IRESite_Id:616 summary record describing characteristics of HiPV

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `616`	Version: `0`
Originaly submitted by: Martin Mokrejš	Submission date: `2009-08-29 17:15:07`
Reviewed by: Martin Mokrejš

IRESite record type:

natural_transcript

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

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
3493357

The mRNA/+RNA description:

Himetobi P virus genomic RNA, complete sequence.

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

GTTAAAAGGG CATATAAGTT TTCAAGAAGA ATACCTTTTA TGTAGTTGAT AGATTTATCT GTCATACGTT TATAGGTTTC TTCAAGAATA ATTTAGATAC 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

CCCTTTTGGA AGTGCACTTA ATTACGTGCT TGCTACTATG TTAAGTCCGT GCGCCTGTTG TTAACCGCAG CACGTACGTC CTTTACTTGT AGCACATGTT 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

TTTAATGTGG GCGAGAGAAA TTTAAAACCC AATTTCTTAA TAGATGTAAC GTTACTTTAT GTCATTTAGT AGTATTCATC TCCAAGTCTT AAGTGCAAAA 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

GTTGTCTAGA ACAAACACTT AAGCAACCAA GATTTTCTGT GCAAAAGTCA TCTAGAATGA ACACAGAATT TCTCCGGACA ATGACATCCA ACCCTAAGTG 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

TAATAGCGAA GTGATTCAAT ACTATACGAC AAGAACTGAT ACTCAAAAAT CAGACGTAAG TTTAGCCTTC ATGAACTTGA AGCCTTTATT TACAGCTTAG 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

TACCTGCCGC GTCCGTGTGG GAAAAGCAGT CTGAGAGCAG CCGAAAATAG ATTTTTAATC TAAGCAGGTA ACAAATAACT CCTGTGGCAC TCTTTGGTAA 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

GTTCGAAATC TTGTATTGTT TCAGTTTAAT ATTATACACT CCAACCGATA GCTTTGGAAC CCGAATGGTC GGAATATCCA TGTAAGCGAC CTTAGCTATT 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

TTGTATTTGG CGCGAGTAAG CCTATGAAAA ACTTCCTTCT ATGCTATATG TGTAGAAATA GGAAGCAGAA GTAGTAGCAG CGAGACCGCC ATCCGTAATA 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

CAACCCGGAA TAACCTCCAA ACCGAGAAGA ACTAGTCTAT GACCAGACGA AAAGGAACTA GTCCCTGTTC TTTTCTTAGG GCCTTTTTCA CCTGGGTAAA 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

GTGTAGTTAT TGCGTATAAC TCTGGTATCA ATACCACCCG GAAGAAATTA TTTATCTGCC ATCATGTCTC AATTAATCCA AACCAAAATC TCTAGTTATA 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

AGAATTATGT TAACCAGAAA ATTAAGGAAG GAAGGTCCAA CATCCACCCC TTGCTTCGGG CAACTCCGAA TTTTGTGGAA GATGTTGAAT CGGATTTGAA 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

AAATTTGAAT GAAGCAATCC GGACTACAGA TGTTTTTAAA AATTATGTTG TTGAGTTGAC ACTAGGTCAT CAAGATCTCG ATTTTGGCTA TTTTAAGCTA 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

TACAATCGTG ATCTTGAGAA TCTTGTCTAT TCAATGACAT CGATGAATGA AACACATTTG CATCCGGACC TTTATATGAA TTTGGAATAT GTGATGAACC 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

CAAATAAGGA CCTGGACTTA TTGTGTGGAG AGAATGATTC ATGGGACCAG TATGTCCTAT CCAGACAGCT CAAAGAAATG CGAGCTATTT GGGTGGGATT 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

GCAAGCTGGA AACGTGGATC CTATTCTCGA TACAGTGAAC CCAGACTGTC AGATTGCTTT GTATTACATG ACCAGAGTTT TGTATGATGC AAAGGTTTGT 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

TCTCGACGTG TTCGTAGAAC TGCCTATGCA TTATGCAGAA TCCTGAATCA TGTGCCAGAG CATTTGATAC CTTATATAAA CAAAGATCTG ATTGAAAATT 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

