IRESite_Id:532 characteristics of c-IAP1_-726/-1 IRES studied in pHIAP2(497-1222)/CAT plasmid

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `532`	Version: `3`
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš	Last change: `2008-10-27 23:43:00`

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_incomplete

The mRNA/+RNA description:

Putative in vivo CMV promoter-derived transcript produced from monocistronic plasmid pHIAP2(427-1222)/CAT
which contains the part of human c-IAP1 5' UTR (nt from -726 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 cctcgaggct tgtgggtatt gacttccccc aaaagttgtc agctgaagta atttagccca 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

cttaagtaaa tactatgatg ataagctgtg tgaacttagc ttttaaatag tgtgaccata tgaaggtttt aattactttt gtttattgga ataaaatgag 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

attttttggg ttgtcatgtt aaagtgctta tagggaaaga agcctgcata taatttttta ccttgtggca taatcagtaa ttggtctgtt attcaggctt 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

catagcttgt aaccaaatat aaataaaagg cataatttag gtattctata gttgcttaga attttgttaa tataaatctc tgtgaaaaat caaggagttt 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

taatattttc agaagtgcat ccacctttca gggctttaag ttagtattac tcaagattat gaacaaatag cacttaggtt acctgaaaga gttactacaa 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

ccccaaagag ttgtgttcta agtagtatct tggtaattca gagagatact catcctacct gaatataaac tgagataaat ccagtaaaga aagtgtagta 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

aattctacat aagagtctat cattgatttc tttttgtggt aaaaatctta gttcatgtga agaaatttca tgtgaatgtt ttagctatca aacagtactg 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

tcacctactc atgcacaaaa ctgcctccca aagacttttc ccaggtccct cgtatcaaaa cattaagagt atactcgaga tggagaaaaa aatcactgga 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

tataccaccg ttgatatatc ccaatggcat cgtaaagaac attttgaggc atttcagtca gttgctcaat gtacctataa ccagaccgtt cagctggata 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

ttacggcctt tttaaagacc gtaaagaaaa ataagcacaa gttttatccg gcctttattc acattcttgc ccgcctgatg aatgctcatc cggaattccg 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

tatggcaatg aaagacggtg agctggtgat atgggatagt gttcaccctt gttacaccgt tttccatgag caaactgaaa cgttttcatc gctctggagt 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

gaataccacg acgatttccg gcagtttcta cacatatatt cgcaagatgt ggcgtgttac ggtgaaaacc tggcctattt ccctaaaggg tttattgaga 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

atatgttttt cgtctcagcc aatccctggg tgagtttcac cagttttgat ttaaacgtgg ccaatatgga caacttcttc gcccccgttt tcaccatggg 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

caaatattat acgcaaggcg acaaggtgct gatgccgctg gcgattcagg ttcatcatgc cgtctgtgat ggcttccatg tcggcagaat gcttaatgaa 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

ttacaacagt actgcgatga gtggcagggc ggggcgtaat ttttttaagg cagttattgg tgcccttaaa cgcctggtgc tacgcctgaa taagtgataa 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

taagcggatg aatggcagaa attcgccgga tctttgtgaa ggaaccttac ttctgtggtg tgacataatt ggacaaacta cctacagaga tttaaagctc 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

taaggtaaat ataaaatttt taagtgtata atgtgttaaa ctactgattc taattgtttg tgtattttag attccaacct atggaactga tgaatgggag 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

cagtggtgga atgcctttaa tgaggaaaac ctgttttgct cagaagaaat gccatctagt gatgatgagg ctactgctga ctctcaacat tctactcctc 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

caaaaaagaa gagaaaggta gaagacccca aggactttcc ttcagaattg ctaagttttt tgagtcatgc tgtgtttagt aatagaactc ttgcttgctt 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

tgctatttac accacaaagg aaaaagctgc actgctatac aagaaaatta tggaaaaata ttctgtaacc tttataagta ggcataacag ttataatcat 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

