IRESite_Id:534 characteristics of c-IAP1_-353/-1 IRES studied in pHIAP2(870-1222)/CAT plasmid

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `534`	Version: `3`
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš	Last change: `2008-10-27 23:39:16`

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:
3UTR_possibly_incomplete

The mRNA/+RNA description:

Putative in vivo CMV promoter-derived transcript produced from monocistronic plasmid pHIAP2(870-1222)/CAT
which contains the part of human c-IAP1 5' UTR (nt from -353 to nt -1 of the original sequence) mRNA ahead of
chloramphenicol acetyltransferase reporter gene.
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 cctcgagcca cctttcaggg ctttaagtta gtattactca agattatgaa caaatagcac 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

ttaggttacc tgaaagagtt actacaaccc caaagagttg tgttctaagt agtatcttgg taattcagag agatactcat cctacctgaa tataaactga 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

gataaatcca gtaaagaaag tgtagtaaat tctacataag agtctatcat tgatttcttt ttgtggtaaa aatcttagtt catgtgaaga aatttcatgt 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

gaatgtttta gctatcaaac agtactgtca cctactcatg cacaaaactg cctcccaaag acttttccca ggtccctcgt atcaaaacat taagagtata 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ctcgagatgg agaaaaaaat cactggatat accaccgttg atatatccca atggcatcgt aaagaacatt ttgaggcatt tcagtcagtt gctcaatgta 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

cctataacca gaccgttcag ctggatatta cggccttttt aaagaccgta aagaaaaata agcacaagtt ttatccggcc tttattcaca ttcttgcccg 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

cctgatgaat gctcatccgg aattccgtat ggcaatgaaa gacggtgagc tggtgatatg ggatagtgtt cacccttgtt acaccgtttt ccatgagcaa 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

actgaaacgt tttcatcgct ctggagtgaa taccacgacg atttccggca gtttctacac atatattcgc aagatgtggc gtgttacggt gaaaacctgg 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

cctatttccc taaagggttt attgagaata tgtttttcgt ctcagccaat ccctgggtga gtttcaccag ttttgattta aacgtggcca atatggacaa 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

cttcttcgcc cccgttttca ccatgggcaa atattatacg caaggcgaca aggtgctgat gccgctggcg attcaggttc atcatgccgt ctgtgatggc 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

ttccatgtcg gcagaatgct taatgaatta caacagtact gcgatgagtg gcagggcggg gcgtaatttt tttaaggcag ttattggtgc ccttaaacgc 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

ctggtgctac gcctgaataa gtgataataa gcggatgaat ggcagaaatt cgccggatct ttgtgaagga accttacttc tgtggtgtga cataattgga 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

caaactacct acagagattt aaagctctaa ggtaaatata aaatttttaa gtgtataatg tgttaaacta ctgattctaa ttgtttgtgt attttagatt 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

ccaacctatg gaactgatga atgggagcag tggtggaatg cctttaatga ggaaaacctg ttttgctcag aagaaatgcc atctagtgat gatgaggcta 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

ctgctgactc tcaacattct actcctccaa aaaagaagag aaaggtagaa gaccccaagg actttccttc agaattgcta agttttttga gtcatgctgt 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

gtttagtaat agaactcttg cttgctttgc tatttacacc acaaaggaaa aagctgcact gctatacaag aaaattatgg aaaaatattc tgtaaccttt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

ataagtaggc ataacagtta taatcataac atactgtttt ttcttactcc acacaggcat agagtgtctg ctattaataa ctatgctcaa aaattgtgta 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

cctttagctt tttaatttgt aaaggggtta ataaggaata tttgatgtat agtgccttga ctagagatca taatcagcca taccacattt gtagaggttt 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

tacttgcttt aaaaaacctc ccacacctcc ccctgaacct gaaacataaa atgaatgcaa ttgttgttgt taacttgttt attgcagctt ataatggtta 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

caaataaagc aatagcatca caaatttcac aaataaagca tttttttcac tgcattctag ttgtggtttg tccaaactca tcaatgtatc ttatcatgtc 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

tgcctagagg gccctattct atagtgtcac ctaaatgcta gagctcgctg atcagcctcg actgtgcctt ctagttgcca gccatctgtt gtttgcccct 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

cccccgtgcc ttccttgacc ctggaaggtg ccactcccac tgtcctttcc taataa
^2201      ^2211      ^2221      ^2231      ^2241      ^2251

Credibility of mRNA sequence:

reverse_engineered_sequence_and_should_match_experiment_except_3UTR

The name of the plasmid:
pHIAP2(870-1222)/CAT The name of the promoter used to express this mRNA:
CMV

Aliases of the plasmid name:

Alias: HIAP2(870-1222)CAT

Description of the plasmid (facultative for promoter-less plasmid records):
Plasmid containing part of human c-IAP1 5' UTR (nt from -353 to nt -1 of the original sequence) ahead of chloramphenicol acetyl transferase reporter gene.

