IRESite_Id:109 summary record describing characteristics of XIAP

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `109`	Version: `17`
Originaly submitted by: Martin Mokrejš	Submission date: `2005-12-24 00:00:00`
Reviewed by: Martin Mokrejš	Last change: `2009-09-03 14:14:10`

IRESite record type:

natural_transcript

The shape of the nucleic acid molecule translated: `linear`	The quality of the mRNA/+RNA sequence: `nonexisting_chimera_of_GenBank_record_and_tested_IRES_fragment`
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule: `XIAP`	The genetic origin of this natural mRNA/+RNA: `nuclear`

The GenBankId GI:# number of the most similar mRNA/+RNA sequence to this one.
28290426

The mRNA/+RNA description:

Assembled chimeric sequence created by utilization of the 5'-UTR from GI:28290426  with the remaining sequence
from GI:32528298

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

TTAACTTGTA AAAACAACTT TGATGCCTTG AATATATAAT GATTCATTAT AACAATTATG CATAGATTTT AATAATCTGC ATATTTTATG CTTTCATGTT 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

TTTCCTAATT AATGATTTGA CATGGTTAAT AATTATAATA TATTCTGCAT CACAGTTTAC ATATTTATGT AAAATAAGCA TTTAAAAATT ATTAGTTTTA 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

TTCTGCCTGC TTAAATATTA CTTTCCTCAA AAAGAGAAAA CAAAAATGCT AGATTTTACT TTATGACTTG AATGATGTGG TAATGTCGAA CTCTAGTATT 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

TAGAATTAGA ATGTTTCTTA GCGGTCGTGT AGTTATTTTT ATGTCATAAG TGGATAATTT GTTAGCTCCT ATAACAAAAG TCTGTTGCTT GTGTTTCACA 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

TTTTGGATTT CCTAATATAA TGTTCTCTTT TTAGAAAAGG TGGACAAGTC CTATTTTCAA GAGAAGATGA CTTTTAACAG TTTTGAAGGA TCTAAAACTT 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

GTGTACCTGC AGACATCAAT AAGGAAGAAG AATTTGTAGA AGAGTTTAAT AGATTAAAAA CTTTTGCTAA TTTTCCAAGT GGTAGTCCTG TTTCAGCATC 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

AACACTGGCA CGAGCAGGGT TTCTTTATAC TGGTGAAGGA GATACCGTGC GGTGCTTTAG TTGTCATGCA GCTGTAGATA GATGGCAATA TGGAGACTCA 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

GCAGTTGGAA GACACAGGAA AGTATCCCCA AATTGCAGAT TTATCAACGG CTTTTATCTT GAAAATAGTG CCACGCAGTC TACAAATTCT GGTATCCAGA 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

ATGGTCAGTA CAAAGTTGAA AACTATCTGG GAAGCAGAGA TCATTTTGCC TTAGACAGGC CATCTGAGAC ACATGCAGAC TATCTTTTGA GAACTGGGCA 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

GGTTGTAGAT ATATCAGACA CCATATACCC GAGGAACCCT GCCATGTATA GTGAAGAAGC TAGATTAAAG TCCTTTCAGA ACTGGCCAGA CTATGCTCAC 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

CTAACCCCAA GAGAGTTAGC AAGTGCTGGA CTCTACTACA CAGGTATTGG TGACCAAGTG CAGTGCTTTT GTTGTGGTGG AAAACTGAAA AATTGGGAAC 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

CTTGTGATCG TGCCTGGTCA GAACACAGGC GACACTTTCC TAATTGCTTC TTTGTTTTGG GCCGGAATCT TAATATTCGA AGTGAATCTG ATGCTGTGAG 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

TTCTGATAGG AATTTCCCAA ATTCAACAAA TCTTCCAAGA AATCCATCCA TGGCAGATTA TGAAGCACGG ATCTTTACTT TTGGGACATG GATATACTCA 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

GTTAACAAGG AGCAGCTTGC AAGAGCTGGA TTTTATGCTT TAGGTGAAGG TGATAAAGTA AAGTGCTTTC ACTGTGGAGG AGGGCTAACT GATTGGAAGC 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

CCAGTGAAGA CCCTTGGGAA CAACATGCTA AATGGTATCC AGGGTGCAAA TATCTGTTAG AACAGAAGGG ACAAGAATAT ATAAACAATA TTCATTTAAC 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

TCATTCACTT GAGGAGTGTC TGGTAAGAAC TACTGAGAAA ACACCATCAC TAACTAGAAG AATTGATGAT ACCATCTTCC AAAATCCTAT GGTACAAGAA 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

