IRESite_Id:416 summary record describing characteristics of AEV IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `416`	Version: `1`
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš	Last change: `2008-06-26 16:01:57`

IRESite record type:

natural_transcript

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

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
21389214

The mRNA/+RNA description:

Avian encephalomyelitis virus, complete genome.

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

TTTGAAAGAG GCCTCCGGAG TGTCCGGAGG CTCTCTTTCG ACCCAACCCA TACTGGGGGG TGTGTGGGAC CGTACCTGGA GTGCACGGTA TATATGCATT 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

CCCGCATGGC AAGGGCGTGC TACCTTGCCC CTTGACGCAT GGTATGCGTC ATCATTTGCC TTGGTTAAGC CCCATAGAAA CGAGGCGTCA CGTGCCGAAA 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

ATCCCTTTGC GTTTCACAGA ACCATCCTAA CCATGGGTGT AGTATGGGAA TCGTGTATGG GGATGATTAG GATCTCTCGT AGAGGGATAG GTGTGCCATT 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

CAAATCCAGG GAGTACTCTG GCTCTGACAT TGGGACATTT GATGTAACCG GACCTGGTTC AGTATCCGGG TTGTCCTGTA TTGTTACGGT GTATCCGTCT 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

TGGCACACTG AAAGGGTATT TTTGGGTAAT CCTTTCCTAC TGCCTGATAG GGTGGCGTGC CCGGCCACGA GAGATTAAGG GTAGCAATTT AAACATGAGC 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

AAACTATTTT CTACTGTAGG CAAGACTGTT GATGAGGTTT TGTCTGTGCT TAACGATGAG AATACTGAAT CTTATGCTGG CCCTGATCGT ACTGCAGTAG 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

TTGGCGGAGG ATTTCTGACA ACGGTAGACC AGAGTTCAGT TAGTACGGCT ACAATGGGAA GTTTACAGGA TGTACAGTAC AGAACTGCAG TCGACATCCC 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

TGGTTCTAGA GTGACACAAG GTGAGAGGTT TTTCCTTATT GATCAGCGTG AGTGGAACTC AACACAGAGT GAATGGCAGT TATTGGGCAA GATTGACATA 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

GTAAAAGAGT TGCTTGATCA GTCATATGCT GTTGATGGCC TTTTGAAATA CCATTCTTAT GCGAGGTTTG GCTTGGACGT CATTGTTCAG ATTAATCCAA 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

CATCATTCCA GGCAGGGGGT CTCATAGCAG CCCTTGTACC TTATGACCAG GTTGATATTG AATCAATTGC TGCCATGACT ACTTATTGCC ATGGCAAGTT 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

GAATTGCAAC ATAAACAACG TTGTAAGAAT GAAGGTGCCA TACATATACA GTCGAGGTTG TTACAACCTT AGGAACTCAG CATACTCCAT TTGGATGCTT 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

GTAATAAGAG TGTGGTCACA GCTGCAGTTG GGATCCGGCA CTTCAACACA GATTACTGTC ACCACCTTGG CTAGGTTTGT GGATTTGGAA CTACATGGAC 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

TTAGCCCTTT GGTCGCACAG ATGATGCGCA ACGAATTTCG ACTGTCGTCA TCTAGCAACA TTGTCAATTT GGCTAATTAT GAGGATGCAA GAGCCAAAGT 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

GTCTCTAGCG CTGGGACAAG AAGAGTTTTC CAGAGACTCG TCAAGTACCG GGGGGGAATT GTTGCATCAT TTTTCACAGT GGACGTCGAT TCCGTGCCTT 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

GCCTTCACTT TTACATTCCC CGGCACGGTA GGGCCAGGCA CTCAGATCTG GTCAACCACG GTGGACCCTT TTTCCTGTAA CTTGAGGGCG TCTAGCACTG 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

TGCACCCCAC TAACTTGAGC TCGATTGCGG GTATGTTCTG TTTTTGGAGA GGTGACATTG TATTTGAGTT TCAAGTCTTT TGCACCAAGT ATCATTCCGG 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

