IRESite_Id:26 summary record describing characteristics of ERBV

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `26`	Version: `8`
Originaly submitted by: Václav Vopálenský	Submission date: `2005-08-17 00:00:00`
Reviewed by: Václav Vopálenský	Last change: `2007-05-11 00:00:00`

IRESite record type:

natural_transcript

The shape of the nucleic acid molecule translated: `linear`	The quality of the mRNA/+RNA sequence: `3UTR_possibly_incomplete`
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule: `ERBV`	The genetic origin of this natural mRNA/+RNA: `viral`

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
1262769

The mRNA/+RNA description:

Equine Rhinovirus type 2 genomic sequence.

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

TTTTGTAACT GAGGTTTTGA CATCTCATTG TTTTTGAGCC CCAACGTCTT GGTGGATGCT CAAAGAAGAT TACTCTTGAT GCTTGGCTCT CAGAAAGAAT 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

GGCACCTCAA TGTTTTGAGA CCCGATTCTT TTGAGTCGAG ACCATTTCCC CTTCCCTGAA GATTGCTTTT CTTCCAACTA AACCCCTATT GATGTGTTGG 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

TCGTTTGCCA ATCGGAGGGC GACAGGCACA GGTCGCTCCG AGTTCTAGTA GTGTGGGAAC TTGTTACTAC TGATGAAACG AGGTAGTGAC ACTCAGTACC 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

TGCGAACGAG GTCGGGGCCC TCCCTTCTTC CTTCACCCAA CTTTCACTTT TCGTTCCACT TTAGCAGGGG TCTTCTTTCT ATCCCCCTGG CGGCATTGGA 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

ACTAGCCGTC GCGTCTTAAC GCGCAGCCCT GAAGGCCCCA CACCTTGTGG ATCTTGCCGT GGGTATGTTT CTGGCATGTG TTTCTCAAGC CTGCAACCGA 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

AGCCGAACAG CCACATGAAC AGTTTGAGCG TGGTAGCGCT GTGTGAGTTG GCGGTGGATC CCCCTCGTGG TAACACGAGC CCCCGTGGCC AAAAGCCCAG 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

TGTTTACAGC ACCTCTCACA TCCAGGACGA CCCCATCCTG GCGCTCACTC TTAGTAGTAT GGCTTAGTAC GCATTAGGTG GTAAGCCGAG CTCTCCCTCG 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

GCCTTGTTCT GAATGCACAC ATGTCTAGGG GCTAAGGATG TCCTACAGGT ACCCGCACGT AACCTTCAGA GAGTGCGGAT CTGAGTAGGA GACCGTGGTG 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

CACTGCTTTA CAGATGCAGC CCGGTTTAAA AAGCGTCTAT GCCCCTACAG GGTAGCGGTG GGCCGCGCCC TTTCCTTTTA AAACTACTTG TTCTATGGTG 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

ACAATGGCAG GAAACATGAT TTGCAACGTG TTCGCTGGTC TTGCTACTGA AATTTGCTCC CCTAAACAAG GACCTCTCCT TGACAACGAA TTGCCCCTTC 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

CACTTGAATT GGCTGAATTT CCAAACAAAG ACAACAACTG CTGGGTTGCG GCACTGTCTC ACTATTACAC CCTGTGTGAC GTGACCAATC ACGTGACTAA 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

GGTCACTCCA ACCACTTCTG GCATTCGGTA TTATCTCACG GCTTGGCAGT CCATTCTCCA GACAGATTTG TTTAACGGGT ATTATCCTGC TGCTTTTGCC 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

GTTGAAACAG GACTTTGTCA CGGGCCTTTC CCCATGCAAC AGCACGGGTA TGTTAGGAAT GCCACCTCCC ACCCCTACAA CTTTTGTCTT TGCTCTGAAC 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

CCGTCCCTGG TGAAGACTAT TGGCATGCAG TAGTTAAGGT GGACTTGTCT AGAACTGAGG CACGTGTAGA CAAATGGCTT TGCATTGATG ATGACCGGAT 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

GTACCTTTCA GGCCCTCCAA CTCGTGTCAA GCTGGCTTCC TCTTACAAAA TCCCTACTTG GATAGAGTCC TTGGCTCAAT TTTGTTTGCA GTTGCACCCA 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

GTTCAGCACC GCCGCACGCT CGCAAACTCC CTGCGGAATG AGCAGTGTCG TGGTGCCGGA CACTCCCGCC CCGAGGGCGG GCACAACAAT GAGTCTGGCA 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