aacatactgt tttttcttac tccacacagg catagagtgt ctgctattaa taactatgct caaaaattgt gtacctttag ctttttaatt tgtaaagggg 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

ttaataagga atatttgatg tatagtgcct tgactagaga tcataatcag ccataccaca tttgtagagg ttttacttgc tttaaaaaac ctcccacacc 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

tccccctgaa cctgaaacat aaaatgaatg caattgttgt tgttaacttg tttattgcag cttataatgg ttacaaataa agcaatagca tcacaaattt 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

cacaaataaa gcattttttt cactgcattc tagttgtggt ttgtccaaac tcatcaatgt atcttatcat gtctgcctag agggccctat tctatagtgt 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

cacctaaatg ctagagctcg ctgatcagcc tcgactgtgc cttctagttg ccagccatct gttgtttgcc cctcccccgt gccttccttg accctggaag 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

gtgccactcc cactgtcctt tcctaataa
^2601      ^2611      ^2621

Credibility of mRNA sequence:

reverse_engineered_sequence_and_should_match_experiment_maybe_except_3UTR

The name of the plasmid:
pHIAP2(497-1222)/CAT The name of the promoter used to express this mRNA:
CMV

Aliases of the plasmid name:

Alias: HIAP2(497-1222)CAT

Description of the plasmid (facultative for promoter-less plasmid records):
Plasmid containing part of human c-IAP1 5' UTR (nt from -726 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 cgcctcgagg cttgtgggta ttgacttccc ccaaaagttg tcagctgaag 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

taatttagcc cacttaagta aatactatga tgataagctg tgtgaactta gcttttaaat agtgtgacca tatgaaggtt ttaattactt ttgtttattg 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

gaataaaatg agattttttg ggttgtcatg ttaaagtgct tatagggaaa gaagcctgca tataattttt taccttgtgg cataatcagt aattggtctg 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

ttattcaggc ttcatagctt gtaaccaaat ataaataaaa ggcataattt aggtattcta tagttgctta gaattttgtt aatataaatc tctgtgaaaa 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

atcaaggagt tttaatattt tcagaagtgc atccaccttt cagggcttta agttagtatt actcaagatt atgaacaaat agcacttagg ttacctgaaa 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

gagttactac aaccccaaag agttgtgttc taagtagtat cttggtaatt cagagagata ctcatcctac ctgaatataa actgagataa atccagtaaa 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

gaaagtgtag taaattctac ataagagtct atcattgatt tctttttgtg gtaaaaatct tagttcatgt gaagaaattt catgtgaatg ttttagctat 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

caaacagtac tgtcacctac tcatgcacaa aactgcctcc caaagacttt tcccaggtcc ctcgtatcaa aacattaaga gtatactcga gatggagaaa 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

aaaatcactg gatataccac cgttgatata tcccaatggc atcgtaaaga acattttgag gcatttcagt cagttgctca atgtacctat aaccagaccg 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

ttcagctgga tattacggcc tttttaaaga ccgtaaagaa aaataagcac aagttttatc cggcctttat tcacattctt gcccgcctga tgaatgctca 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

tccggaattc cgtatggcaa tgaaagacgg tgagctggtg atatgggata gtgttcaccc ttgttacacc gttttccatg agcaaactga aacgttttca 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

tcgctctgga gtgaatacca cgacgatttc cggcagtttc tacacatata ttcgcaagat gtggcgtgtt acggtgaaaa cctggcctat ttccctaaag 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

ggtttattga gaatatgttt ttcgtctcag ccaatccctg ggtgagtttc accagttttg atttaaacgt ggccaatatg gacaacttct tcgcccccgt 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

tttcaccatg ggcaaatatt atacgcaagg cgacaaggtg ctgatgccgc tggcgattca ggttcatcat gccgtctgtg atggcttcca tgtcggcaga 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

atgcttaatg aattacaaca gtactgcgat gagtggcagg gcggggcgta atttttttaa ggcagttatt ggtgccctta aacgcctggt gctacgcctg 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