TTGAATTGTG TGTACCGTTT AGAAGAAAAC TAGTGTGGTA TCTCCTTAAG AGATGTCTAT TGTTTTCTGA TCTTCCATTA GAAATAAGAT GGAAGGATGT 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

ATGCTATGAT GAAAGAATGT ATGAAGAGAA GATAGAAGAA GTTCAAGAGC AAGTCTTTAA TGTCGCGTCT CAGAGCCGTA GTGACATTGA AACACTTGTA 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

CTGTCATGGA ATGAAGTATG TGAAAGTATG TCTGTTGAAC GAATGGTAGC AGTGTGTGAA TGTGCGCGTG AACAAGGTCT ATTTAATGTG AGTTTAGGAA 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

TCAATGATGA TACAAAAGGA TACATCGATT CTGTTGTTTC CAGGATAGGT AATGGTGTTT GTAGCTTGTA TACAGACACC ATGCTTGGCC TGGAGGTAGC 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

AGCATCGGAT ATCCTTGTGA ATCTCAAATA CATTGTTGGT TTCTTAGTAG CAGCAGTACT TGTAGGTGTT GCAACTTACT GTGGTGTAAA AATGATCTCT 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

AAATTGTTTA ATTTCTTTTT GTCTCTAGTT TTTAAAAGTG ATGAAAGTAT GATGAATGTA GCGCAAGAGC AAAGTTCCGG TGACACTTGG AACGGACCAT 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

TAATGTTATT GATGTCCGTT TTCGGAGTGA GTGCCGGTGC TTTGAAGAGT GCTAGATGTA TGAATGCAAT TAGGTGTATA TCTATGTTGC CTCGAGCTGA 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

ATCTGGAATT GATACCATCT TCACCTGGAT TAAATCGACT TATACTATGT GTTACAGGAT CTTCTCCAAG TATGTACTTG GAGTGGACCC TGGGGTACAA 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

GTGTCTGCCG ATAGTCATCC AGTTGCAAGT TGGCTGGAGG AGCTTGGTGA GCCGTATAAG AGTTTTTCAA ATGGAACGTT CTCTTACGAC TCAGCAACCT 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

TCTCCATTAT CCATTCTCTA TTCATTAGAG GCCTGAATCT CCAAAGATCT GAAAGTTTTA GAAGTGACCA AATAGCAATA AGAACTGGAA TGGACTGTTT 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

AAACAAAATA TTGACTGAAT TTAGATCTAG AAATATAGAA GCAGGAAGTG TTCGAAATCC CCCAGTTGTG ATCTACCTTC ATGGTGGGTC AGGTGTGGGA 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

AAGAGTACTT TGACTAATGT CCTTGCTGCA TCTATTCTTT CAAAAATCCA ACCTGATATG AATCTCAAGA AACAGGGGAA GAATCTCATT TACTCAAGAG 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

CGTCAGAGCA AGAGTTTTGG GATGGGTATA CTGGTCAGCT TGTCACTGTG TTTGACGACT TCTCTCAGCG TGCGGATTCC GCAGGGAACC CTAACGTAGA 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

GTTGTTTGAC ATAGTGCGAG CTGCCAATGT TTATCCTTAC CCCTTGCATA TGGCGAATTT GAGTGACAAA GCATCCACGA ATTTCACCTC CAAAATAATA 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

ATATGTTCCT CCAACCTGAA ACAACCAAAG ACTGAATCTC TTAATTTCCC CAATGCTTTA TATCGTAGAT TCGATGTGTG TGTGAGTGTA AGTAAGAATG 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

AAAAGTACAA TGATGTTGTA CCGACTCACT TTGTTGAAGA CTTTTATCAA TTTCAAGAGT ATGATATGCT CAAGAAAGAA GATTTAGGAT CAACAGACTG 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

GGAAGGTATA GTTGACAAGT GTGTTGAGCT TTATAAGCAT AGATCTGATT TTGTGTCTTC TCTAGATGAG AAGATACAAG AAATTCTTCA ATCGACTCAG 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

TTTGAAGATG TACCGTTAAA TGTAGCTCAA GAACAAGTGA ACTGTGATGT GTTAGGTTTT TGTAATTGTG ATTGTTGGGG AGAAACTATG TGCGTGATGA 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

