IRESite_Id:533 characteristics of c-IAP1_-603/-1 IRES studied in pHIAP2(620-1222)/CAT plasmid

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `533`	Version: `3`
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš	Last change: `2008-10-27 23:41:09`

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(620-1222)/CAT
which contains the part of human c-IAP1 5' UTR (nt from -603 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 cctcgagaat tacttttgtt tattggaata aaatgagatt ttttgggttg tcatgttaaa 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

gtgcttatag ggaaagaagc ctgcatataa ttttttacct tgtggcataa tcagtaattg gtctgttatt caggcttcat agcttgtaac caaatataaa 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

taaaaggcat aatttaggta ttctatagtt gcttagaatt ttgttaatat aaatctctgt gaaaaatcaa ggagttttaa tattttcaga agtgcatcca 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

cctttcaggg ctttaagtta gtattactca agattatgaa caaatagcac ttaggttacc tgaaagagtt actacaaccc caaagagttg tgttctaagt 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

agtatcttgg taattcagag agatactcat cctacctgaa tataaactga gataaatcca gtaaagaaag tgtagtaaat tctacataag agtctatcat 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

tgatttcttt ttgtggtaaa aatcttagtt catgtgaaga aatttcatgt gaatgtttta gctatcaaac agtactgtca cctactcatg cacaaaactg 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

cctcccaaag acttttccca ggtccctcgt atcaaaacat taagagtata ctcgagatgg agaaaaaaat cactggatat accaccgttg atatatccca 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

atggcatcgt aaagaacatt ttgaggcatt tcagtcagtt gctcaatgta cctataacca gaccgttcag ctggatatta cggccttttt aaagaccgta 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

aagaaaaata agcacaagtt ttatccggcc tttattcaca ttcttgcccg cctgatgaat gctcatccgg aattccgtat ggcaatgaaa gacggtgagc 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

tggtgatatg ggatagtgtt cacccttgtt acaccgtttt ccatgagcaa actgaaacgt tttcatcgct ctggagtgaa taccacgacg atttccggca 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

gtttctacac atatattcgc aagatgtggc gtgttacggt gaaaacctgg cctatttccc taaagggttt attgagaata tgtttttcgt ctcagccaat 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

ccctgggtga gtttcaccag ttttgattta aacgtggcca atatggacaa cttcttcgcc cccgttttca ccatgggcaa atattatacg caaggcgaca 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

aggtgctgat gccgctggcg attcaggttc atcatgccgt ctgtgatggc ttccatgtcg gcagaatgct taatgaatta caacagtact gcgatgagtg 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

gcagggcggg gcgtaatttt tttaaggcag ttattggtgc ccttaaacgc ctggtgctac gcctgaataa gtgataataa gcggatgaat ggcagaaatt 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

cgccggatct ttgtgaagga accttacttc tgtggtgtga cataattgga caaactacct acagagattt aaagctctaa ggtaaatata aaatttttaa 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

gtgtataatg tgttaaacta ctgattctaa ttgtttgtgt attttagatt ccaacctatg gaactgatga atgggagcag tggtggaatg cctttaatga 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

ggaaaacctg ttttgctcag aagaaatgcc atctagtgat gatgaggcta ctgctgactc tcaacattct actcctccaa aaaagaagag aaaggtagaa 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

gaccccaagg actttccttc agaattgcta agttttttga gtcatgctgt gtttagtaat agaactcttg cttgctttgc tatttacacc acaaaggaaa 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

aagctgcact gctatacaag aaaattatgg aaaaatattc tgtaaccttt ataagtaggc ataacagtta taatcataac atactgtttt ttcttactcc 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

acacaggcat agagtgtctg ctattaataa ctatgctcaa aaattgtgta cctttagctt tttaatttgt aaaggggtta ataaggaata tttgatgtat 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

agtgccttga ctagagatca taatcagcca taccacattt gtagaggttt tacttgcttt aaaaaacctc ccacacctcc ccctgaacct gaaacataaa 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

atgaatgcaa ttgttgttgt taacttgttt attgcagctt ataatggtta caaataaagc aatagcatca caaatttcac aaataaagca tttttttcac 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

tgcattctag ttgtggtttg tccaaactca tcaatgtatc ttatcatgtc tgcctagagg gccctattct atagtgtcac ctaaatgcta gagctcgctg 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

atcagcctcg actgtgcctt ctagttgcca gccatctgtt gtttgcccct cccccgtgcc ttccttgacc ctggaaggtg ccactcccac tgtcctttcc 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

taataa
^2501

Credibility of mRNA sequence:

reverse_engineered_sequence_and_should_match_experiment_except_3UTR

The name of the plasmid:
pHIAP2(620-1222)/CAT The name of the promoter used to express this mRNA:
CMV