aataagtgat aataagcgga tgaatggcag aaattcgccg gatctttgtg aaggaacctt acttctgtgg tgtgacataa ttggacaaac tacctacaga 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

gatttaaagc tctaaggtaa atataaaatt tttaagtgta taatgtgtta aactactgat tctaattgtt tgtgtatttt agattccaac ctatggaact 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

gatgaatggg agcagtggtg gaatgccttt aatgaggaaa acctgttttg ctcagaagaa atgccatcta gtgatgatga ggctactgct gactctcaac 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

attctactcc tccaaaaaag aagagaaagg tagaagaccc caaggacttt ccttcagaat tgctaagttt tttgagtcat gctgtgttta gtaatagaac 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

tcttgcttgc tttgctattt acaccacaaa ggaaaaagct gcactgctat acaagaaaat tatggaaaaa tattctgtaa cctttataag taggcataac 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

agttataatc ataacatact gttttttctt actccacaca ggcatagagt gtctgctatt aataactatg ctcaaaaatt gtgtaccttt agctttttaa 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

tttgtaaagg ggttaataag gaatatttga tgtatagtgc cttgactaga gatcataatc agccatacca catttgtaga ggttttactt gctttaaaaa 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

acctcccaca cctccccctg aacctgaaac ataaaatgaa tgcaattgtt gttgttaact tgtttattgc agcttataat ggttacaaat aaagcaatag 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

catcacaaat ttcacaaata aagcattttt ttcactgcat tctagttgtg gtttgtccaa actcatcaat gtatcttatc atgtctgcct agagggccct 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

attctatagt gtcacctaaa tgctagagct cgctgatcag cctcgactgt gccttctagt tgccagccat ctgttgtttg cccctccccc gtgccttcct 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

tgaccctgga aggtgccact cccactgtcc tttcctaata aaatgaggaa attgcatcgc attgtctgag taggtgtcat tctattctgg ggggtggggt 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

ggggcaggac agcaaggggg aggattggga agacaatagc aggcatgctg gggatgcggt gggctctatg gcttctgagg cggaaagaac cagctggggc 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

tctagggggt atccccacgc gccctgtagc ggcgcattaa gcgcggcggg tgtggtggtt acgcgcagcg tgaccgctac acttgccagc gccctagcgc 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

ccgctccttt cgctttcttc ccttcctttc tcgccacgtt cgccggcttt ccccgtcaag ctctaaatcg gggcatccct ttagggttcc gatttagtgc 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

tttacggcac ctcgacccca aaaaacttga ttagggtgat ggttcacgta gtgggccatc gccctgatag acggtttttc gccctttgac gttggagtcc 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

acgttcttta atagtggact cttgttccaa actggaacaa cactcaaccc tatctcggtc tattcttttg atttataagg gattttgggg atttcggcct 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

attggttaaa aaatgagctg atttaacaaa aatttaacgc gaattaattc tgtggaatgt gtgtcagtta gggtgtggaa agtccccagg ctccccaggc 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

aggcagaagt atgcaaagca tgcatctcaa ttagtcagca accaggtgtg gaaagtcccc aggctcccca gcaggcagaa gtatgcaaag catgcatctc 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

aattagtcag caaccatagt cccgccccta actccgccca tcccgcccct aactccgccc agttccgccc attctccgcc ccatggctga ctaatttttt 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

ttatttatgc agaggccgag gccgcctctg cctctgagct attccagaag tagtgaggag gcttttttgg aggcctaggc ttttgcaaaa agctcccggg 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

agcttgtata tccattttcg gatctgatca agagacagga tgaggatcgt ttcgcatgat tgaacaagat ggattgcacg caggttctcc ggccgcttgg 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

gtggagaggc tattcggcta tgactgggca caacagacaa tcggctgctc tgatgccgcc gtgttccggc tgtcagcgca ggggcgcccg gttctttttg 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