ACAACGGCAC TATAGTCAAC AACTATTATA TGCAGCACTA CCAAAATTCA GTGGACTTGG ATGGCATGAC TTCACAAAAC ATTGGTGGTC AACCAGGCTC 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

AAGTTCCAAC CCTTTTTCTT CCATCTTGGA CATTCTCGGA ACTGCGTCAT CTGTGGCACT GCTTGACCAG GACACTGAGG ACGTAACACG ACAACCTGAC 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

AGAATTGTCA CTGTTCTTGA CGGGAACACC AGTCGCACGA CCCAGTCATC AGTGGGCATT TTGCGTGGCT ACAACTACGC ACCAGGCAAA CACACCCAGC 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

CCTCCAGTGC TCAAGACACC CCCAGCAAGG CTGAGCAGTC CGTTGAGCGA GGATTTACGT TTCAGCTTGC ACAGTGGGAG ACATCCAGAA ACATTTGGGA 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

CCATTTGACA ATCCCTCTTC CCATGTGCCC TGGTCTTATT AAGGTCTCTG GAATGTACAA AGCTTTCATT GAAACCCACG CCTACATTAA GAATGGGTGG 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

AAGATTCAGG TGCAGTGCAA TGCCAGCCAG TTCCACAGTG GCTGCCTTTT GGTTGCCATG ATTCCTGAGT ACCTTAGCAC TGCACAACAG GATTTTCTTG 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

GTTCGTGGCG AGACAAAACC ACGGATTCTA CACCCGGCAC GTGGGTGTGG AACACATATG AGGCTTTTCC CCCCGGTTTT CCTCCTCAGC AGATTACCCT 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

GTTTCCCCAT CAATTTTTAA ATTTGAGAAC TAACACAACG GTTGACCTTG AGGTCCCGTA TACAAATTTT GCCCCTTCTT CAAGTCCTAC TTTGCATTGT 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

CCTTGGACTC TTGTCATAGT TGTGGTTTCA CCCCTGCAAT TTGGCACTGG AGCTCCAACA CAGGTTCAAA TCACAACAAC CATCACTCCC ACTGATTTTG 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

TGGCGAACGG CTTGCGCCAA GCTGTCGCAC AGGGCATTCC CGGCACCCAG CCGTATGACA GGCAATTTGT GTCCAGTGAA CCTTCTGCGC CTCCACCAGT 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

ATACACACCA TCTTGGTTGC CGGAGCGCAG TTTTATACCT GGAAAGTTCA CTGATTTCCT GCAAGTAGCT GTTATACCAA CTTTGGCTGA AGTTTCTGTT 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

CAAAACTACA AACCAGTGCC TTCCTTTCCA GTGAGTAATG TTTTACAGAC TAAGCCTCTT GTAAATACTG ATTTGACTTT TACTTCTATG ACTTTCCGCA 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

ACACTTATGT GTCTGCGCTT TCTCTTCAGT ACACCCAGTA TAGAGGTTCC ATTTGTATGG ATTTACTTTT TACAGGAAGT GCTATGTGTC AAGGAAAATT 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

TGTTGTGTGT TATGTGCCTC CTGGTCGGGA ACCTCAGTCT TTGGATGAGG CCATGCAGGG CACTTATTCT ATTTGGGATT TGGGATTAAA CTCAAGTTTT 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

AAATTTGTTG TGCCCTACAT TTCTGCATCA GCTTACAGGT TTACTCATGA GGATGATCAG CCTTCAGCCT TGAATGCAGT CGGCTGGTTG CAAATTTACC 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

AACTCACTAA TTTGACTTTC CCACCAAATG TTCCAACACG GGCTGATGTT TTAGTCTTCT TTTCTGCTGG TTCTGACTTT TGTTTGCGTT TTCCGGTGGA 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

CACTTACCCC CGCACGGAGG GCACAGAAAA CATGGAGACT GGAGCAGTTG GACCCTCCGA CCCCTCAGAA ACCAGCGACT CCCATTCATT TGCTATGCCC 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

AATGTTGTTT CACATACTAA TTTGGAATTT TTGTTTGATA GGTACTTCTT TTCTGGTTTT GCCAACTCAT GTGATGTGAC AGCCAATACT ACCCACACAC 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

ACAGCGGCGA CACCCAGTTG AATCCTTTTG TGACACCAAA TTTTAAATTG GACAAAACTG TGCGTGACTA CATGTTACGC GCCTTCACTT ACTTTACTGC 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