Aliases of the plasmid name:

Alias: HIAP2(620-1222)CAT

Description of the plasmid (facultative for promoter-less plasmid records):
Plasmid containing part of human c-IAP1 5' UTR (nt from -603 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 cgcctcgaga attacttttg tttattggaa taaaatgaga ttttttgggt 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

tgtcatgtta aagtgcttat agggaaagaa gcctgcatat aattttttac cttgtggcat aatcagtaat tggtctgtta ttcaggcttc atagcttgta 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

accaaatata aataaaaggc ataatttagg tattctatag ttgcttagaa ttttgttaat ataaatctct gtgaaaaatc aaggagtttt aatattttca 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

gaagtgcatc cacctttcag ggctttaagt tagtattact caagattatg aacaaatagc acttaggtta cctgaaagag ttactacaac cccaaagagt 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

tgtgttctaa gtagtatctt ggtaattcag agagatactc atcctacctg aatataaact gagataaatc cagtaaagaa agtgtagtaa attctacata 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

agagtctatc attgatttct ttttgtggta aaaatcttag ttcatgtgaa gaaatttcat gtgaatgttt tagctatcaa acagtactgt cacctactca 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

tgcacaaaac tgcctcccaa agacttttcc caggtccctc gtatcaaaac attaagagta tactcgagat ggagaaaaaa atcactggat ataccaccgt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

tgatatatcc caatggcatc gtaaagaaca ttttgaggca tttcagtcag ttgctcaatg tacctataac cagaccgttc agctggatat tacggccttt 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

ttaaagaccg taaagaaaaa taagcacaag ttttatccgg cctttattca cattcttgcc cgcctgatga atgctcatcc ggaattccgt atggcaatga 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

aagacggtga gctggtgata tgggatagtg ttcacccttg ttacaccgtt ttccatgagc aaactgaaac gttttcatcg ctctggagtg aataccacga 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

cgatttccgg cagtttctac acatatattc gcaagatgtg gcgtgttacg gtgaaaacct ggcctatttc cctaaagggt ttattgagaa tatgtttttc 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

gtctcagcca atccctgggt gagtttcacc agttttgatt taaacgtggc caatatggac aacttcttcg cccccgtttt caccatgggc aaatattata 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

cgcaaggcga caaggtgctg atgccgctgg cgattcaggt tcatcatgcc gtctgtgatg gcttccatgt cggcagaatg cttaatgaat tacaacagta 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

ctgcgatgag tggcagggcg gggcgtaatt tttttaaggc agttattggt gcccttaaac gcctggtgct acgcctgaat aagtgataat aagcggatga 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

atggcagaaa ttcgccggat ctttgtgaag gaaccttact tctgtggtgt gacataattg gacaaactac ctacagagat ttaaagctct aaggtaaata 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

taaaattttt aagtgtataa tgtgttaaac tactgattct aattgtttgt gtattttaga ttccaaccta tggaactgat gaatgggagc agtggtggaa 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

tgcctttaat gaggaaaacc tgttttgctc agaagaaatg ccatctagtg atgatgaggc tactgctgac tctcaacatt ctactcctcc aaaaaagaag 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

agaaaggtag aagaccccaa ggactttcct tcagaattgc taagtttttt gagtcatgct gtgtttagta atagaactct tgcttgcttt gctatttaca 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

ccacaaagga aaaagctgca ctgctataca agaaaattat ggaaaaatat tctgtaacct ttataagtag gcataacagt tataatcata acatactgtt 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

ttttcttact ccacacaggc atagagtgtc tgctattaat aactatgctc aaaaattgtg tacctttagc tttttaattt gtaaaggggt taataaggaa 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

tatttgatgt atagtgcctt gactagagat cataatcagc cataccacat ttgtagaggt tttacttgct ttaaaaaacc tcccacacct ccccctgaac 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

ctgaaacata aaatgaatgc aattgttgtt gttaacttgt ttattgcagc ttataatggt tacaaataaa gcaatagcat cacaaatttc acaaataaag 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

catttttttc actgcattct agttgtggtt tgtccaaact catcaatgta tcttatcatg tctgcctaga gggccctatt ctatagtgtc acctaaatgc 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

tagagctcgc tgatcagcct cgactgtgcc ttctagttgc cagccatctg ttgtttgccc ctcccccgtg ccttccttga ccctggaagg tgccactccc 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