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

not tested

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

not tested

A promoter reported in cDNA corresponding to IRES sequence:

not tested

The abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
c-IAP1

The origin of IRES in the plasmid:

nuclear

The donor organism of the IRES segment:

Homo sapiens Jurkat

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

cggatacata tttgaatgta tttagaaaaa taaacaaata ggggttccgc gcacatttcc ccgaaaagtg ccacctgacg tcgacggatc gggagatctc 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

ccgatcccct atggtcgact ctcagtacaa tctgctctga tgccgcatag ttaagccagt atctgctccc tgcttgtgtg ttggaggtcg ctgagtagtg 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

cgcgagcaaa atttaagcta caacaaggca aggcttgacc gacaattgca tgaagaatct gcttagggtt aggcgttttg cgctgcttcg cgatgtacgg 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

gccagatata cgcgttgaca ttgattattg actagttatt aatagtaatc aattacgggg tcattagttc atagcccata tatggagttc cgcgttacat 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

aacttacggt aaatggcccg cctggctgac cgcccaacga cccccgccca ttgacgtcaa taatgacgta tgttcccata gtaacgccaa tagggacttt 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ccattgacgt caatgggtgg actatttacg gtaaactgcc cacttggcag tacatcaagt gtatcatatg ccaagtacgc cccctattga cgtcaatgac 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

ggtaaatggc ccgcctggca ttatgcccag tacatgacct tatgggactt tcctacttgg cagtacatct acgtattagt catcgctatt accatggtga 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

tgcggttttg gcagtacatc aatgggcgtg gatagcggtt tgactcacgg ggatttccaa gtctccaccc cattgacgtc aatgggagtt tgttttggca 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

ccaaaatcaa cgggactttc caaaatgtcg taacaactcc gccccattga cgcaaatggg cggtaggcgt gtacggtggg aggtctatat aagcagagct 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

ctctggctaa ctagagaacc cactgcttac tggcttatcg aaattaatac gactcactat agggagaccc aagcttggta ccgagctcgg atccactagt 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

aacggccgcc agtgtgctgg aattctgcag atatccatca cactggcggc cgcctcgagc cacctttcag ggctttaagt tagtattact caagattatg 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

aacaaatagc acttaggtta cctgaaagag ttactacaac cccaaagagt tgtgttctaa gtagtatctt ggtaattcag agagatactc atcctacctg 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

aatataaact gagataaatc cagtaaagaa agtgtagtaa attctacata agagtctatc attgatttct ttttgtggta aaaatcttag ttcatgtgaa 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

gaaatttcat gtgaatgttt tagctatcaa acagtactgt cacctactca tgcacaaaac tgcctcccaa agacttttcc caggtccctc gtatcaaaac 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

attaagagta tactcgagat ggagaaaaaa atcactggat ataccaccgt tgatatatcc caatggcatc gtaaagaaca ttttgaggca tttcagtcag 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

ttgctcaatg tacctataac cagaccgttc agctggatat tacggccttt ttaaagaccg taaagaaaaa taagcacaag ttttatccgg cctttattca 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

cattcttgcc cgcctgatga atgctcatcc ggaattccgt atggcaatga aagacggtga gctggtgata tgggatagtg ttcacccttg ttacaccgtt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

ttccatgagc aaactgaaac gttttcatcg ctctggagtg aataccacga cgatttccgg cagtttctac acatatattc gcaagatgtg gcgtgttacg 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

gtgaaaacct ggcctatttc cctaaagggt ttattgagaa tatgtttttc gtctcagcca atccctgggt gagtttcacc agttttgatt taaacgtggc 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

caatatggac aacttcttcg cccccgtttt caccatgggc aaatattata cgcaaggcga caaggtgctg atgccgctgg cgattcaggt tcatcatgcc 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

gtctgtgatg gcttccatgt cggcagaatg cttaatgaat tacaacagta ctgcgatgag tggcagggcg gggcgtaatt tttttaaggc agttattggt 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

gcccttaaac gcctggtgct acgcctgaat aagtgataat aagcggatga atggcagaaa ttcgccggat ctttgtgaag gaaccttact tctgtggtgt 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