TGACTTGGGA GTGGCTGTTC AACCCACCTC TGTCTCCTCA AAGCCTTTGC CTGCCGTGGA CTATTGGGTC GGTTGGCGCC CCGTTGGCGC GCCGGAGCCA 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

AAACTTTTGG CCTTTTCTGC CCCCAGTCCT GGTGACACTG TCACAGCGGT GAAGCGCTCC TCTGTACTGA GTGGAGGCTT CTGCCCAATT ATACACTCTG 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

TGATAGGGCA AGGTTTGAAT CAGGTCCAGA TGTCAATACC CTATACTACA CCTTTGAGTG CTATTCCAAC CAGTTATTGT GGCTATGCAG ACTACAAGAA 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

AAAACCCAGA CTTTTTGGAC ACCCTCCAGC TGCGCACTTT GGGACTCTTT CCATTCGGGT GCGCAATGTT GATCTGTTAC CTGAACAGAC CAAGAAGGAG 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

GACGACCCTC TTGTTGACCT CCGGTTTGCA TTGTTTACTA GGTTTAGAAA TCTTAAGGCA TACGCTCCCA GGCCTTTTAC CCGTGTGCCT AATTCTCCTC 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

ATGAGCAAGG AACTGCTTCG CGTACACTCG TGCGCACTAA CCACATAACA GCAGAATTTG TGGAGAAAAC ACCCCTGAAT GGTTTGGCTG CAGTTTTTAC 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

GTCATTGTCT ACTAGTGGTT ATTCTACTAA GCTTGTTTCT GAACCCATCC CCGAAGCAAC TTTGTCTACC ATTCTGTCTG AGGGTGCCAC AAATTTTTCT 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

TTGTTGAAGT TAGCAGGGGA TGTTGAACTT AACCCCGGCC CAACTATTTG GTCAGTGATG CCCGGTGGTG AACTCATTGA ATTTGCTACA AAGGTCTCTC 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

AAGTTTACAA GACCATCAAA GAAAAATGCA CTGACCCTAC CACTTGGATT AAAGCAGTTC GCAGACTCCT ACGGCTTTTG GCTGTTGTGT CTGCTTGGAA 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

GCATGGTGAT TGGTTTTCCA TGATTTGTCT TCTTGTTGAT CTTGGTTTTG ATTTGGCTCA ACTTTCTTAC AAAACTTTTT GGCAATATTT GACCAAACCT 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

TTTGCAGATG CTGGGCTGAA ATTTGACTTT GCTAGAGACC TCACCCGTCG CTTCCGCCGC GAGCAACCCC GTGCGCCGGA AGTTTCTCCC GAGGAGCAGC 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

GCATGGCGTA TGGTGCAGAC TTTCGCCAAG CTGTGCAGTA TCAGGAGAAT CTTCAGGCGC CCCGTCGGTC GTGGCGAGAA CGCGCACAAG ACACCTACAG 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

GTCTATCCGG CGCACCTTTT TCGACGACTC GTCATCCGAG TCCGAAGATG GAGAACCGGA GGTTCCTCAA TTCAGACCCC AGGTCTACCC TAGGCCACGC 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

AGTATGAGAG TAGTCAGACA TCCCATGACA GCGCGACGCG CCCAACGCGT CATTGACATG GGATACTCTG ATTATGAAAC CGCTGTTGAA AATCCATTCT 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

TTATTTCAGA CCTTTCTTCT CCAGAGGAGG AAGAACCAAT CCCCTATGAA CAAGCTCGCA GACAAGTCCC GCGGGTTCAC TTTCGTGAAA GCCGCGGCCC 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

TGAGCCCACT CTTCGTCCGC GCCCTGGGTT GATGCATCGA CTCGCCCAGC GCGTTCATTG CGAGGAGAAT CAGGCCCTTT TGTCCGAGGG GATTTCCTCC 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

ACTCTCTCAG TTTTGAATGG TTTCTTCAAT CTTTTCAAAA ATGTGCAATG GTTTTTGGAT TTCCTCAAAA GCTGCTATGG CAAACTTTCC AAGCAATTGA 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

AACCAATGCA GTCTCTCCGC GACAAGGTGT TACAAACATA CGCGGATTCC ATAGCAGAAT TTATGACACC CAGTGCCCAG AAGAAGGAGC TGTACCTCCA 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