actgtccttt cctaataaaa tgaggaaatt gcatcgcatt gtctgagtag gtgtcattct attctggggg gtggggtggg gcaggacagc aagggggagg 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

attgggaaga caatagcagg catgctgggg atgcggtggg ctctatggct tctgaggcgg aaagaaccag ctggggctct agggggtatc cccacgcgcc 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

ctgtagcggc gcattaagcg cggcgggtgt ggtggttacg cgcagcgtga ccgctacact tgccagcgcc ctagcgcccg ctcctttcgc tttcttccct 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

tcctttctcg ccacgttcgc cggctttccc cgtcaagctc taaatcgggg catcccttta gggttccgat ttagtgcttt acggcacctc gaccccaaaa 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

aacttgatta gggtgatggt tcacgtagtg ggccatcgcc ctgatagacg gtttttcgcc ctttgacgtt ggagtccacg ttctttaata gtggactctt 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

gttccaaact ggaacaacac tcaaccctat ctcggtctat tcttttgatt tataagggat tttggggatt tcggcctatt ggttaaaaaa tgagctgatt 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

taacaaaaat ttaacgcgaa ttaattctgt ggaatgtgtg tcagttaggg tgtggaaagt ccccaggctc cccaggcagg cagaagtatg caaagcatgc 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

atctcaatta gtcagcaacc aggtgtggaa agtccccagg ctccccagca ggcagaagta tgcaaagcat gcatctcaat tagtcagcaa ccatagtccc 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

gcccctaact ccgcccatcc cgcccctaac tccgcccagt tccgcccatt ctccgcccca tggctgacta atttttttta tttatgcaga ggccgaggcc 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

gcctctgcct ctgagctatt ccagaagtag tgaggaggct tttttggagg cctaggcttt tgcaaaaagc tcccgggagc ttgtatatcc attttcggat 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

ctgatcaaga gacaggatga ggatcgtttc gcatgattga acaagatgga ttgcacgcag gttctccggc cgcttgggtg gagaggctat tcggctatga 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

ctgggcacaa cagacaatcg gctgctctga tgccgccgtg ttccggctgt cagcgcaggg gcgcccggtt ctttttgtca agaccgacct gtccggtgcc 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

ctgaatgaac tgcaggacga ggcagcgcgg ctatcgtggc tggccacgac gggcgttcct tgcgcagctg tgctcgacgt tgtcactgaa gcgggaaggg 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

actggctgct attgggcgaa gtgccggggc aggatctcct gtcatctcac cttgctcctg ccgagaaagt atccatcatg gctgatgcaa tgcggcggct 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

gcatacgctt gatccggcta cctgcccatt cgaccaccaa gcgaaacatc gcatcgagcg agcacgtact cggatggaag ccggtcttgt cgatcaggat 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

gatctggacg aagagcatca ggggctcgcg ccagccgaac tgttcgccag gctcaaggcg cgcatgcccg acggcgagga tctcgtcgtg acccatggcg 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

atgcctgctt gccgaatatc atggtggaaa atggccgctt ttctggattc atcgactgtg gccggctggg tgtggcggac cgctatcagg acatagcgtt 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

ggctacccgt gatattgctg aagagcttgg cggcgaatgg gctgaccgct tcctcgtgct ttacggtatc gccgctcccg attcgcagcg catcgccttc 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

tatcgccttc ttgacgagtt cttctgagcg ggactctggg gttcgaaatg accgaccaag cgacgcccaa cctgccatca cgagatttcg attccaccgc 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

cgccttctat gaaaggttgg gcttcggaat cgttttccgg gacgccggct ggatgatcct ccagcgcggg gatctcatgc tggagttctt cgcccacccc 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

aacttgttta ttgcagctta taatggttac aaataaagca atagcatcac aaatttcaca aataaagcat ttttttcact gcattctagt tgtggtttgt 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

ccaaactcat caatgtatct tatcatgtct gtataccgtc gacctctagc tagagcttgg cgtaatcatg gtcatagctg tttcctgtgt gaaattgtta 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

tccgctcaca attccacaca acatacgagc cggaagcata aagtgtaaag cctggggtgc ctaatgagtg agctaactca cattaattgc gttgcgctca 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

ctgcccgctt tccagtcggg aaacctgtcg tgccagctgc attaatgaat cggccaacgc gcggggagag gcggtttgcg tattgggcgc tcttccgctt 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

cctcgctcac tgactcgctg cgctcggtcg ttcggctgcg gcgagcggta tcagctcact caaaggcggt aatacggtta tccacagaat caggggataa 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

cgcaggaaag aacatgtgag caaaaggcca gcaaaaggcc aggaaccgta aaaaggccgc gttgctggcg tttttccata ggctccgccc ccctgacgag 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