GCTATACGAA TGGGGTTCAG TTTCAAGGAC ATTAAGAAAA TAATGGAGGA AAAAATTCAG ATATCTGGGA GCAACTATAA ATCACTTGAG GTTCTGGTTG 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

CAGATCTAGT GAATGCTCAG AAAGACAGTA TGCAAGATGA GTCAAGTCAG ACTTCATTAC AGAAAGAGAT TAGTACTGAA GAGCAGCTAA GGCGCCTGCA 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

AGAGGAGAAG CTTTGCAAAA TCTGTATGGA TAGAAATATT GCTATCGTTT TTGTTCCTTG TGGACATCTA GTCACTTGTA AACAATGTGC TGAAGCAGTT 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

GACAAGTGTC CCATGTGCTA CACAGTCATT ACTTTCAAGC AAAAAATTTT TATGTCTTAA TCTAACTCTA TAGTAGGCAT GTTATGTTGT TCTTATTACC 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

CTGATTGAAT GTGTGATGTG AACTGACTTT AAGTAATCAG GATTGAATTC CATTAGCATT TGCTACCAAG TAGGAAAAAA AATGTACATG GCAGTGTTTT 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

AGTTGGCAAT ATAATCTTTG AATTTCTTGA TTTTTCAGGG TATTAGCTGT ATTATCCATT TTTTTTACTG TTATTTAATT GAAACCATAG ACTAAGAATA 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

AGAAGCATCA TACTATAACT GAACACAATG TGTATTCATA GTATACTGAT TTAATTTCTA AGTGTAAGTG AATTAATCAT CTGGATTTTT TATTCTTTTC 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

AGATAGGCTT AACAAATGGA GCTTTCTGTA TATAAATGTG GAGATTAGAG TTAATCTCCC CAATCACATA ATTTGTTTTG TGTGAAAAAG GAATAAATTG 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

TTCCATGCTG GTGGAAAGAT AGAGATTGTT TTTAGAGGTT GGTTGTTGTG TTTTAGGATT CTGTCCATTT TCTTTTAAAG TTATAAACAC GTACTTGTGC 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

GAATTATTTT TTTAAAGTGA TTTGCCATTT TTGAAAGCGT ATTTAATGAT AGAATACTAT CGAGCCAACA TGTACTGACA TGGAAAGATG TCAAAGATAT 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

GTTAAGTGTA AAATGCAAGT GGCAAAACAC TATGTATAGT CTGAGCCAGA TCAAAGTATG TATGTTTTTA ATATGCATAG AACAAAAGAT TTGGAAAGAT 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

ATACACCAAA CTGTTAAATG TGGTTTCTCT TCGGGGAGGG GGGGATTGGG GGAGGGGCCC CAGAGGGGTT TTATAGGGGC CTTTTCACTT TCTACTTTTT 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

TCATTTTGTT CTGTTCGAAT TTTTTATAAG TATGTATTAC TTTTGTAATC AGAATTTTTA GAAAGTATTT TGCTGATTTA AAGGCTTAGG CATGTTCAAA 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

CGCCTGCAAA ACTACTTATC ACTCAGCTTT AGTTTTTCTA ATCCAAGAAG GCAGGGCAGT TAACCTTTTT GGTGCCAATG TGAAATGTAA ATGATTTTAT 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

GTTTTTCCTG CTTTGTGGAT GAAAAATATT TCTGAGTGGT AGTTTTTTGA CAGGTAGACC ATGTCTTATC TTGTTTCAAA ATAAGTATTT CTGATTTTGT 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

AAAATGAAAT ATAAAATATG TCTCAGATCT TCCAATTAAT TAGTAAGGAT TCATCCTTAA TCCTTGCTAG TTTAAGCCTG CCTAAGTCAC TTTACTAAAA 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

GATCTTTGTT AACTCAGTAT TTTAAACATC TGTCAGCTTA TGTAGGTAAA AGTAGAAGCA TGTTTGTACA CTGCTTGTAG TTATAGTGAC AGCTTTCCAT 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

GTTGAGATTC TCATATCATC TTGTATCTTA AAGTTTCATG TGAGTTTTTA CCGTTAGGAT GATTAAGATG TATATAGGAC AAAATGTTAA GTCTTTCCTC 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

TACCTACATT TGTTTTCTTG GCTAGTAATA GTAGTAGATA CTTCTGAAAT AAATGTTCTC TCAAGATCCT TAAAACCTCT TGGAAATTAT AAAAATATTG 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

GCAAGAAAAG AAGAATAGTT GTTTAAATAT TTTTTAAAAA ACACTTGAAT AAGAATCAGT AGGGTATAAA CTAGAAGTTT AAAAATGCTT CATAGAACGT 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