GAACCACTAT GATGCTGTTG AGGCTGGACT TAATTCAATA GCTGCAGCAT GGAAAGACTT GGCCAACAAA TGCTATGCTT ACTCCCGACC CGAACCAGTG 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

TGTATTCTTT TAAAGGGTCG CGCTGGTCAG GGAAAGAGTG TTGCGGCCAC TGTCATCGCC AAGGCAGTAT CCATAGTGAA CACAGGCAAG GAATCAGTTT 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

GGACTCTTCC CACGGATTCA GACTTCTTTG ACGGGTACGC TGGTCAAAAC GTCGTCATCA TTGATGACCT TGGCCAGAAC CCCGATGGGA AAGACTTTAG 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

GAACTTTTGC CAGATGGTTT CTTCCACAGT GTTTCTTCCC CCCGTTGCAG ACTTGGCACA CAAGGGTATT CCTTTCACCA GTCCGGTGAT TATTGCAACC 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

ACCAACAAAA ATGAGAACTT TTTACCTGTC ACAGTTTCAG ACCAAGAAGC GGTCACTCGC CGCTATTGGA AGGTGATTGA TGTTAGCGCA GATGATCAGT 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

ATAAAACTGT GGATGGCAGG CTGGACTACG CCAAAGCCAC GCAACCTACC CAGATTCCCC CTGAATTGGC TGTGTTCAAA ACTCATGTCC CTCTTTTGAA 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

GGGCGCTCTG CGTGACTGTC AACGAACAAA TCGCAGTGGC GCGCGAGTGC TTAACCTGTA TGACGTGATC TCGGCAATTT GCGTTGAGGT TGACAGGCGT 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

GAACAATTGC GCTCGAACCT CGGTGGCATC TTTGCCCAAT CACGTGACAG ACACTACCAG AGAGACAGGG AATATTATGA CGAATACGGA ACTGCTGAAC 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

ATCGCAGACG CTTCGTCGAA CAAAATCCAA CTTTTCATTT TAAGGAAACT GAAGCTGACT TTTATGAACG TGTTGCATTC CTTTCTGGCA TTCATGGTCG 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

AAAGCAATCC ATTCTTAAGA AAATCAAGGA GTGGTTCGCG GACGGCGTGC GTGTCAGAAA TCTTCTTGGA GATGCAGCAT TGGCCCTTTC TCTTTTGACC 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

TCTATTCTTT CATTTTCTCT CGTGATTTAC TCGGGAGTGA AAACTTATCA GGAATTCTCG CGCAAACACA AACCTGTGCG CCAACCGGTG TACAACGCGT 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

GGGAAGACTT TGATGAGGAT TGCATTTTTG AGCAGTCACG TGCTTACAAC ATTCCTAATG TGAGACAACG ACTGCGCAAG CAGCTCGCTG TTCGTGCGGA 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

GAACCTCTGC CCCTCACACG ACGTCACGCC TGACGTCGAG GCCCACATTC CACAAGGGCC AGTGTGCGAG GTGGATCCAG GTGTACCGCT CGTAGCACAA 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

GGAGCTAGCA CAGGACTCAC AGTAAATTCT CTTTCACTTC TTAACAATGT GGTTCCAGTG ACAGTGTCGA CCGTAATTGA AACAGAAAAC GGTCCACTGT 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

CCCAAATTGT TTCCGAGTGC TGTGGCACAT ATCTCTACAA TAAAGTAATG ATTATGCCTA GACACATTCT CATAAAGGAC TGGACACACA TTACAGCTGG 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

ACGCAATTCT GCAACTCGCG ACCAGCTGGA GGCAGTGGAT GTAATTGATC AGTTTGACAT GCCAAGTGAC GCTGTCGCGG TTAAGTTTCC AGACAAGCGC 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

GGCTCCTCCT ACAAAAACAT CATGCACCAC CTTGCCTCCA CCCTCCCTAT TCGTGGAAAA CCAGTTTTTA TTCTTGTTAA CAACAATGTG GCAGGAAGAG 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

CCGTGGTGCA CGGCACATAC ATTGGATGTA CCCAAAAGAT TACTACGCTT GATGGGTTTA CCTTCCCAAA TGTTAGCTCA TACAAGGCTA CAACCCACCT 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

TGGAATGTGT GGTGCACCAG TGATTGCCAA TGAGAATGGC AATGGTAAAA TAATTGGCTT TCACTGTGCT GGGACTGGAC TTGTTGGTTA TGCCAGCAAC 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