CCAATCTTCA TCAACCAAAG TGGAAACAAT GGTTGTTGAA GATGAAGCAT TACGTAACTG GAATCCCCAA AGGAAGTGTG TATGAAGCCT TTGAGAAAAT 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

GCGCTTTTTG AGCCAAGAAT ACCTCAATGC AAGTAAATCG CGCTTTGGTA GATGGTTAAC ATCTATCAAG GAGCGATTTC CTGTGATAAA AGATCTGAGA 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

CTCATCCATC TTGTCGTAGC GACAGTTGTG ATGGGCCCTA TGGTGTTCTT TGGTGTAAAG AAGCTTTTTG CAAAGAAGAA TGAATGTGTT GAATTGCATG 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

TGTCTGAATC GTATGATGTT GGTAATATCA AGCCAACAAG AACTGAATCT TATGAAACCC CAAATGTAAA ACCTACTAAG ACTGAATCTT ATGAATCTCC 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

AAATGTAAAA TCTGTAAAAA CCGAATCTTA TGAATCTCCA AATGTAAAAC CTGTAAGAGT TGAAATGAGC TTCCCAAGTG GAAGAGTTTC TGGTTCCGAG 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

ATGAATCTTG CTTCTTTACA ACTTGATAAT TATATCAAGG AAGTGAAGGA GCAGGGTGTC TCCGACCAGA ATGCTGCCGA AATTTGTTCG AAGCTCGTAA 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

CAAAAAATAT GTTTAAAATT TATGTTGAAA ATGATCATGT ATCTATTCCT CTAGGACATG TGCTCTTTAT TAAGGGTCGA ATTGCGATAA TGCCTCATCA 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

CTTTCTTGCT GCTTTGAAGA AATTCAAGGA ACAGCATGAG GGTGGTGTGG TCTATTTTCG CAACCTCTTT CTAAGTCGTG CCTTCTTCGT AAAACTAGAA 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

GACATGATTC GGAAGGTAAA ACCCTTTGAA TCTCCAGAGC CAACAGAGTC CTTAGCGGAA AGTCGTGATT TGTGTTCGTT TTGTTTAGAT AATACTATTA 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

ATTTTTCTGA TGTGTCGAAA TTGTTTGTAA GTAAAAGTGA TCTGAGTTAC CTGAAATCCT CTGATATCCT ACTCCCAACC CTCTCAACTC CCAGCAATGG 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

CCAAGCCTTT GCTAAAATCA AAATTGGAAG AGCTGCATCT GGTATTCAGC GTCAAGATTG TCGTGTCTAT GGCAGTGACC CAACTGATCG TTTACGATTA 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

GTTCGTTACT GTTGGAGATA CGTGCTTGAA ACTGAAGTCG GTGATTGTGG AGCTCCCTTG ATTGCGCGGA ATGTTGCTTT AGCAGGCCGT AAAATCATGG 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

GAATTCACAT TGCCGGAAAT ACCGATGCAG GTTTTTCAAC TCCCCTGTAC AAGGAAGATA TAGATACAAT TTTGTCTATG TATCCACTTG AATCTCAAGT 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

TGCCAATGAG CAATGCCAAC CCATACACAT GCCGACGGGT TGTCATTTAC CAGAATCAAC ATCCTTTGTG GTTCTAGACA AGATAGAAAA ACCTCTGTAT 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

GCTTCCTCTA AATCTGTGAT CTCACCATCC CCTTTGCATG GAATCCTCAC CACTCCCAAG ACGAAACCAT GCCAACTCCG TGATACCCCC GAATTTTCCC 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

CAATGCAATA TAGATTAGAG AAATTTGCTT CCCCCTGTGT GCCTGTAGAT GCTCGTATGT TAGAAAATAG TGTAAGTGCT GTGTCCAATC ATTTGTGTAA 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

AAGTATTTTA GAAAATAAAG ATCTGATAAC AACTAGTGAT AAGTCAAGGT ATAGCTTTGA GGAAGCTGTA TCTGGAATTG ATGAAGAAGA GTTCATTAAT 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

TCAGTGAAGA GAAGTTCTTC TCCAGGCTAC CCCTTTGTTT TTGACAAAGA GTGGAATAGC AAAGAGAAGA TCTTCGGAAA AGGGCCAGAG TTTGATGTGA 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