CCAGGGTTTA CATTACAAGA TTCTCACAAC AAACCTATTG TAGAGGTGAG TAAGGCATGT TACTACAGAG GAAAGTTTGA GAGTAAAACT GTAAAAAATT 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

ATATTTTTGT TGTACTTTCT AAGAGAAAGA GTATTGTTAT GTTCTCCTAA CTTCTGTTGA TTACTACTTT AAGTGATATT CATTTAAAAC ATTGCAAATT 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

TATTTTATTT ATTTAATTTT CTTTTTGAGA TGGAGTCTTG CTTGTCACCC AGGCTGGAGT GCAGTGGAGT GATCTCTGCT CACTGCAACC TCCGCCTTCT 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

GGGTTCAAGC GATTCTCGTG CCTCAGCTTC CTGAGTAGCT GGAATTACAG GCAGGTGCCA CCATGCCCGA CTAATTTTTT TTTATTTTTA GTAGAGACGG 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

GGTTTCACCA TGTTGGCCAG GCTGGTATCA AACTCCTGAC CTCAAGAGAT CCACTCGCCT TGCCCTCCCA AAGTGCTGGG ATTACAGGCT TGAGCCACCA 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

CGCCCGGCTA AAACATTGCA AATTTAAATG AGAGTTTTAA AAATTAAATA ATGACTGCCC TGTTTCTGTT TTAGTATGTA AATCCTCAGT TCTTCACCTT 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

TGCACTGTCT GCCACTTAGT TTGGTTATAT AGTCATTAAC TTGAATTTGG TCTGTATAGT CTAGACTTTA AATTTAAAGT TTTCTACAAG GGGAGAAAAG 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

TGTTAAAATT TTTAAAATAT GTTTTCCAGG ACACTTCACT TCCAAGTCAG GTAGGTAGTT CAATCTAGTT GTTAGCCAAG GACTCAAGGA CTGAATTGTT 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

TTAACATAAG GCTTTTCCTG TTCTGGGAGC CGCACTTCAT TAAAATTCTT CTAAAACTTG TATGTTTAGA GTTAAGCAAG ACTTTTTTTC TTCCTCTCCA 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

TGAGTTGTGA AATTTAATGC ACAACGCTGA TGTGGCTAAC AAGTTTATTT TAAGAATTGT TTAGAAATGC TGTTGCTTCA GGTTCTTAAA ATCACTCAGC 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

ACTCCAACTT CTAATCAAAT TTTTGGAGAC TTAACAGCAT TTGTCTGTGT TTGAACTATA AAAAGCACCG GATCTTTTCC ATCTAATTCC GCAAAAATTG 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

ATCATTTGCA AAGTCAAAAC TATAGCCATA TCCAAATCTT TTCCCCCTCC CAAGAGTTCT CAGTGTCTAC ATGTAGACTA TTCCTTTTCT GTATAAAGTT 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

CACTCTAGGA TTTCAAGTCA CCACTTATTT TACATTTTAG TCATGCAAAG ATTCAAGTAG TTTTGCAATA AGTACTTATC TTTATTTGTA ATAATTTAGT 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

CTGCTGATCA AAAGCATTGT CTTAATTTTT GAGAACTGGT TTTAGCATTT ACAAACTAAA TTCCAGTTAA TTAATTAATA GCTTTATATT GCCTTTCCTG 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

CTACATTTGG TTTTTTCCCC TGTCCCTTTG ATTACGGGCT AAGGTAGGGT AGAGTGGGTG TAGTGAGTGT ATATAATGTG ATTTGGCCCT GTGTATTATG 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

ATATTTTGTT ATTTTTGTTG TTATATTATT TACATTTCAG TAGTTGTTTT TTGTGTTTCC ATTTTAGTGG ATAAAATTTG TATTTTGAAC TATGAATGGA 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

GACTACCGCC CCAGCATTAG TTTCACATGA TATACCCTTT AAACCCGAAT CATTGTTTTA TTTCCTGATT ACACAGGTGT TGAATGGGGA AAGGGGCTAG 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

TATATCAGTA GGATATACTA TGGGATGTAT ATATATCATT GCTGTTAGAG AAATGAAATA AAATGGGGCT GGGCTCAGTG GCTCACGCCT GTAATCCCAG 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

CACTTTGGGA GGCTGAGGCA GGTGGATCAC GAGGTCAGGA GATCGAGACC ATCCTGGCTA ACACGGTGAA ACCCCGTCTC TACTAAAAAA CAGAAAATTA 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