catcacaaaa atcgacgctc aagtcagagg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctggaag ctccctcgtg cgctctcctg 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

ttccgaccct gccgcttacc ggatacctgt ccgcctttct cccttcggga agcgtggcgc tttctcaatg ctcacgctgt aggtatctca gttcggtgta 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg accgctgcgc cttatccggt aactatcgtc ttgagtccaa cccggtaaga 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

cacgacttat cgccactggc agcagccact ggtaacagga ttagcagagc gaggtatgta ggcggtgcta cagagttctt gaagtggtgg cctaactacg 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

gctacactag aaggacagta tttggtatct gcgctctgct gaagccagtt accttcggaa aaagagttgg tagctcttga tccggcaaac aaaccaccgc 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

tggtagcggt ggtttttttg tttgcaagca gcagattacg cgcagaaaaa aaggatctca agaagatcct ttgatctttt ctacggggtc tgacgctcag 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

tggaacgaaa actcacgtta agggattttg gtcatgagat tatcaaaaag gatcttcacc tagatccttt taaattaaaa atgaagtttt aaatcaatct 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

aaagtatata tgagtaaact tggtctgaca gttaccaatg cttaatcagt gaggcaccta tctcagcgat ctgtctattt cgttcatcca tagttgcctg 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

actccccgtc gtgtagataa ctacgatacg ggagggctta ccatctggcc ccagtgctgc aatgataccg cgagacccac gctcaccggc tccagattta 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

tcagcaataa accagccagc cggaagggcc gagcgcagaa gtggtcctgc aactttatcc gcctccatcc agtctattaa ttgttgccgg gaagctagag 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

taagtagttc gccagttaat agtttgcgca acgttgttgc cattgctaca ggcatcgtgg tgtcacgctc gtcgtttggt atggcttcat tcagctccgg 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

ttcccaacga tcaaggcgag ttacatgatc ccccatgttg tgcaaaaaag cggttagctc cttcggtcct ccgatcgttg tcagaagtaa gttggccgca 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

gtgttatcac tcatggttat ggcagcactg cataattctc ttactgtcat gccatccgta agatgctttt ctgtgactgg tgagtactca accaagtcat 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

tctgagaata gtgtatgcgg cgaccgagtt gctcttgccc ggcgtcaata cgggataata ccgcgccaca tagcagaact ttaaaagtgc tcatcattgg 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

aaaacgttct tcggggcgaa aactctcaag gatcttaccg ctgttgagat ccagttcgat gtaacccact cgtgcaccca actgatcttc agcatctttt 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

actttcacca gcgtttctgg gtgagcaaaa acaggaaggc aaaatgccgc aaaaaaggga ataagggcga cacggaaatg ttgaatactc atactcttcc 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

tttttcaata ttattgaagc atttatcagg gttattgtct catgag
^7601      ^7611      ^7621      ^7631      ^7641

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 23:41:09`
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):

757-1416

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 12:49:36`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš
The IRES name: `c-IAP1_-603/-1`	The functional status of IRES: `functional`

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

148-603

How IRES boundaries were determined:
experimentally_determined

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

aattactttt gtttattgga ataaaatgag attttttggg ttgtcatgtt aaagtgctta tagggaaaga agcctgcata taatttttta ccttgtggca 
^148       ^158       ^168       ^178       ^188       ^198       ^208       ^218       ^228       ^238       

taatcagtaa ttggtctgtt attcaggctt catagcttgt aaccaaatat aaataaaagg cataatttag gtattctata gttgcttaga attttgttaa 
^248       ^258       ^268       ^278       ^288       ^298       ^308       ^318       ^328       ^338       

tataaatctc tgtgaaaaat caaggagttt taatattttc agaagtgcat ccacctttca gggctttaag ttagtattac tcaagattat gaacaaatag 
^348       ^358       ^368       ^378       ^388       ^398       ^408       ^418       ^428       ^438       

cacttaggtt acctgaaaga gttactacaa ccccaaagag ttgtgttcta agtagtatct tggtaattca gagagatact catcctacct gaatataaac 
^448       ^458       ^468       ^478       ^488       ^498       ^508       ^518       ^528       ^538       

tgagataaat ccagtaaaga aagtgtagta aattctacat aagagtctat cattga
^548       ^558       ^568       ^578       ^588       ^598

Remarks:

c-IAP1_-603/-1 IRES represents part of the human c-IAP1 5' UTR (nt from -603 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: 581

Version: `3`	Last change: `2008-10-23 12:49:36`
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