CCAATGAGAA GGCTATACTT CTTCGACAGC AAGTCGAAGA AATTATAAGC CAAGCCAAAT TAGGAGTTCG CCAGCAGCAC GTTTTTATTG ACACTTTGAA 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

GGATGAGCGT AAGCCCATCC ACAAAGCTCA TAAAACGCGT ATGTTTTCGG CTTGTCCTCT TGATTATCTC ATTGCTTGCA AGATGTACTT TGGCGGTGTA 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

GTCTCCCTCC TCCAAAAATC CAGAAATATT TGCGGAATCT CAGTTGGCAC TAACGTCTAT TCTTATGATT GGACGATTAT TGCCAACACC CTCCTAAGTA 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

AGTCCCCGTG TATGATCGCT GGTGACTTTG AGGGGTTTGA CTCTTCGCAG TTGCAGGACA TCCTGCGTGC GGCGAGTCAA GTGCTCCTCA ACGTCTCCAG 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

AGATATGCTC GGATCGACTG AAGAAGATCT GCTTGTTATG CAAGTACTTC TGGAATCCCT CCTCTCAAGT GTTCATCTCA ATAATAATTA TGTATATATG 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

TGGTTGAAAG GTCTCCCTTC AGGACACTTT TTGACAGCTA TTATTAATTC TATTTTTGTA CTCATTAGTT TTAATAGTGT GTGGCAAATA GCCTTTGGTG 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

TGAATGTGAA GAAAGCATTT GAGTTCTTTG AAGTGTGTGG CATAGTAGCT TATGGTGATG ATCACATTGT GTCAGTCCCA GAGTGGGCTA CCAATGTGTT 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

CAATCAGTAT GAGCTGGCCA GTTTGTTTAA GCAAATTGGA TTGTCATATA CTTTGGAGGA TAAAGATGCG ACTGTGAATG CTCCGTATCG GAGTTTGAAT 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

GAAGTGTCTT ATCTCAAGAG AAAATTTCTC TGGGATGAAG ACAAGCGTCA ATACTTGGCC CCTTTGAGTT TAGAGACTAT TCTCGAAACT CCGATGTGGG 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

TTAAGAAATG TGTAGATGTA AATCTACAAA CCACCACTGA GTTGGAGAAC AGTTTGAAAG AATTGTGTCT TCATCCTCAG TCAGTTTGGG ACTCTCATAT 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

TGAGAGTTTC AAACATTGTG CGAAGCTTCT TGGCTCGTTC CCTCTGTTCT TGGACAGAGA GTTCGCCAGA AGCTTTGTGC TCAACGAAAA TGTGTGATCT 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

GATTAGAAGT AAGAAAATTC CTAGTTATAA TATTTTTAAT ACTGCTACAT TTTTAAGACC CTTAGTTATT TAGCTTTACC GCCCAGGATG GGGTGCAGCG 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

TTCCTGCAAT ATCCAGGGCA CCTAGGTGCA GCCTTGTAGT TTTAGTGGAC TTTAGGCTAA AGAATTTCAC TAGCAAATAA TAATAATAAT AATAACAATA 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

CAAATTCCCA GAAAGTAAAT GACACTACTT TCTCTGATCG TGAAAATCCA TCTGTTTCTG CTGGTAGAAT TGATGAATCT GTTGAGTTTA CTCAAGAGAT 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

TACTCACTTT GCCGATAATG CTCCTGTAAT TGATTCTTCA ATCGCAGGGG AAACGAATCT CAAACCTAGT TTAGTAACGG ATTTCCATGA TAATAGACAA 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

CATAGTGTTA TTTCCTTTCT TCAACGTCCT CAGTTGATCA AAACTGTTGA ATGGGCTCCT GGAACTGCTC AGGGATCCTT GTTGACAACC ATTGACATAC 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

CTGATGATCT TATGACATCT ATGGTATATG ACAAGTTAGA TGGTTTCGCC ACTTTCAAGG CGGATACTAT CTTCCGTGTT CAAGTCAATG CTCAGCCATT 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