GCCGGGCGTG GTGGCGGGCG CCTGTAGTCC CAGCTACTCG GGAGGCTGAG GCAGGAGAAT GGTGTGAACC CGGGAGGCAG AGCTTGCAGT GAGCCGAGAT 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

CTCGCCACTG CACTCCAGCC TGGGCAACAG AGCAAGACTC TGTCTCAAAA AAAAAAAAAA AAGAAATAAG AAAATGGGAA GCAATATTTG ACATAGTTCT 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

TTTTAGTCAA ATCTACTTGT TAAAAAAAGG GTAGCAGTTT ATTCATCTGT GAAAGGAAAA TAATACTTAT CTTACAAGGT TGCAAGAGCT CAAGGAGACC 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

ATGTATGTAA AGTTCCTGCT GTAAATATGA ACTCCCATCC TAATACCCTT TTACCTCTCT GTGGGTTTGT CTTGACCTGG AAATTTGGGC TAAAACTTAG 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

AAAAAATTCT TACATGATAA CTCAGTGATG CTTACTCATA GTTTTTGGTG TTTCTCATAG ATAAGATATA AATCAGCTGG GCGCGGTGGC TCATGCCTGT 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

AATCCCAGCA CTTTGGGAGG CCGAGGCGGG CAGATCACCT GAGGTCGGGA GGTCGAGACC AGCCTGACCA ACATGGAGAA ACCCCGTCTC TACTAAAAAT 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

ACAAAATTAG CTGGGCGTGG TGGCTCATGC CTGTAATCCC AGCTACTTGG GAGGCTGAGG CAGGAGAATC GCTTGAACCC AGGAGGCGGA GGTTGTGGTG 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

AGCGAAGATC GTGCCATTGC ACTCCAGCCT GGGCAACAAG AGCAAAACTC TGTCTCAAAA AAAAAAAAAG ATATAAATCA CAATAAATAA ATAGGTCAAT 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

ACAAATGTTA GCCAGGCGTG GTGGCACATG CCCATAGTCG CAGCTACTCT GGAGGCAGAG GCAGGAGGAT CACTTGAGCC CATGAATTTG AGGCAGCAGT 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

GAGCTATGAT TGTGCCACTG TACTCCAGTC TGGGTGACAG AGTGAGACCC CATCTCTAAA TAAATAGGTC AAACCCTTAA AAATATTTAA ATTCTTAAAA 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

AATTGAAAAG ATTATTCTTC TCAAATTTAG TTGAGCTTTC TAAGAGAAGC AATTGGCTTT TTCCCACTTC AATAATCATT TTCAGTTTGA CTCATACAGT 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

TAACACAATG TGAATTTCTT CCTCAGCATA ACAGAGTTAT AGAATGACAG GGCTGGAAGT GACCTTAGAG AGTATCCAGT TCTTTCATTT TACAGGTGAG 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

GCAACTGAGA CTCAAAGGTG ATGTAATTTG TGCAAAGATT ATAGCTAATT AGTAGCAGAG CCCTGACTGG GACATAGTTT GAAGGTGAAA AACTTCACCA 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

AGCTACCTTT CTTGAAAGGT CCAAATGTTT ATGTTTTCAA CTACTCTTTC CACTGTACCA TAACTTTCAC TACATATTAA ATGACACTTT ATAACTAATA 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

TAATAGGACA ATCATCAATG CATATATAGC CAGCCCTTCA TATCTGTGGG TTTTGCATCC ATGGATTCAA CCAAGGAGGA ATTGAAAACA CTGAGAAAAA 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

AAAAAAAGAC CACACAATAA AAAAAAAAAA TACAAAATAA TACAAAGAAA AAGCCAAAAT TGTCATACTG TTGTTAAGCA ACAGTATAAC AACTATTTAC 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

ATAGCATTAA GGTTGGTGCA AAAATGCAAA AAAAAAAAAA GCAATTATTT TTAAACCAAC CTAATATATT GTATTAGGTA TTAAAGTCAT CTGGACATGA 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

ATTAAAGTAT ATGATGCCAG CCTGGACAAA AGGCAAAACC CTGTCTCTAC AAAAAATACA AAAATTAGCT GGGCATGGTG GTGTGTGCCT GTAGTCCTGG 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

CTACTCCGGA GCCTGAGGTG GGAGGATCGC TTGAGTCTGG GAGGCAGAGG CTGCATTGAG CTATGATCAT GGCACTGCAT TCCAGCCTGG GTGACAGTGC 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

AAGACCTTGT CTCAGAATAA ATAAAGTATG TGATGAAGAT GTGCATACAT TATATGCAAA TACTGTTTTT TTTTTTTTTA ATTTAAACAG TCTCACTGTG 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

