt tccggcagtt tctacacata tattcgcaag atgtggcgtg ttacggtgaa aacctggcct atttccctaa agggtttatt gagaatatgt 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

ttttcgtctc agccaatccc tgggtgagtt tcaccagttt tgatttaaac gtggccaata tggacaactt cttcgccccc gttttcacca tgggcaaata 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

ttatacgcaa ggcgacaagg tgctgatgcc gctggcgatt caggttcatc atgccgtctg tgatggcttc catgtcggca gaatgcttaa tgaattacaa 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

cagtactgcg atgagtggca gggcggggcg taattttttt aaggcagtta ttggtgccct taaacgcctg gtgctacgcc tgaataagtg ataataagcg 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

gatgaatggc agaaattcgc cggatctttg tgaaggaacc ttacttctgt ggtgtgacat aattggacaa actacctaca gagatttaaa gctctaaggt 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

aaatataaaa tttttaagtg tataatgtgt taaactactg attctaattg tttgtgtatt ttagattcca acctatggaa ctgatgaatg ggagcagtgg 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

tggaatgcct ttaatgagga aaacctgttt tgctcagaag aaatgccatc tagtgatgat gaggctactg ctgactctca acattctact cctccaaaaa 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

agaagagaaa ggtagaagac cccaaggact ttccttcaga attgctaagt tttttgagtc atgctgtgtt tagtaataga actcttgctt gctttgctat 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

ttacaccaca aaggaaaaag ctgcactgct atacaagaaa attatggaaa aatattctgt aacctttata agtaggcata acagttataa tcataacata 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

ctgttttttc ttactccaca caggcataga gtgtctgcta ttaataacta tgctcaaaaa ttgtgtacct ttagcttttt aatttgtaaa ggggttaata 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

aggaatattt gatgtatagt gccttgacta gagatcataa tcagccatac cacatttgta gaggttttac ttgctttaaa aaacctccca cacctccccc 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

tgaacctgaa acataaaatg aatgcaattg ttgttgttaa cttgtttatt gcagcttata atggttacaa ataaagcaat agcatcacaa atttcacaaa 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

taaagcattt ttttcactgc attctagttg tggtttgtcc aaactcatca atgtatctta tcatgtctgc ctagagggcc ctattctata gtgtcaccta 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

aatgctagag ctcgctgatc agcctcgact gtgccttcta gttgccagcc atctgttgtt tgcccctccc ccgtgccttc cttgaccctg gaaggtgcca 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

ctcccactgt cctttcctaa taaaatgagg aaattgcatc gcattgtctg agtaggtgtc attctattct ggggggtggg gtggggcagg acagcaaggg 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

ggaggattgg gaagacaata gcaggcatgc tggggatgcg gtgggctcta tggcttctga ggcggaaaga accagctggg gctctagggg gtatccccac 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

gcgccctgta gcggcgcatt aagcgcggcg ggtgtggtgg ttacgcgcag cgtgaccgct acacttgcca gcgccctagc gcccgctcct ttcgctttct 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

tcccttcctt tctcgccacg ttcgccggct ttccccgtca agctctaaat cggggcatcc ctttagggtt ccgatttagt gctttacggc acctcgaccc 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

caaaaaactt gattagggtg atggttcacg tagtgggcca tcgccctgat agacggtttt tcgccctttg acgttggagt ccacgttctt taatagtgga 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

ctcttgttcc aaactggaac aacactcaac cctatctcgg tctattcttt tgatttataa gggattttgg ggatttcggc ctattggtta aaaaatgagc 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

tgatttaaca aaaatttaac gcgaattaat tctgtggaat gtgtgtcagt tagggtgtgg aaagtcccca ggctccccag gcaggcagaa gtatgcaaag 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

catgcatctc aattagtcag caaccaggtg tggaaagtcc ccaggctccc cagcaggcag aagtatgcaa agcatgcatc tcaattagtc agcaaccata 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

gtcccgcccc taactccgcc catcccgccc ctaactccgc ccagttccgc ccattctccg ccccatggct gactaatttt ttttatttat gcagaggccg 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

aggccgcctc tgcctctgag ctattccaga agtagtgagg aggctttttt ggaggcctag gcttttgcaa aaagctcccg ggagcttgta tatccatttt 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

cggatctgat caagagacag gatgaggatc gtttcgcatg attgaacaag atggattgca cgcaggttct ccggccgctt gggtggagag gctattcggc 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

tatgactggg cacaacagac aatcggctgc tctgatgccg ccgtgttccg gctgtcagcg caggggcgcc cggttctttt tgtcaagacc gacctgtccg 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