CAGGTTGATG TTTGTGTATG TGCCTGGCGA TGAAAACACA AAAATCAGCA CCTTAACTGC AAAACAAGCA TCTAGTGGTC TTACTGCTGT TTTTGATATC 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

AATGGTGTAA ATTCAACACT GGTGTTTAGA TGCCCTTTCA TCTCTGACAC ACCTTACAGG GTGAATCCAA CGACTCATAA GTCCCTCTGG CCTTATGCAA 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

CTGGCAAGCT TGTGTGCTAT GTGTACAATA GACTGAACGC ACCTGCCAGT GTATCACCAA GCGTGTCCAT TAATGTGTAC AAAAGTGCTG TGGATCTGGA 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

GTTGTATGCA CCTGTTTATG GGGTTTCTCC CACCAACACC TCAGTTTTTG CTCAAGGGAA AGAGGATGAA GGAGGATTTT CCAGTGTGCC TGAAGTGGAG 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

CAACATGTTG TTGAGGATAA GGAACCACAG GGACCTTTGC ACGTGACACC TTTTGGCGCT GTTAAAGCTA TGGAGGACCC CCAATTGGCC AGGAAAACAC 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

CTGGCACATT CCCTGAATTA GCTCCTGGTA AACCTCGACA TACAGTGGAC CACATGGATC TGTATAAGTT CATGGGGCGT GCCCATTACT TGTGGGGACA 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

TAAATTCACC AAAACTGACA TGCAGTACAC ATTCCAGATA CCATTAAGTC CCATTAAAGA GGGTTTTGTG ACGGGTACAC TTAGGTGGTT TTTAAGTCTT 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

TTCCAACTGT ATCGTGGTTC TCTCGACATT ACCATGACAT TTGCAGGAAA AACTAATGTG GATGGCATTG TGTACTTTGT GCCTGAGGGT GTTGCGATAG 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

AGACTGAGAG GGAGGAGCAG ACCCCTTTGC TCACATTGAA CTATAAAACA TCGGTAGGTG CCATTAGGTT TAATACTGGA CAAACTACGA ATGTCCAGTT 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

TAGGATCCCT TTCTACACGC CACTGGAACA CATCGCAACC CATTCTAAAA ATGCGATGGA TTCAGTCTTG GGGGCAATCA CAACCCAGAT CACTAACTAT 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

AGTGCTCAGG ATGAGTATTT GCAGGTTACC TACTACATCA GTTTCAATGA AGATTCACAG TTTTCTGTTC CCAGAGCGGT GCCAGTGGTC AGCTCATTCA 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

CTGACACATC TAGCAAAACA GTGATGAATA CATATTGGCT TGATGATGAC GAGTTGGTAG AAGAGTCCTC CCATTCTAGT TTCGACGAAA TTGAGGAGGC 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

CCAATGTTCG AAATGTAAAA TGGATTTGGG GGACATTGTG AGCTGTAGTG GAGAGAAGGC AAAACACTTT GGTGTGTATG TTGGAGATGG TGTTGTACAT 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

GTGGATCCAG AAGGCAATGC CACTAACTGG TTTATGAAGC GAAAAGCTAC AGTCAAGAAG AGCAAAAATC TGGACAAATG GTGCTTTGCC TTGTCTCCAC 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

GCATAGATAG GACACTCATA TGTGAGACAG CCAACCTGAT GGTGGGACGC GAGGTTGAGT ATGATATCTT TGTGAAGAAT TGTGAGACAT ATGCTCGGGG 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

TATTGCATCA GGCGACTATG GGACAAAAGA AGGAGAAAAA TGGAAGACCT TACTTTCTGC TGTGGGTGTA GCCGCCATGA CCACAACGAT GATGGCTATG 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

AGACACGAAT TATTGGACAC ATCGCTCACC AAATTGCCAC AAAAAGTTGG GGAAGTTACC AATGAGGTAC GCAAGATTCT TGAGGATACG AGTGCAGGTG 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