TTGCCCAGGA TGGAGTGCAA TGGCACAATC TTGGCTCATG GCAAACTCTG CCTCGCAAGC AGCTGGGACT ACAGGCATGC TCCACGGTGC CCAGTTAATT 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

TTTTTTGTAT TCTTAGTAGA GACAGGGTTT CACCATGTTG GCCAGGCTAG TCTTGAATTT CTGACCTCAA GTGATTCATC TCCCAAAGTG CTGGGATTAC 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

AGGCGTGAGC CACCACGGCC GGCTAATTTT TGTATTTTTT AGTAGTGACT GGTTTCGCGG TGTTGACCAG GCTGGTCTCG AACTCCTGAT CTCAGGTGAT 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

CTGCCTGCCT CGGCCTCACA AAGTGCTGGG ATTACAGGTG TGAACCACTG CTCCCGGCCT TGTGTGATTT TATCTAAGGG ACTTAAGCGT CCTCAGGTCC 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

TAGGGGGTCG TGAAACCAAA ACCCCAGGGA TAGCAAGGGA CAATTGTATC TTCAAAGTAG ACAAATGGCG CCGGGCACGG TGGCTCACGC CTGTAATCCC 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

AGCAGTTTCC GAGGCTGAGG CAGGCGGCTC ACCTGAGGTC AGGAGTTGGA GACCAGCCTG GCCAACATGC TGAAACCCTG TCTGTACAAA AATACAAAAA 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

TAGCTGGGCA TGGTGGCGCA TGCCTGTAGT CCCAGCTACT AGAGCGACTG AGGCAGGAGA ATTGCTTGAA CCTGGGAGGC GGAGGTTGCA GGGAGCCAAG 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

ATGGCGCCAC CGCACTCCAG CCTAGGTGAT AGAGTGAGAC TCCCTCTCAA AAACAAAACA AAACAAAAAA ATTAGACAAA TGCTACATTA ATGTTTGGGT 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

GGTCAGATTC TACTTTGAAT CTGAAGTTTG CAGATATGCC TATAGATTTT TGGAGTTTAC CACTTTCTTA TTCTGTATCA TTAATGTAAT ATTTTAAATT 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

ACTATATATG TTACCATTTT TCTGGATTTA GTAAGAAATT TGCAGTTTTG GTTTGATGTA ACAAGGGTTT TAATGTAATT TATGTTAGAT TTTGCATTTT 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

TTTCATTACT GTTATATTTT AACCTGACTG ACTGATCTAA TTGTATTAGT ATTGTGAATA ATCATGTGAA ATGTTTTGAG ACAGAGTACT ATATTTGTGA 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

ATATAATTTT ATGGTTTTTT TCACTTAGAA CCTTTCTGTG TGGAAAACTA AGAAAATTGC TTTCTGCTGT ATAATCTGGC ATTCATTGTA GATTAAAGCT 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

TATTTTTCTG TGAATAAAAC GTATTCAATA AAATACTATT CTTTAAAATT A
^8701      ^8711      ^8721      ^8731      ^8741      ^8751

Credibility of mRNA sequence:

guessed_as_the_sequence_was_never_published_by_authors_nor_described_in_sufficient_detail

The organism containing this mRNA with IRES segment in its genome:

Homo sapiens

A promoter reported in cDNA corresponding to IRES sequence:
yes The total number of notable open-reading frames (ORFs):
1

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:
not_tested

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:
heterogeneous_population_of_molecules_found

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

Integrity (uniformity) of mRNA tested using RNAi:
heterogeneous_population_of_molecules_found

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:

Homo sapiens HEK 293T/17 (ATCC CRL-11268)

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

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

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:
not_tested

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:
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:

Homo sapiens HeLa (ATCC CCL-2)

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

ORF

ORF position:

1

Version: `1`	Last change: `2006-08-01 00:00:00`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
XIAP

The description of the protein encoded in this ORF:
X-linked inhibitor of apoptosis

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):

467-1960

Remarks:

For creation of this IRESite record we have used an EST fragment (which matched the described primers) merged
with Refseq mRNA sequence which had incomplete 5'-UTR. van Eden et al. (2004) actually amplified some
sequence from HeLa cells.

The tested cDNA fragment (bases 5-464 in IRESite) contains in its RNA form a splice-acceptor site as confirmed
by 2 additional bicistronic mRNA molecule types found by RT-PCR (Fig. 2). The splicing site is shown in Fig
3A. Existence of the acceptor site was also claimed to be confirmed by other EST records of XIAP mRNA
molecules. The reported splice junction is "5'-AGaAAGGUG-3'". [van Eden et al. (2004)]

In addition, the sequence between 1-434 is not supported by any dbEST data except record GI:28290426
(BX119811) supporting bases 1-484.