gtgccctgaa tgaactgcag gacgaggcag cgcggctatc gtggctggcc acgacgggcg ttccttgcgc agctgtgctc gacgttgtca ctgaagcggg 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

aagggactgg ctgctattgg gcgaagtgcc ggggcaggat ctcctgtcat ctcaccttgc tcctgccgag aaagtatcca tcatggctga tgcaatgcgg 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

cggctgcata cgcttgatcc ggctacctgc ccattcgacc accaagcgaa acatcgcatc gagcgagcac gtactcggat ggaagccggt cttgtcgatc 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

aggatgatct ggacgaagag catcaggggc tcgcgccagc cgaactgttc gccaggctca aggcgcgcat gcccgacggc gaggatctcg tcgtgaccca 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

tggcgatgcc tgcttgccga atatcatggt ggaaaatggc cgcttttctg gattcatcga ctgtggccgg ctgggtgtgg cggaccgcta tcaggacata 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

gcgttggcta cccgtgatat tgctgaagag cttggcggcg aatgggctga ccgcttcctc gtgctttacg gtatcgccgc tcccgattcg cagcgcatcg 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

ccttctatcg ccttcttgac gagttcttct gagcgggact ctggggttcg aaatgaccga ccaagcgacg cccaacctgc catcacgaga tttcgattcc 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

accgccgcct tctatgaaag gttgggcttc ggaatcgttt tccgggacgc cggctggatg atcctccagc gcggggatct catgctggag ttcttcgccc 
^8701      ^8711      ^8721      ^8731      ^8741      ^8751      ^8761      ^8771      ^8781      ^8791      

accccaactt gtttattgca gcttataatg gttacaaata aagcaatagc atcacaaatt tcacaaataa agcatttttt tcactgcatt ctagttgtgg 
^8801      ^8811      ^8821      ^8831      ^8841      ^8851      ^8861      ^8871      ^8881      ^8891      

tttgtccaaa ctcatcaatg tatcttatca tgtctgtata ccgtcgacct ctagctagag cttggcgtaa tcatggtcat agctgtttcc tgtgtgaaat 
^8901      ^8911      ^8921      ^8931      ^8941      ^8951      ^8961      ^8971      ^8981      ^8991      

tgttatccgc tcacaattcc acacaacata cgagccggaa gcataaagtg taaagcctgg ggtgcctaat gagtgagcta actcacatta attgcgttgc 
^9001      ^9011      ^9021      ^9031      ^9041      ^9051      ^9061      ^9071      ^9081      ^9091      

gctcactgcc cgctttccag tcgggaaacc tgtcgtgcca gctgcattaa tgaatcggcc aacgcgcggg gagaggcggt ttgcgtattg ggcgctcttc 
^9101      ^9111      ^9121      ^9131      ^9141      ^9151      ^9161      ^9171      ^9181      ^9191      

cgcttcctcg ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag cggtatcagc tcactcaaag gcggtaatac ggttatccac agaatcaggg 
^9201      ^9211      ^9221      ^9231      ^9241      ^9251      ^9261      ^9271      ^9281      ^9291      

gataacgcag gaaagaacat gtgagcaaaa ggccagcaaa aggccaggaa ccgtaaaaag gccgcgttgc tggcgttttt ccataggctc cgcccccctg 
^9301      ^9311      ^9321      ^9331      ^9341      ^9351      ^9361      ^9371      ^9381      ^9391      

acgagcatca caaaaatcga cgctcaagtc agaggtggcg aaacccgaca ggactataaa gataccaggc gtttccccct ggaagctccc tcgtgcgctc 
^9401      ^9411      ^9421      ^9431      ^9441      ^9451      ^9461      ^9471      ^9481      ^9491      

tcctgttccg accctgccgc ttaccggata cctgtccgcc tttctccctt cgggaagcgt ggcgctttct caatgctcac gctgtaggta tctcagttcg 
^9501      ^9511      ^9521      ^9531      ^9541      ^9551      ^9561      ^9571      ^9581      ^9591      

gtgtaggtcg ttcgctccaa gctgggctgt gtgcacgaac cccccgttca gcccgaccgc tgcgccttat ccggtaacta tcgtcttgag tccaacccgg 
^9601      ^9611      ^9621      ^9631      ^9641      ^9651      ^9661      ^9671      ^9681      ^9691      

taagacacga cttatcgcca ctggcagcag ccactggtaa caggattagc agagcgaggt atgtaggcgg tgctacagag ttcttgaagt ggtggcctaa 
^9701      ^9711      ^9721      ^9731      ^9741      ^9751      ^9761      ^9771      ^9781      ^9791      