TTAGAGAGTT TAAGGAAAAA GTCTCTAGCA TACTCAGGAA GACTTGGCCC GGGAAGACAT CAATAAAAAT AATGAAGTGG ACTTGCAGGA TTGTGAAGAT 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

GTGTGTTGGT GTGGGTCTGT GCTACGCACA TGGATGGGAC TCAAAGACTG TGACTGCTGT GGTCACAATG TTTTCCATGG ATTTTCTTGA TTTGGTGATA 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

GACGGTATAG AGATAGGGCG CATGATAATT GATGAGCTCA CAACCCCAAA AGCTCAAGGA CTTTCTGAGA TAAACCAAGT CTTGTCCATT GCAAAAAATG 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

CCAAAGACGT CATCAAGATG TTGATAGAGA TTTTCTGTAA AGTTATTGAA AGGATCACTG GTGAACATGG TAAGAAAATC CAGTGGGCCC AGGACAAGAA 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

GGAGGAAATC ATGAATGTCT TGGAGAGAGC TGAAAAGTGG ATTACAACTA GTGATGACCA TTCAGAGGGT ATTGAGTGCT TGAAGTTAGT TAGGTCAATA 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

CAGTCAGTCA TTAGGGGTGA AGAATCTCTT AAAGAATTGG CAGGTGAGTT GCGTGCTGTT GGTACGCATG TTCTGAATAA GTTGGGTAGA CTAGACAAAC 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

CAAATGCGCC TATTTTAGTC AGGGCTGAGC CCACGGTTTT GTATCTTTAT GGCAACAGAG GAGGGGGTAA GAGTTTGGCT TCAATGGCGA TTGCTGTGAA 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

ATTGTGCAAG GAGTTAGGAA TCTCGCATGT GGAAGGCATT TACACGAAAC CCATCATGTC GGACTTCTGG GATGGATATG CTGGTCAGCC AGTAGTGATA 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

ATGGATGACT TAGGACAATC TACATCAGAT GAAGATTGGA CAAATTTTTG CCAGTTGGTG TCCTCCTGCC CTTTACGGTT AAATATGGCC AATTTGGAGA 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

AGAAAGGGAC ACAGTTCAAC TCACCATTCA TTATAGCATC TTCTAATCTT TCCCATCCTT GTCCGAAGAC AGTGTACTGT ACAGATGCCA TCGCTAGGAG 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

GTTGCATATT AAGGTCAAGG TTAGCCCGAA AGAAGAATTC TCTACTCATG CCATGCTTGA CGTGGCAAAG GCCAAGAAAG CAGGTGCTTA TTGCAACCTT 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

GACTGTTTGG ACTTCCAGAA GATCAGTGAC CTCGCATCCA CACCAGTTAG TGTCCAAGAT ATAGTGCTGG AGATGTTGCA TACCAATGTT GACAAGCAAA 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

CCCTGATGGG GGACATCATA CAGTATTGGG CGCAGTCCAA CCCTCGAGAG GTTTTTGACA CAATGGCTGA GGGAAAGAAT TCTGGTAAAT ATTTATGGTT 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

GTTTGAGAAA ATCAAGACAT CTAAATGGTA TATATTAGGA TGTGTGGGAG CAGTTCTATC AGTGTCTGTC TTGGGTGTGT TTGCGTATCA CATGATTAAA 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

AACCATTTCA GAGATCAACA ACATGATCAG TCTGCTTACT CTGCCGCGAT CAAGCCCCTT AGAGTTGTTC GCTTAGAACA ATCAGATGCG CAATCAGTTG 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

TGGATATATC CAATGTGGTG CATGGCAATC TGGTTAGAGT GGGAGTAGGG CCTAATGAAG CTAGGATTCA CTGGTTGTAT AATGGTTTGG GTGTTTATGA 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

CACCTATATT CTGATGCCAT ATCATGGCAT AAAAGATGCT GATGTTGATG ATGATCTATA CATTGAGAGA GCAGGGACCA TTTACTCGAC CAACATGAAG 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