Use of a promoter-less plasmid to test for cryptic promoter presence did not reveal any promoter in the tested
region (but authors did not show the actual results in the article). When direct RNA transfection was
performed IRES activity was only observed in 293T cells (2-fold activity of the control empty vector pRL-FL)
while no significant activity was found in HepG2 and HeLa S3 cells. [van Eden et al. (2004)]

RNAi was used to study whether its application decreases Rluc and Fluc activity in the same scale -- which
would confirm that they originate from a physically same mRNA molecule and in turn would confirm that
1) no promoter exists in the DNA region in corresponding the the expected mRNA molecules and
2) no aberrant splicing occurs.

It was found that activity of both luciferases was NOT decreased equivalently. [van Eden et al.
(2004)]

The IRES activity was also shown in rabbit reticulocyte lysates using bicistronic capped and non-capped mRNAs.
[van Eden et al. (2004)]


Bert et al. (2006) tested XIAP IRES in HeLa cells using promoter-less plasmids with or without the enhancer
left in (Figure 2). They showed there is a cryptic promoter activatable when the enhancer is left in.

Citations:

Van Eden M. E., Byrd M. P., Sherrill K. W., Lloyd R. E. (2004) Demonstrating internal ribosome entry sites in eukaryotic mRNAs using stringent RNA test procedures. RNA. 10(4):720-730

Bert AG, Grépin R, Vadas MA, Goodall GJ (2006) Assessing IRES activity in the HIF-1alpha and other cellular 5' UTRs. RNA. 12(6):1074-1083

IRESs:

IRES:

Version: `13`	Last change: `2009-09-03 14:14:10`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `XIAP_5-464`

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

5-464

Conclusion:
probably_not_IRES

How IRES boundaries were determined:
experimentally_determined

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

CTTGTAAAAA CAACTTTGAT GCCTTGAATA TATAATGATT CATTATAACA ATTATGCATA GATTTTAATA ATCTGCATAT TTTATGCTTT CATGTTTTTC 
^5         ^15        ^25        ^35        ^45        ^55        ^65        ^75        ^85        ^95        

CTAATTAATG ATTTGACATG GTTAATAATT ATAATATATT CTGCATCACA GTTTACATAT TTATGTAAAA TAAGCATTTA AAAATTATTA GTTTTATTCT 
^105       ^115       ^125       ^135       ^145       ^155       ^165       ^175       ^185       ^195       

GCCTGCTTAA ATATTACTTT CCTCAAAAAG AGAAAACAAA AATGCTAGAT TTTACTTTAT GACTTGAATG ATGTGGTAAT GTCGAACTCT AGTATTTAGA 
^205       ^215       ^225       ^235       ^245       ^255       ^265       ^275       ^285       ^295       

ATTAGAATGT TTCTTAGCGG TCGTGTAGTT ATTTTTATGT CATAAGTGGA TAATTTGTTA GCTCCTATAA CAAAAGTCTG TTGCTTGTGT TTCACATTTT 
^305       ^315       ^325       ^335       ^345       ^355       ^365       ^375       ^385       ^395       

GGATTTCCTA ATATAATGTT CTCTTTTTAG AAAAGGTGGA CAAGTCCTAT TTTCAAGAGA
^405       ^415       ^425       ^435       ^445       ^455

Remarks:

"IRES" activity was found to overlap with the polypyrimidine tract, which unfortunately is also involved
in the splicing issues. Mutation of the polypyrimidine tract decreased dramatically by 30-fold the "IRES"
activity although still aberrantly spliced products were detected.

Similarly, mutations of the splice donor/acceptor sites resulted in lower abundance of the alternative
splice variants or even shifted the splice spliced by few bases. None of these approaches could not be used
to completely eliminate the splicing issue with pRL-XIAP-FL plasmid. [van Eden et al. (2004)]

Direct mRNA transfection confirmed only weak IRES activity in 293T cells (95% of the activity detectable
using DNA-based transfection was gone) whereas in HepG2 and HeLa cells it was not statistically significant.
The Fig. 4C,D shows that XIAP IRES seriously underperforms in contrast to HCV IRES both as a capped of
non-capped exogenous transcript. [van Eden et al. (2004)]

Several proteins have been found to interact with XIAP IRES in vitro (Lewis et al. (2007)): p37 (hnRNP A1),
p44, p45, p52 (La autoantigen), p100, p150.