TCAATGTGGC CGTCTTGTGA TGGCTTACAT TCCAATGCCT GATTCGTTGT CGACCAGGAC CGCTGAGTTG ACCAGGGCGA TAGATCGCAT TATTGCACTA 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

CCGCATGTTC AACTCGACAT TAGTGAACAA TCTGAGGTTA CACTGCGAGT ACCATATATC TCCCCCTACT CTGCCTACAA TTTAATTGAA GGAAGATATA 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

GGTGGGGACG TGTGGTTGTT GCCGTGTATT CCCCTCTTAA TCAAGTTTCT CAACCGAATC TCAAAGTAAA TATTTTTGGA TACTATGATA ATGTAACATT 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

AGGTTACCCT ACCTTAGGAA CCATAGCTTT AAGTCCCGTA GCTGTAGCTA GAGAACAAGT GAATCTCAAT TCTGAAGCTG ATATGCTTCG AATCGCCGAA 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

TCTCGTAATT TCCCAACTAA AATAGCTGCT AGCATCAACG GTGTAATTCA GAAAGGTTCT GATATCTTGG GTAATGTTTT ACCGCAGACT AAGAGTTTTA 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

CCAACCCAGT TGCTAAAATT TCAGATGCTG CGTTTGACAT TATTTCCATG ATACCAGGAT TTAAGAAACC TGATAAAACT AATCACGGTG AAACTGTACT 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

TTTCCGACCA ACACAGTACT TTGGTAATGT TGATGGTGTA GAGCATTCTC ATAAACTTGG ATATCATGCG ATGAATCGCA TTGATTTCCA ACCTGATTTC 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

GCTGGTAGTA AGATGGATGA AATGTCATTT GATTATGTTA AACGCATACC AAATTACATT GATTCATTTT CCTATTCGAA TTCAAATGTT TATGGTGATA 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

CTCTGTGGTC AACTGCAGTT TCGCCTTGTT ATAGATCTGC CGATTATACA ACAACAAATG GTGCTAGAAA TTTTTCATTT CCTACCCCTA CTTCTCTTAC 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

TTATGCAATA GGACCTTTCT CTTTGTGGAG AGGGTCAATA GTTTATACTT TTAGAGCTGT TAAGACTGAA TATCATAGTG GTAGAATAGA ATTTAGTTTT 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

AATCCTTTCA TTAATCTAGA CATGTACAAT ACTAATAAGA CAACAAGATC TGAATATGTA TATAAAGTAA TTTTAGATTT AAGAACTCAG ACTGAAATTT 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

CCTTCACCGT GCCTTATGCT GGGACTACCC CTTTCAAACG CATTAGACCT GAAATCAACC CTCTTTCCTC TTCTGGAATT AGTGTTGATG ATTTCAATGT 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

GTTTGCAACG GGTGTTCTTG GTGTAAGAGC CCTTACTCCC TTAGTTTTAG GATCAACTGT TGTACCATCC ACAATTCAAA TATTAGTGGA AATGAAAGGT 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

GGACCTGATT TTGAGGTTGA GTGCCCTAAC AGCACCGGCT GGATGCCAAT ACATAGTATT ACTCCAGCCG CTACTGGTAG GGACACTGTA GACTCTGAGT 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

TGGTTTCGAC TGCGCAAGAA CAAGCTAACT TTGCGTCTAC TGGACAACAT GATATTAGAT CTGATTATTT AGAAGATAAG ATAGAAATTA AAGATATAAC 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

TGGAATCTCA TCGAATATAT CCCTAAATAC TGAAAAATCC TTATCCTGTG TAGGAGAATC ATTTGGAAAT TTTCGTGATT TGATTAAGCG ATTTGGTTGG 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

TTTAAGAATC AATCGGTTGC TTTTACAAAT ACGAAAATTC TAAGTGGTAT TCCAATTGTC AATTATACAT CAAGTATTGC TGGCACAGGT CTCACGCTGA 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

CAGCTGATGG AGGCTCTACA CCACTAACAA TGGTGAGTAG CATGTATGCT TTCTTTCGCG GAGGTTTTCG CGCGAAAGTA TACATCCATG ATCTGCCTGC 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