ATGGTCCAAG TTTTGTTCTT GGAGTCCCGT GAAGGTGATC TGGTGTTGAT AAATGTCCCT CGTTTGCCTA AATTTAGGGA CATACGCAAT CACTTTTCTA 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

CTGAGGAGAA CATACGCAGG GCAGAAGGCA TGCCAGGGAC TTTGTGCACT TTGGACCATG AGAGGTTCAC CCTTGTTACT GAGAGCGACC TTAAGATGGT 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

GGAGGCAGCT ACATATGTCT GCGAAGATGA CAAGGGTGTG CGCACTGATA TTAGTGTTGG GCGCAGTTGG AAGGCGAAGG CTTGTACGGT CGCAGGGATG 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

TGTGGTGGTG CCTTGGTCAC TTCTAACAAC AAAATGCAGA ATGCGATTGT AGGTATTCAT GTTGCTGGAG GGGCGCACGC AATTTCTAGA GTGATCACAA 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

AAGAGATGAT AGAGGAGATG CTCAAGACAC GAGCACAATG TAGTAGGATA TGGAAGACTG AGTTTGTGGA AGAGAAGATA TCTGTGGGGT CTAAAACGAA 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

GTACCACAAG TCCCCTTTAT ATGATTTTTG TCCACAGGAG GTTATTAAAT GTCCCACTAA GTTGTTCTAT CAAGGAGAAA TTGATGTTAT GCAAGTCATG 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

TTGGCCAAAT ATTCGTCTCC GATTGTTAGT GAGCCCTTAG GGTACGCCAC CGTCGTGGAG GCTTATACCA ACCGTATGGT CAGTTTCTTT TCTGAGCCTC 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

GTCAGTTGAC CTATGACGAG TGCATAAATG GTATTGAAGG TCTTGATGCT ATAGATTTGA AGACGTCAGC TGGCTTTCCG TACAACACTC TAGGTCTCAG 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

GAAGAGTGAT TTGATCATTA ATGGCAAGAT GGCACAACGT CTGCAGCAGG ACGTCGAGAA GATGGAAGAA GACTTGCACA TGAATCGATC CATTCAAGTG 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

GTATTTACCA CGTGTGCCAA AGACGAATTG CGTCCTCTAA GTAAGGTTAT GCTGGGCAAG ACCAGAGCCA TAGAGGCTTG CCCCGTTTCG TTCACCATCC 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

TATTTCGCAG GTATTTGGGA TACGCTTTGG CGCAGATTCA GAGCCACCCT GGTTTTCACA CAGGGATAGC AGTGGGCGTG GACCCTGACC AAGATTGGCA 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

CTGTATGTGG TACAGTATTG TTACTCAATG CGACCTTGTT GTTGGTCTTG ACTTTTCCAA CTATGATGCT AGTCTGTCCC CGTTTATGAT ATACCATGCT 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

GGGAGGGTTC TGGGCCAAAT TTGTGGTTTG GACCCAAGGT TGGTGGATAG AATAATGGAG CCTATTGTTA ATTCCGTTCA TCAGTTGGGC TCCATGAGAT 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

ACTATGTCCA TGGTTCTATG CCATCTGGCA CACCTGCTAC ATCGGTGCTC AATTCTATAA TTAATGTTGT GAACATCTGC CATGTGTTGT GTGCATTGGA 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

GAAAATAAGT GTATTTGAGG TTTTCAAATT ATTCAAGATC CTCACTTATG GCGATGACGT ATTACTTTGT ATAAAGAAGG AGTACCTAGA CCAGAAGAGT 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

TTCCCGCTAT CTAGTTTTGT TCAGGGGCTG GAAGAGCTGG GACTGAGCCC CACTGGTGCT GATAAGATGG AAGTCAAGGT CACGCCAGTG CATAAGATGA 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

GTTTCCTAAA GAGAACATTC TATGTGGATG AGTGGTCCAT CTGTCATCCG CGTATTTCTG AGGAGACTGT TTATTCGATG CTGGCTTGGA AGAGCGACAA 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