Bert et al. (2006) concluded that despite the cryptic promoter there is "some" IRES activity in XIAP. Further
they report that in direct RNA transfection XIAP IRES is about 5.9x above the negative control while EMCV-R
IRES was 221x above the control (Figure 4).

Citations:

Van Eden M. E., Byrd M. P., Sherrill K. W., Lloyd R. E. (2004) Demonstrating internal ribosome entry sites in eukaryotic mRNAs using stringent RNA test procedures. RNA. 10(4):720-730

Bert AG, Grépin R, Vadas MA, Goodall GJ (2006) Assessing IRES activity in the HIF-1alpha and other cellular 5' UTRs. RNA. 12(6):1074-1083

IRES:

Version: `7`	Last change: `2009-04-06 16:04:22`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `XIAP_305-466`

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

305-466

Conclusion:
probably_not_IRES

How IRES boundaries were determined:
experimentally_determined

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

ATTAGAATGT TTCTTAGCGG TCGTGTAGTT ATTTTTATGT CATAAGTGGA TAATTTGTTA GCTCCTATAA CAAAAGTCTG TTGCTTGTGT TTCACATTTT 
((..(((... .......... ....((((.. ....)))).. .((((((((( (..((((((. ........)) )))).)))). ..)))))).. )))..))))) 
^305       ^315       ^325       ^335       ^345       ^355       ^365       ^375       ^385       ^395       

GGATTTCCTA ATATAATGTT CTCTTTTTAG AAAAGGTGGA CAAGTCCTAT TTTCAAGAGA AG
..))...... ........(( ((((...... ...(((.... .....))).. .....))))) ).
^405       ^415       ^425       ^435       ^445       ^455       ^465

There is no Vienna RNA package installed on the server or some error/warning messages were output. Due to that maybe we cannot prepare 2D structures for display. The error/warning message was:

((..(((.................((((......))))...((((((((((..((((((.........)))))).))))...))))))..)))..)))))..))..............((((((.........(((.........))).......)))))).
ERROR: unbalanced brackets in make_pair_table

STDOUT was:

Remarks:

Baranick et al., 2008 and they postulate that most of the "IRES" activity observed so far was due to the
splice artifacts (Fig. 3D).

Citations:

Holcik M., Lefebvre C., Yeh C., Chow T., Korneluk R. G. (1999) A new internal-ribosome-entry-site motif potentiates XIAP-mediated cytoprotection. Nat. Cell. Biol. 1(3):190-192

Lewis S. M., Holcik M. (2005) IRES in distress: translational regulation of the inhibitor of apoptosis proteins XIAP and HIAP2 during cell stress. Cell. Death. Differ. 12(6):547-553

Baranick B. T., Lemp N. A., Nagashima J., Hiraoka K., Kasahara N., Logg C. R. (2008) Splicing mediates the activity of four putative cellular internal ribosome entry sites. Proc. Natl. Acad. Sci. U. S. A. 105(12):4733-4738

IRES trans-acting factor (ITAFS):

IRES trans-acting factor (ITAF):

Version: `1`	Last change: `2008-06-27 20:14:51`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

OPTIONAL: The interacting RNA base range (if any):
405-432

ITAF protein characteristics:

Version: `1`	Last change: `2008-06-27 20:14:51`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

ITAF abbreviated name:
hnRNP_A1

ITAF fullname:
heterogeneous nuclear ribonucleoprotein A1

ITAF description (long):
heterogeneous nuclear ribonucleoprotein A1 (p37), 37 kDa

3.1.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
inhibitory

Method used to demonstrate ITAF effect:
both In vitro system used to demonstrate ITAF effect:
other

The organism where action of this ITAF was studied:

Homo sapiens HEK 293T/17 (ATCC CRL-11268)

Remarks:

HEK 293T cell extracts were used to demonstrate in vitro binding to XIAP RNA core RNP-binding sequence. Data
from Figures 1A and 2D.

Citations:

Lewis S. M., Veyrier A., Hosszu Ungureanu N., Bonnal S., Vagner S., Holcik M. (2007) Subcellular relocalization of a trans-acting factor regulates XIAP IRES-dependent translation. Mol. Biol. Cell. 18(4):1302-1311

IRES trans-acting factor (ITAF):

Version: `0`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

Version: `2`	Last change: `2009-08-29 12:19:15`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

ITAF abbreviated name:
La

ITAF fullname:
La autoantigen

ITAF description (long):
La autoantigen (p52), 52 kDa RNA binding protein, predominantly localized to nucleus, unwinds the dsRNA in ATP-dependent manner, forms a dimer

3.2.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
stimulatory

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
other

Remarks:

HEK 293T cell extracts were used to demonstrate in vitro binding to XIAP RNA. Data from Figure 1A.