gacataattg gacaaactac ctacagagat ttaaagctct aaggtaaata taaaattttt aagtgtataa tgtgttaaac tactgattct aattgtttgt 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

gtattttaga ttccaaccta tggaactgat gaatgggagc agtggtggaa tgcctttaat gaggaaaacc tgttttgctc agaagaaatg ccatctagtg 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

atgatgaggc tactgctgac tctcaacatt ctactcctcc aaaaaagaag agaaaggtag aagaccccaa ggactttcct tcagaattgc taagtttttt 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

gagtcatgct gtgtttagta atagaactct tgcttgcttt gctatttaca ccacaaagga aaaagctgca ctgctataca agaaaattat ggaaaaatat 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

tctgtaacct ttataagtag gcataacagt tataatcata acatactgtt ttttcttact ccacacaggc atagagtgtc tgctattaat aactatgctc 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

aaaaattgtg tacctttagc tttttaattt gtaaaggggt taataaggaa tatttgatgt atagtgcctt gactagagat cataatcagc cataccacat 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

ttgtagaggt tttacttgct ttaaaaaacc tcccacacct ccccctgaac ctgaaacata aaatgaatgc aattgttgtt gttaacttgt ttattgcagc 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

ttataatggt tacaaataaa gcaatagcat cacaaatttc acaaataaag catttttttc actgcattct agttgtggtt tgtccaaact catcaatgta 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

tcttatcatg tctgcctaga gggccctatt ctatagtgtc acctaaatgc tagagctcgc tgatcagcct cgactgtgcc ttctagttgc cagccatctg 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

ttgtttgccc ctcccccgtg ccttccttga ccctggaagg tgccactccc actgtccttt cctaataaaa tgaggaaatt gcatcgcatt gtctgagtag 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

gtgtcattct attctggggg gtggggtggg gcaggacagc aagggggagg attgggaaga caatagcagg catgctgggg atgcggtggg ctctatggct 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

tctgaggcgg aaagaaccag ctggggctct agggggtatc cccacgcgcc ctgtagcggc gcattaagcg cggcgggtgt ggtggttacg cgcagcgtga 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

ccgctacact tgccagcgcc ctagcgcccg ctcctttcgc tttcttccct tcctttctcg ccacgttcgc cggctttccc cgtcaagctc taaatcgggg 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

catcccttta gggttccgat ttagtgcttt acggcacctc gaccccaaaa aacttgatta gggtgatggt tcacgtagtg ggccatcgcc ctgatagacg 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

gtttttcgcc ctttgacgtt ggagtccacg ttctttaata gtggactctt gttccaaact ggaacaacac tcaaccctat ctcggtctat tcttttgatt 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

tataagggat tttggggatt tcggcctatt ggttaaaaaa tgagctgatt taacaaaaat ttaacgcgaa ttaattctgt ggaatgtgtg tcagttaggg 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

tgtggaaagt ccccaggctc cccaggcagg cagaagtatg caaagcatgc atctcaatta gtcagcaacc aggtgtggaa agtccccagg ctccccagca 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

ggcagaagta tgcaaagcat gcatctcaat tagtcagcaa ccatagtccc gcccctaact ccgcccatcc cgcccctaac tccgcccagt tccgcccatt 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

ctccgcccca tggctgacta atttttttta tttatgcaga ggccgaggcc gcctctgcct ctgagctatt ccagaagtag tgaggaggct tttttggagg 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

cctaggcttt tgcaaaaagc tcccgggagc ttgtatatcc attttcggat ctgatcaaga gacaggatga ggatcgtttc gcatgattga acaagatgga 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

ttgcacgcag gttctccggc cgcttgggtg gagaggctat tcggctatga ctgggcacaa cagacaatcg gctgctctga tgccgccgtg ttccggctgt 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

cagcgcaggg gcgcccggtt ctttttgtca agaccgacct gtccggtgcc ctgaatgaac tgcaggacga ggcagcgcgg ctatcgtggc tggccacgac 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

gggcgttcct tgcgcagctg tgctcgacgt tgtcactgaa gcgggaaggg actggctgct attgggcgaa gtgccggggc aggatctcct gtcatctcac 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

cttgctcctg ccgagaaagt atccatcatg gctgatgcaa tgcggcggct gcatacgctt gatccggcta cctgcccatt cgaccaccaa gcgaaacatc 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

gcatcgagcg agcacgtact cggatggaag ccggtcttgt cgatcaggat gatctggacg aagagcatca ggggctcgcg ccagccgaac tgttcgccag 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