ctacggctac actagaagga cagtatttgg tatctgcgct ctgctgaagc cagttacctt cggaaaaaga gttggtagct cttgatccgg caaacaaacc 
^9801      ^9811      ^9821      ^9831      ^9841      ^9851      ^9861      ^9871      ^9881      ^9891      

accgctggta gcggtggttt ttttgtttgc aagcagcaga ttacgcgcag aaaaaaagga tctcaagaag atcctttgat cttttctacg gggtctgacg 
^9901      ^9911      ^9921      ^9931      ^9941      ^9951      ^9961      ^9971      ^9981      ^9991      

ctcagtggaa cgaaaactca cgttaaggga ttttggtcat gagattatca aaaaggatct tcacctagat ccttttaaat taaaaatgaa gttttaaatc 
^10001     ^10011     ^10021     ^10031     ^10041     ^10051     ^10061     ^10071     ^10081     ^10091     

aatctaaagt atatatgagt aaacttggtc tgacagttac caatgcttaa tcagtgaggc acctatctca gcgatctgtc tatttcgttc atccatagtt 
^10101     ^10111     ^10121     ^10131     ^10141     ^10151     ^10161     ^10171     ^10181     ^10191     

gcctgactcc ccgtcgtgta gataactacg atacgggagg gcttaccatc tggccccagt gctgcaatga taccgcgaga cccacgctca ccggctccag 
^10201     ^10211     ^10221     ^10231     ^10241     ^10251     ^10261     ^10271     ^10281     ^10291     

atttatcagc aataaaccag ccagccggaa gggccgagcg cagaagtggt cctgcaactt tatccgcctc catccagtct attaattgtt gccgggaagc 
^10301     ^10311     ^10321     ^10331     ^10341     ^10351     ^10361     ^10371     ^10381     ^10391     

tagagtaagt agttcgccag ttaatagttt gcgcaacgtt gttgccattg ctacaggcat cgtggtgtca cgctcgtcgt ttggtatggc ttcattcagc 
^10401     ^10411     ^10421     ^10431     ^10441     ^10451     ^10461     ^10471     ^10481     ^10491     

tccggttccc aacgatcaag gcgagttaca tgatccccca tgttgtgcaa aaaagcggtt agctccttcg gtcctccgat cgttgtcaga agtaagttgg 
^10501     ^10511     ^10521     ^10531     ^10541     ^10551     ^10561     ^10571     ^10581     ^10591     

ccgcagtgtt atcactcatg gttatggcag cactgcataa ttctcttact gtcatgccat ccgtaagatg cttttctgtg actggtgagt actcaaccaa 
^10601     ^10611     ^10621     ^10631     ^10641     ^10651     ^10661     ^10671     ^10681     ^10691     

gtcattctga gaatagtgta tgcggcgacc gagttgctct tgcccggcgt caatacggga taataccgcg ccacatagca gaactttaaa agtgctcatc 
^10701     ^10711     ^10721     ^10731     ^10741     ^10751     ^10761     ^10771     ^10781     ^10791     

attggaaaac gttcttcggg gcgaaaactc tcaaggatct taccgctgtt gagatccagt tcgatgtaac ccactcgtgc acccaactga tcttcagcat 
^10801     ^10811     ^10821     ^10831     ^10841     ^10851     ^10861     ^10871     ^10881     ^10891     

cttttacttt caccagcgtt tctgggtgag caaaaacagg aaggcaaaat gccgcaaaaa agggaataag ggcgacacgg aaatgttgaa tactcatact 
^10901     ^10911     ^10921     ^10931     ^10941     ^10951     ^10961     ^10971     ^10981     ^10991     

cttccttttt caatattatt ga
^11001     ^11011     ^11021

GenBank formatted file with annotated plasmid sequence hyperlinked from vector image map:

The total number of notable open-reading frames (ORFs):

2

Notable Open-Reading Frames (ORFs; protein coding regions) in the mRNA/+RNA sequence:

ORF

ORF position:

1

Version: `0`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The abbreviated name of this ORF/gene:
lacZ

The description of the protein encoded in this ORF:
beta galactosidase

The translational frameshift (ribosome slippage) involved:
0 The ribosome read-through involved:
no

The alternative forms of this protein occur by the alternative initiation of translation:

no

The ORF absolute position (the base range includes START and STOP codons or their equivalents):

189-3332

ORF

ORF position:

2

Version: `0`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The abbreviated name of this ORF/gene:
CAT

The description of the protein encoded in this ORF:
chloramphenicol acetyl transferase

The translational frameshift (ribosome slippage) involved:
0 The ribosome read-through involved:
no

The alternative forms of this protein occur by the alternative initiation of translation:

no

The ORF absolute position (the base range includes START and STOP codons or their equivalents):

4133-4792

Citations:

Miura P., Thompson J., Chakkalakal J. V., Holcik M., Jasmin B. J. (2005) The utrophin A 5'-untranslated region confers internal ribosome entry site-mediated translational control during regeneration of skeletal muscle fibers. J. Biol. Chem. 280(38):32997-33005

IRESs:

IRES:

Version: `2`	Last change: `2009-09-02 23:43:01`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský
The IRES name: `UtrA`	The functional status of IRES: `functional`

The IRES absolute position (the range includes START and STOP codons or their equivalents):

3621-4126

How IRES boundaries were determined:
guessed

5'-end of IRES relative to last base of the STOP codon of the upstream ORF: `289`	3'-end of IRES relative to last base of the STOP codon of the upstream ORF: `794`
5'-end of IRES relative to first base of the START codon of the downstream ORF: `-512`	3'-end of IRES relative to first base of the START codon of the downstream ORF: `-7`

The sequence of IRES region aligned to its secondary structure (if available):

ttgtggagtc gcccttcccc cgaggagggg agcgggcagc gccgggcgcg ggatttctcc cgcccagggc cgaggaggag ccctgggctc ctcaaccgat 
^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      ^3701      ^3711      

cgggccacct ccgggagcgg cgcccctttt ctttcgggtc attcctgcag agggaaaact cctgcgtgcg cctgccccca ggctagcgtt tggactgttt 
^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      ^3801      ^3811      

tgtttttggc ggaactaccg ggcaggaaga ttgcacaagt cagggggcgt ttccaatcgg gtgtcaattt tggatctccc cccccccacc cccctttgga 
^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      ^3901      ^3911      

tcttgtcggg ctttccacgt ttcacttaaa aaaaattctt gtaacgtcca aggcaagctc cccacgaccc gaacacgccc agaggaacct tggggcctct 
^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      ^4001      ^4011      

ggggacttgg ctagcaggta ttcatgctag cctggaccat ttttcagatt tagccttcag aagaggatct gggaaagcct ttggattata ctgaaactca 
^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      ^4101      ^4111      

ttcaag
^4121

Remarks:

Whole 5'-UTR region of Utrn mRNA (from nt -506 to nt -1 of the original sequence).

Citations:

The translation experiments:

Translation results:

IRESite Translation Id: 296

Version: `4`	Last change: `2008-05-19 14:30:12`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The translation method used to study IRES function:
in vivo

The organism used for translation:

Mus musculus C2C12

The temperature (in degrees of Celsia):
37

The relative translation efficiency in % of this IRES:

14.900

Name of IRES used as the positive control:

XIAP

Name of the plasmid used as the positive control. `pbetaGAL/XIAP/CAT`	Name of the plasmid used as the negative control. `pbetaGAL/CAT`
`IRESite Id` of the plasmid used as positive control. `244`	`IRESite Id` of the plasmid used as negative control. `237`
The relative translation efficiency in % of the positive control: `100.000`	The relative translation efficiency in % of the negative control: `0.019`
The size (length) of intercistronic region in the positive control: `1335`	The size (length) of intercistronic region in the negative control: `336`

The effect of 5'-cap analogs on translation:
not tested

Rapamycin affects translation:
not tested

Type of RNA subject to translation:

exogenous_RNA_with_GpppG_cap_with_polyA_tail

Remarks:

Throughout the whole study Miura et al. used as a negative control vector pbetaGAL/CAT plasmid with 336 bp
spacer between LacZ and CAT reporter genes instead of 100 bp spacer plasmid variant listed in this article.

Citations:

Translation results:

IRESite Translation Id: 297

Version: `2`	Last change: `2006-10-26 00:00:00`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The translation method used to study IRES function:
in vivo

The organism used for translation:

Mus musculus C57BL/10

The temperature (in degrees of Celsia):
37

The relative translation efficiency in % of this IRES:

100.000

	Name of the plasmid used as the negative control. `pbetaGAL/UtrA/CAT`
	`IRESite Id` of the plasmid used as negative control. `238`
	The relative translation efficiency in % of the negative control: `0.100`
	The size (length) of intercistronic region in the negative control: `800`

The effect of 5'-cap analogs on translation:
not tested

Rapamycin affects translation:
not tested

Type of RNA subject to translation:

exogenous_RNA_with_GpppG_cap_with_polyA_tail

Remarks:

To examine the expression of the reporter constructs during muscle regeneration, plasmid was directly injected
in both regenerating and control TA muscles 3 days after cardiotoxin treatment.
Negative control - same plasmid (pbetaGAL/UtrA/CAT) in cardiotoxin-untreated C57BL/10 mice.

Citations:

Last change to the database: 2019-03-18 09:32:49 GMT+1