Citations:

IRES trans-acting factor (ITAF):

Version: `2`	Last change: `2009-09-02 10:02:32`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

OPTIONAL: The interacting RNA base range (if any):
332-353

ITAF protein characteristics:

Version: `0`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

ITAF abbreviated name:
hnRNP_C1/C2

ITAF fullname:
heterogeneous nuclear ribonucleoprotein C1/C2

ITAF description (long):
heterogeneous nuclear ribonucleoprotein C1/C2 (p44), 44 kDa

3.3.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
required_but_available_internally

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
other

Remarks:

HEK 293T cell extracts were used to demonstrate in vitro binding to XIAP RNA. Data from Lewis et al. (2007)
Fig. 1A and Lewis et al. (2005), Fig. 2.

Citations:

Lewis S. M., Holcik M. (2005) IRES in distress: translational regulation of the inhibitor of apoptosis proteins XIAP and HIAP2 during cell stress. Cell. Death. Differ. 12(6):547-553

Holcík M, Gordon BW, Korneluk RG (2003) The internal ribosome entry site-mediated translation of antiapoptotic protein XIAP is modulated by the heterogeneous nuclear ribonucleoproteins C1 and C2. Mol. Cell. Biol. 23(1):280-288

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

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

ITAF abbreviated name:
PTB-1

ITAF fullname:
polypyrimidine tract-binding protein isoform 1

ITAF description (long):
polypyrimidine tract-binding protein isoform 1 binds dsRNA with (CCU)n motif where n is at least 3. By SELEX approach it was found it binds to 5'-CAGCCUGGUGCCUCUCUUUCGG-3' (Singh et al. (1995) Science 268:1173-1176) but also UCUU or UCUUC within pyrimidine-rich sequence (Perez et al. (1997) RNA3:1334-1347).

3.4.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
required_but_available_internally

Method used to demonstrate ITAF effect:
both In vitro system used to demonstrate ITAF effect:
other

The organism where action of this ITAF was studied:

Homo sapiens HEK 293T/17 (ATCC CRL-11268)

Remarks:

Deletion of the XIAP 5' UTR polypyrimidine tract causes a loss of PTB binding and a complete loss of IRES
activity, but does not disrupt the binding of other ITAFs.

Overexpression of PTB represses XIAP IRES activity.

HEK 293T cell extracts were used to demonstrate in vitro binding to XIAP RNA. Data from Figure 8A/B/C.

Citations:

Baird S. D., Lewis S. M., Turcotte M., Holcik M. (2007) A search for structurally similar cellular internal ribosome entry sites. Nucleic. Acids. Res. 35(14):4664-4677

Regions with experimentally determined secondary structures:

A region with the experimentally determined secondary structure:

IRESite 2D Struct Id: 15

Version: `2`	Last change: `2009-09-03 14:14:10`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský
The function of the 2D structure: `IRES`	The 2D structure causes frameshift: `no`

The absolute position of the experimentally mapped region (the range includes START and STOP codons or their equivalents):
297-469

The underlying nucleic acid sequence and structure of the mapped region:

TATTTAGAAT TAGAATGTTT CTTAGCGGTC GTGTAGTTAT TTTTATGTCA TAAGTGGATA ATTTGTTAGC TCCTATAACA AAAGTCTGTT GCTTGTGTTT 
.((..((((( ..(((..... .......... ..((((.... ..))))...( (((((((((. .((((((... ......)))) )).))))... ))))))..)) 
^297       ^307       ^317       ^327       ^337       ^347       ^357       ^367       ^377       ^387       

CACATTTTGG ATTTCCTAAT ATAATGTTCT CTTTTTAGAA AAGGTGGACA AGTCCTATTT TCAAGAGAAG ATG
)..))))).. ))........ ......(((( ((........ .(((...... ...))).... ...)))))). ...
^397       ^407       ^417       ^427       ^437       ^447       ^457       ^467

Rendering structure of XIAP mRNA 173 nt long with energy of -9.20 kcal/mol as calculated by RNAeval using VARNA Java applet with some IRESite improvements (see VARNA modified by IRESite). Hold left mouse button to move structure parts, hold right mouse button to move whole structure, use mouse wheel to zoom. Right mouse-click opens a menu to export into JPG/SVG and many other options.

You need a Java-enabled browser so that modified varsion of VARNA could be started. See http://www.iresite.org/VARNA/ for more details.

Remarks:

2D structure of XIAP from Figure 1. Several mutations altering in certain region the structure did not affect
the IRES activity (Figure 7).

4.1.1. Enzymes used to characterize at least partially the 2D structure.