gctcaaggcg cgcatgcccg acggcgagga tctcgtcgtg acccatggcg atgcctgctt gccgaatatc atggtggaaa atggccgctt ttctggattc 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

atcgactgtg gccggctggg tgtggcggac cgctatcagg acatagcgtt ggctacccgt gatattgctg aagagcttgg cggcgaatgg gctgaccgct 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

tcctcgtgct ttacggtatc gccgctcccg attcgcagcg catcgccttc tatcgccttc ttgacgagtt cttctgagcg ggactctggg gttcgaaatg 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

accgaccaag cgacgcccaa cctgccatca cgagatttcg attccaccgc cgccttctat gaaaggttgg gcttcggaat cgttttccgg gacgccggct 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

ggatgatcct ccagcgcggg gatctcatgc tggagttctt cgcccacccc aacttgttta ttgcagctta taatggttac aaataaagca atagcatcac 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

aaatttcaca aataaagcat ttttttcact gcattctagt tgtggtttgt ccaaactcat caatgtatct tatcatgtct gtataccgtc gacctctagc 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

tagagcttgg cgtaatcatg gtcatagctg tttcctgtgt gaaattgtta tccgctcaca attccacaca acatacgagc cggaagcata aagtgtaaag 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

cctggggtgc ctaatgagtg agctaactca cattaattgc gttgcgctca ctgcccgctt tccagtcggg aaacctgtcg tgccagctgc attaatgaat 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

cggccaacgc gcggggagag gcggtttgcg tattgggcgc tcttccgctt cctcgctcac tgactcgctg cgctcggtcg ttcggctgcg gcgagcggta 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

tcagctcact caaaggcggt aatacggtta tccacagaat caggggataa cgcaggaaag aacatgtgag caaaaggcca gcaaaaggcc aggaaccgta 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

aaaaggccgc gttgctggcg tttttccata ggctccgccc ccctgacgag catcacaaaa atcgacgctc aagtcagagg tggcgaaacc cgacaggact 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

ataaagatac caggcgtttc cccctggaag ctccctcgtg cgctctcctg ttccgaccct gccgcttacc ggatacctgt ccgcctttct cccttcggga 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

agcgtggcgc tttctcaatg ctcacgctgt aggtatctca gttcggtgta ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

accgctgcgc cttatccggt aactatcgtc ttgagtccaa cccggtaaga cacgacttat cgccactggc agcagccact ggtaacagga ttagcagagc 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

gaggtatgta ggcggtgcta cagagttctt gaagtggtgg cctaactacg gctacactag aaggacagta tttggtatct gcgctctgct gaagccagtt 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

accttcggaa aaagagttgg tagctcttga tccggcaaac aaaccaccgc tggtagcggt ggtttttttg tttgcaagca gcagattacg cgcagaaaaa 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

aaggatctca agaagatcct ttgatctttt ctacggggtc tgacgctcag tggaacgaaa actcacgtta agggattttg gtcatgagat tatcaaaaag 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

gatcttcacc tagatccttt taaattaaaa atgaagtttt aaatcaatct aaagtatata tgagtaaact tggtctgaca gttaccaatg cttaatcagt 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

gaggcaccta tctcagcgat ctgtctattt cgttcatcca tagttgcctg actccccgtc gtgtagataa ctacgatacg ggagggctta ccatctggcc 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

ccagtgctgc aatgataccg cgagacccac gctcaccggc tccagattta tcagcaataa accagccagc cggaagggcc gagcgcagaa gtggtcctgc 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

aactttatcc gcctccatcc agtctattaa ttgttgccgg gaagctagag taagtagttc gccagttaat agtttgcgca acgttgttgc cattgctaca 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

ggcatcgtgg tgtcacgctc gtcgtttggt atggcttcat tcagctccgg ttcccaacga tcaaggcgag ttacatgatc ccccatgttg tgcaaaaaag 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

cggttagctc cttcggtcct ccgatcgttg tcagaagtaa gttggccgca gtgttatcac tcatggttat ggcagcactg cataattctc ttactgtcat 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

gccatccgta agatgctttt ctgtgactgg tgagtactca accaagtcat tctgagaata gtgtatgcgg cgaccgagtt gctcttgccc ggcgtcaata 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

cgggataata ccgcgccaca tagcagaact ttaaaagtgc tcatcattgg aaaacgttct tcggggcgaa aactctcaag gatcttaccg ctgttgagat 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

ccagttcgat gtaacccact cgtgcaccca actgatcttc agcatctttt actttcacca gcgtttctgg gtgagcaaaa acaggaaggc aaaatgccgc 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

aaaaaaggga ataagggcga cacggaaatg ttgaatactc atactcttcc tttttcaata ttattgaagc atttatcagg gttattgtct catgag
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391