tcaagaccga cctgtccggt gccctgaatg aactgcagga cgaggcagcg cggctatcgt ggctggccac gacgggcgtt ccttgcgcag ctgtgctcga 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

cgttgtcact gaagcgggaa gggactggct gctattgggc gaagtgccgg ggcaggatct cctgtcatct caccttgctc ctgccgagaa agtatccatc 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

atggctgatg caatgcggcg gctgcatacg cttgatccgg ctacctgccc attcgaccac caagcgaaac atcgcatcga gcgagcacgt actcggatgg 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

aagccggtct tgtcgatcag gatgatctgg acgaagagca tcaggggctc gcgccagccg aactgttcgc caggctcaag gcgcgcatgc ccgacggcga 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

ggatctcgtc gtgacccatg gcgatgcctg cttgccgaat atcatggtgg aaaatggccg cttttctgga ttcatcgact gtggccggct gggtgtggcg 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

gaccgctatc aggacatagc gttggctacc cgtgatattg ctgaagagct tggcggcgaa tgggctgacc gcttcctcgt gctttacggt atcgccgctc 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

ccgattcgca gcgcatcgcc ttctatcgcc ttcttgacga gttcttctga gcgggactct ggggttcgaa atgaccgacc aagcgacgcc caacctgcca 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

tcacgagatt tcgattccac cgccgccttc tatgaaaggt tgggcttcgg aatcgttttc cgggacgccg gctggatgat cctccagcgc ggggatctca 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

tgctggagtt cttcgcccac cccaacttgt ttattgcagc ttataatggt tacaaataaa gcaatagcat cacaaatttc acaaataaag catttttttc 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

actgcattct agttgtggtt tgtccaaact catcaatgta tcttatcatg tctgtatacc gtcgacctct agctagagct tggcgtaatc atggtcatag 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

ctgtttcctg tgtgaaattg ttatccgctc acaattccac acaacatacg agccggaagc ataaagtgta aagcctgggg tgcctaatga gtgagctaac 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

tcacattaat tgcgttgcgc tcactgcccg ctttccagtc gggaaacctg tcgtgccagc tgcattaatg aatcggccaa cgcgcgggga gaggcggttt 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

gcgtattggg cgctcttccg cttcctcgct cactgactcg ctgcgctcgg tcgttcggct gcggcgagcg gtatcagctc actcaaaggc ggtaatacgg 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

ttatccacag aatcagggga taacgcagga aagaacatgt gagcaaaagg ccagcaaaag gccaggaacc gtaaaaaggc cgcgttgctg gcgtttttcc 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

ataggctccg cccccctgac gagcatcaca aaaatcgacg ctcaagtcag aggtggcgaa acccgacagg actataaaga taccaggcgt ttccccctgg 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

aagctccctc gtgcgctctc ctgttccgac cctgccgctt accggatacc tgtccgcctt tctcccttcg ggaagcgtgg cgctttctca atgctcacgc 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

tgtaggtatc tcagttcggt gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc cccgttcagc ccgaccgctg cgccttatcc ggtaactatc 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

gtcttgagtc caacccggta agacacgact tatcgccact ggcagcagcc actggtaaca ggattagcag agcgaggtat gtaggcggtg ctacagagtt 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

cttgaagtgg tggcctaact acggctacac tagaaggaca gtatttggta tctgcgctct gctgaagcca gttaccttcg gaaaaagagt tggtagctct 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

tgatccggca aacaaaccac cgctggtagc ggtggttttt ttgtttgcaa gcagcagatt acgcgcagaa aaaaaggatc tcaagaagat cctttgatct 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

tttctacggg gtctgacgct cagtggaacg aaaactcacg ttaagggatt ttggtcatga gattatcaaa aaggatcttc acctagatcc ttttaaatta 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

aaaatgaagt tttaaatcaa tctaaagtat atatgagtaa acttggtctg acagttacca atgcttaatc agtgaggcac ctatctcagc gatctgtcta 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