GGGGGAAATG GTCCAGGGTG CTTTGATTGA TAATTCACAA AACACAAATG TTCCCCAACC CCTTGCCCTA CAATCCCTTC AATATGAACT TTCCGATAAG 
^8701      ^8711      ^8721      ^8731      ^8741      ^8751      ^8761      ^8771      ^8781      ^8791      

AGACTTTATG AGTTCTCCTG GCCTTACTAT TGCCCCACAT ATTTAACGAC CTATCCTTCT GGGTCGCTAA ATTATATTTC CGATCTAGTG AATCCCACAA 
^8801      ^8811      ^8821      ^8831      ^8841      ^8851      ^8861      ^8871      ^8881      ^8891      

CGTATGCACG CATCACAACC ATCAGTGAGT ACGCTACAGC TTATGCTATG GCTGCTGCTG ATGATTTTGA TTGCGGGTTT TACTTGGGGG CTCCATTATC 
^8901      ^8911      ^8921      ^8931      ^8941      ^8951      ^8961      ^8971      ^8981      ^8991      

TTGGAACTGG GAAATAGAAA GACTGGCAGG ACGATTAGAC TCTTCTTATG GATTTGTCAC ATCTCCCCTT AGAGTAGATC CCTTTGACAA AGTTTAGAAT 
^9001      ^9011      ^9021      ^9031      ^9041      ^9051      ^9061      ^9071      ^9081      ^9091      

AGTTTGTAGT TTTAAGATTG AGGTTTTTTG ACGCTAGCCC TATAGTAGGT AAGCTTTTTC CTCATAAATA TTTCTTTGGC ACAGAACCTG GTTAAGAGGC 
^9101      ^9111      ^9121      ^9131      ^9141      ^9151      ^9161      ^9171      ^9181      ^9191      

TCCAGGTGAC ACACGAAAAG GTAGTTCCTA CATTGATGAG TTTAGGTCTC ATCCGTGTGC CATGTTTCTT TCAAC
^9201      ^9211      ^9221      ^9231      ^9241      ^9251      ^9261      ^9271

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:

Himetobi P virus

A promoter reported in cDNA corresponding to IRES sequence:
not tested The total number of notable open-reading frames (ORFs):
2

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

ORF

ORF position:

1

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

The abbreviated name of this ORF/gene:
NS

The description of the protein encoded in this ORF:
non-structural protein precursor

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):

964-6297

ORF

ORF position:

2

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

The abbreviated name of this ORF/gene:
CP

The description of the protein encoded in this ORF:
capsid protein precursor (36.5 kDa)

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):

6473-9097

Remarks:

The virus infects Laodelphax striatellus. It is presumed the capsid protein precursor is initiated at a CUA
codon and that the IRES-region contains several loop structures forming pseudoknots. In PSIV the capsid
protein precursor is initiated from a CUU codon.

Citations:

Nakashima N, Sasaki J, Toriyama S (1999) Determining the nucleotide sequence and capsid-coding region of himetobi P virus: a member of a novel group of RNA viruses that infect insects. Arch. Virol. 10(144):2051-2058

IRESs:

IRES:

Version: `2`	Last change: `2009-08-29 21:31:37`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `HiPV_IGRpred`

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

6286-6473

Conclusion:
putative_IRES

How IRES boundaries were determined:
experimentally_determined

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

GAAAATGTGT GATCTGATTA GAAGTAAGAA AATTCCTAGT TATAATATTT TTAATACTGC TACATTTTTA AGACCCTTAG TTATTTAGCT TTACCGCCCA 
^6286      ^6296      ^6306      ^6316      ^6326      ^6336      ^6346      ^6356      ^6366      ^6376      

GGATGGGGTG CAGCGTTCCT GCAATATCCA GGGCACCTAG GTGCAGCCTT GTAGTTTTAG TGGACTTTAG GCTAAAGAAT TTCACTAG
^6386      ^6396      ^6406      ^6416      ^6426      ^6436      ^6446      ^6456      ^6466

Remarks:

The IRES was NOT characterized experimentally.

Citations:

Nishiyama T, Yamamoto H, Uchiumi T, Nakashima N (2007) Eukaryotic ribosomal protein RPS25 interacts with the conserved loop region in a dicistroviral intergenic internal ribosome entry site. Nucleic Acids Res. 5(35):1514-1521

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