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

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

1

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

ORF

ORF position:

1

Version: `1`	Last change: `2008-10-27 23:39:16`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
CAT

The description of the protein encoded in this ORF:
chloramphenicol acetyltransferase

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:

not tested

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

507-1166

Citations:

Warnakulasuriyarachchi D., Ungureanu N. H., Holcik M. (2003) The translation of an antiapoptotic protein HIAP2 is regulated by an upstream open reading frame. Cell. Death. Differ. 10(8):899-904

IRESs:

IRES:

Version: `1`	Last change: `2008-10-23 12:47:01`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš
The IRES name: `c-IAP1_-353/-1`	The functional status of IRES: `functional`

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

148-500

How IRES boundaries were determined:
experimentally_determined

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

ccacctttca gggctttaag ttagtattac tcaagattat gaacaaatag cacttaggtt acctgaaaga gttactacaa ccccaaagag ttgtgttcta 
^148       ^158       ^168       ^178       ^188       ^198       ^208       ^218       ^228       ^238       

agtagtatct tggtaattca gagagatact catcctacct gaatataaac tgagataaat ccagtaaaga aagtgtagta aattctacat aagagtctat 
^248       ^258       ^268       ^278       ^288       ^298       ^308       ^318       ^328       ^338       

cattgatttc tttttgtggt aaaaatctta gttcatgtga agaaatttca tgtgaatgtt ttagctatca aacagtactg tcacctactc atgcacaaaa 
^348       ^358       ^368       ^378       ^388       ^398       ^408       ^418       ^428       ^438       

ctgcctccca aagacttttc ccaggtccct cgtatcaaaa cattaagagt ata
^448       ^458       ^468       ^478       ^488       ^498

Remarks:

c-IAP1_-353/-1 IRES represents part of the human c-IAP1 5' UTR (nt from -353 to nt -1).

Citations:

Warnakulasuriyarachchi D., Ungureanu N. H., Holcik M. (2003) The translation of an antiapoptotic protein HIAP2 is regulated by an upstream open reading frame. Cell. Death. Differ. 10(8):899-904

The translation experiments:

Translation results:

IRESite Translation Id: 582

Version: `3`	Last change: `2008-10-23 12:47:01`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš

The translation method used to study IRES function:
in vivo

The organism used for translation:

Homo sapiens HEK 293T (ATCC 293tsA1609neo)

The temperature (in degrees of Celsia):
37

The relative translation efficiency in % of this IRES:

1.000

Name of IRES used as the positive control:

XIAP

Name of the plasmid used as the positive control. `pXIAP(1-1076)/CAT`
The relative translation efficiency in % of the positive control: `100.000`

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

Rapamycin affects translation:
not tested

Type of RNA subject to translation:

endogenous_nuclear_RNA_Pol_II_transcript

Remarks:

The c-IAP1 5' UTR contains an upstream ORF (uORF) that prevents translation of the c-IAP1 ORF under normal
conditions (Warnakulasuriyarachchi et al., 2003) (this case of translation experiment).
Subsequent investigations revealed an IRES element at position -149 to position -1 in the c-IAP1 5' UTR that
mediates c-IAP1 translation following endoplasmic reticulum (ER) stress (treatment with etoposide or with
sodium arsenate (Van Eden et al., 2004) or treatment with thapsigargin (an inhibitor of ER calcium pump) or
tunicamycin (an inhibitor of protein glycosylation) (Warnakulasuriyarachchi et al., 2004)). Thus, expression
of c-IAP1 is regulated by a cap-independent translation initiation mechanism following cell stress. ER stress
causes cleavage of the eIF-4G family member p97/DAP5/NAT1 from its p97 form to a p86 form, and the p86 form
induces the activity of the c-IAP1 IRES resulting in an increase in c-IAP1 protein levels. However, direct
binding of the p86 form of p97/DAP5/NAT1 to c-IAP1 IRES RNA has not yet been demonstrated, and therefore p86
may exert its effect on c-IAP1 IRES activity either directly or via a downstream ITAF that interacts with the
c-IAP1 IRES.

Translational data are derived from Fig. 3A.

Citations:

Warnakulasuriyarachchi D., Ungureanu N. H., Holcik M. (2003) The translation of an antiapoptotic protein HIAP2 is regulated by an upstream open reading frame. Cell. Death. Differ. 10(8):899-904

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