TGCATCCATG AAGGATCTGA TAGAAACGAG TATATGGTTT ATGTTCCATC ATGGCCCCCG GAAGTATGTT AGATTCTGTA CTTGGCTGCG CGGTGTTCTG 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

TGCCGTGTGG GTATTGGGCT CTACATTCCA ACTTACAAAG AGCTGGAGGT GAGGTATGAT AGGCTTGTCA AGTATAGGTT CATAGATGAT AGCTTTTAGA 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

TTTTACATAT TTGAGTTTCC ATTTCTGTGT AGTTTTAGTG AGTATAGGAG CTTATGTATG TTTAAATGAT AGGTTTGTTT TAGATTTTTC ATTTATCCTT 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

GAATTTTTAA TCATAGTGTG ATTATAGCAT TCAAAAAAAA AAAAAAAAAA AAAAA
^7001      ^7011      ^7021      ^7031      ^7041      ^7051

Credibility of mRNA sequence:

end-to-end_sequence_reverse_engineered_and_should_match_experiment

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

Avian encephalomyelitis virus Calnek

A promoter reported in cDNA corresponding to IRES sequence:
not tested 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: `0`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
polyprotein

The description of the protein encoded in this ORF:
Avian encephalomyelitis virus polyprotein.

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):

495-6899

OPTIONAL: The function of the encoded protein

NP_653151.1 aev polyprotein [Avian encephalomyelitis virus]
NP_705595.1 putative VP4
NP_705596.1 putative VP2
NP_705597.1 putative VP3
NP_705598.1 putative VP1
NP_705599.1 H-rev107 homolog
NP_705600.1 membrane-associated protein
NP_705601.1 ATPase
NP_705602.1 membrane-associated protein
NP_705603.1 VPg
NP_705604.1 Chymotrypsin-like cysteine proteinase
NP_705605.1 RNA-dependent RNA polymerase

Citations:

Bakhshesh M., Groppelli E., Willcocks M. M., Royall E., Belsham G. J., Roberts L. O. (2008) The picornavirus avian encephalomyelitis virus possesses a hepatitis C virus-like internal ribosome entry site element. J. Virol. 82(4):1993-2003

IRESs:

IRES:

Version: `0`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš
The IRES name: `AEV`

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

1-494

Conclusion:
strongly_supported_IRES

How IRES boundaries were determined:
experimentally_determined

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

TTTGAAAGAG GCCTCCGGAG TGTCCGGAGG CTCTCTTTCG ACCCAACCCA TACTGGGGGG TGTGTGGGAC CGTACCTGGA GTGCACGGTA TATATGCATT 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

CCCGCATGGC AAGGGCGTGC TACCTTGCCC CTTGACGCAT GGTATGCGTC ATCATTTGCC TTGGTTAAGC CCCATAGAAA CGAGGCGTCA CGTGCCGAAA 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

ATCCCTTTGC GTTTCACAGA ACCATCCTAA CCATGGGTGT AGTATGGGAA TCGTGTATGG GGATGATTAG GATCTCTCGT AGAGGGATAG GTGTGCCATT 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

CAAATCCAGG GAGTACTCTG GCTCTGACAT TGGGACATTT GATGTAACCG GACCTGGTTC AGTATCCGGG TTGTCCTGTA TTGTTACGGT GTATCCGTCT 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

TGGCACACTG AAAGGGTATT TTTGGGTAAT CCTTTCCTAC TGCCTGATAG GGTGGCGTGC CCGGCCACGA GAGATTAAGG GTAGCAATTT AAAC
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491

Remarks:

This IRES represents full-length 5'-UTR (1-494 bp) of AEV mRNA.

The AEV IRES element displays resistance to an inhibitor of eIF4A and functions well in the presence of
cleaved eIF4G.

Mutational analyses of AEV IRES shows similarities of AEV with HCV and PTV-1 IRES in domains IIIE and IIIf.

Deletion of 100 nt from the 5' end of the 5' UTR (mutant AEVm3) had some effect on IRES activity in cells,
reducing the activity to 50% of the activity of the wild type (wt).

Citations:

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