tttcgttcat ccatagttgc ctgactcccc gtcgtgtaga taactacgat acgggagggc ttaccatctg gccccagtgc tgcaatgata ccgcgagacc 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

cacgctcacc ggctccagat ttatcagcaa taaaccagcc agccggaagg gccgagcgca gaagtggtcc tgcaacttta tccgcctcca tccagtctat 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

taattgttgc cgggaagcta gagtaagtag ttcgccagtt aatagtttgc gcaacgttgt tgccattgct acaggcatcg tggtgtcacg ctcgtcgttt 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

ggtatggctt cattcagctc cggttcccaa cgatcaaggc gagttacatg atcccccatg ttgtgcaaaa aagcggttag ctccttcggt cctccgatcg 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

ttgtcagaag taagttggcc gcagtgttat cactcatggt tatggcagca ctgcataatt ctcttactgt catgccatcc gtaagatgct tttctgtgac 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

tggtgagtac tcaaccaagt cattctgaga atagtgtatg cggcgaccga gttgctcttg cccggcgtca atacgggata ataccgcgcc acatagcaga 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

actttaaaag tgctcatcat tggaaaacgt tcttcggggc gaaaactctc aaggatctta ccgctgttga gatccagttc gatgtaaccc actcgtgcac 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

ccaactgatc ttcagcatct tttactttca ccagcgtttc tgggtgagca aaaacaggaa ggcaaaatgc cgcaaaaaag ggaataaggg cgacacggaa 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

atgttgaata ctcatactct tcctttttca atattattga agcatttatc agggttattg tctcatgag
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761

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 23:43:00`
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):

880-1539

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 12:51:41`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš
The IRES name: `c-IAP1_-726/-1`	The functional status of IRES: `functional`

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

148-873

How IRES boundaries were determined:
experimentally_determined

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

gcttgtgggt attgacttcc cccaaaagtt gtcagctgaa gtaatttagc ccacttaagt aaatactatg atgataagct gtgtgaactt agcttttaaa 
^148       ^158       ^168       ^178       ^188       ^198       ^208       ^218       ^228       ^238       

tagtgtgacc atatgaaggt tttaattact tttgtttatt ggaataaaat gagatttttt gggttgtcat gttaaagtgc ttatagggaa agaagcctgc 
^248       ^258       ^268       ^278       ^288       ^298       ^308       ^318       ^328       ^338       

atataatttt ttaccttgtg gcataatcag taattggtct gttattcagg cttcatagct tgtaaccaaa tataaataaa aggcataatt taggtattct 
^348       ^358       ^368       ^378       ^388       ^398       ^408       ^418       ^428       ^438       

atagttgctt agaattttgt taatataaat ctctgtgaaa aatcaaggag ttttaatatt ttcagaagtg catccacctt tcagggcttt aagttagtat 
^448       ^458       ^468       ^478       ^488       ^498       ^508       ^518       ^528       ^538       

tactcaagat tatgaacaaa tagcacttag gttacctgaa agagttacta caaccccaaa gagttgtgtt ctaagtagta tcttggtaat tcagagagat 
^548       ^558       ^568       ^578       ^588       ^598       ^608       ^618       ^628       ^638       

actcatccta cctgaatata aactgagata aatccagtaa agaaagtgta gtaaattcta cataagagtc tatcattgat ttctttttgt ggtaaaaatc 
^648       ^658       ^668       ^678       ^688       ^698       ^708       ^718       ^728       ^738       

ttagttcatg tgaagaaatt tcatgtgaat gttttagcta tcaaacagta ctgtcaccta ctcatgcaca aaactgcctc ccaaagactt ttcccaggtc 
^748       ^758       ^768       ^778       ^788       ^798       ^808       ^818       ^828       ^838       

cctcgtatca aaacattaag agtata
^848       ^858       ^868

Remarks:

c-IAP1_-726/-1 IRES represents part of the human c-IAP1 5' UTR (nt from -726 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: 580

Version: `3`	Last change: `2008-10-23 12:51:41`
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