TTGACAAAGA TGTCCGCAAA CAACATCTGC AAAGTTTGGG GTGACCCAGT CGCCCAGGGC TGGACGTATT TTGACACCAC TCACACTCCA GTTCATGTCC 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

CACGCAAAAC CAAATTGAGA CCCACTGTCG CAATCAACAC TTTTGAGTGC GACGTGGAAC CAGCCGTCCT GTCCAAATTC GACAGACGGC TCGAGGAACC 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

TGACAGTTTT GAGTTGACCC TTCTGCACAA GAATGACAGG CGCTATCCAG AGGACACTTC TATGGACAAG CACCTGGAGG CTGCTGTTGA GGCTTATGCT 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

TCCTCATTGT TTGCACAGAT TGGTACTGAC AATGGAATCA TTTCAGAGTA TGAAGCTGTT ACTGGCATTG AGAATTTGGA CTCAGTGGAG ACAACAACGT 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

CACCTGGACT ACCCTACACG ACAGCGGGGA TTCCAAGAGA GGCGCTGTTT GACCCAGACA AAACTCAATT GATTGGCCCC GCCGCCGAGA GGCTCCAGGA 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

GTTCCTCCGC GGTGACTTTT CAAAGCATGT GTTTCAGACT TTTCTCAAAG ATGAGCTCCG GAGTAAGGCC AAAGTCCGGG CAGGCAATAC CAGAGTGGTC 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

GAGGTGGCCG CCGTTGACCA CGTGGTGGCA GGCCGAATGC TGCTTGGAAA ATTTACAGCT AAAATGCATG CTAACAATGG ATTAGGCATT GGTTCAGCCG 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

TTGGTTGCAA TCCAGATGTA GACTTTACTA GATTTGCTTA CCAAATCTTG GAATGGGACT ATGTTTATGA CATTGATTAC AAAAATTTTG ATGCTTCACA 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

TTCTCCAAAA GTATTTCAGT ACCTAAAGAA ACTCTTGTCC CCCGAGAATG GGTTCGATGT GAGACTCCAA AAATACATTG ATTCATTGTG TTATTCAAAA 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

CACCAATTTG GAGACACTTA CTACGAATGT GAAGGGGCGC TGCCGTCTGG TTGCAGTGCT ACGTCAATTC TAAATTGTTT GATGAACAAC ATTGTGCTGC 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

GTGCCGCAGC GTATGATGTC TTCACCAATT ACGAAGAGGG CGATCTCGCT TTTCTTACGT ATGGTGATGA TGTACTACTC TGTGCTAATC AGCCACTGCC 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

TCTGGAGCGC TTTCGCAAAT CACTTGCGAA GCTTGGATAC ACCATTACTC CAGCTGATAA GAGTTCTGTT TTCCCAGAAG TTTCAACTTT GGCAGACGTT 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

GTGTTTCTCA AACGTCGATT TAAACCTGAT GAAGAATTCC CATTCCTGTT CAAACCAGTG ATGGATGTGC GCAACTTACA AGACCACTTG CGCTACGCGA 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

AGCCGGGCAC ACTGCGAGAG AAGCTGCTGT CAACCACGGA CTTGGCGGTT CATCTTGGAC CGCTGGAGTA CGCGAGGCTT TTCCGCCCAT TTGTGGAAGT 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

TGGGTACTGC GTGCGTGCCT TCGGGGACGC GCGCAGAGCT TGGCTCCGCA ATTTTGACTT GTGAGTTGTT CCCTACCAGA TACCCCAGAT TTACCCGTTA 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

CCCTAAAATT CCCTCCCCTT CCTCTTCACT CGCCGAGGCC ACGCCGAGTA GGACCGAGGG TACAGCGAGT CTTTTAGCTT AAGGTGTTAG ATGTAAGGTA 
^8701      ^8711      ^8721      ^8731      ^8741      ^8751      ^8761      ^8771      ^8781      ^8791      

CGTGGGCTTT CTTTTGGTTT ACTTCTTC
^8801      ^8811      ^8821

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:

Equine rhinitis B virus 1436/71

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: `2`	Last change: `2007-05-11 00:00:00`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The abbreviated name of this ORF/gene:
polyprotein

The description of the protein encoded in this ORF:
Equine Rhinovirus type 2 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):

904-8664

Remarks:

Results indicate that translation mostly occurs at AUG2 in the wild-type ERBV IRES but may initiate at AUG3 in
the absence of AUG2 or further downstream in the absence of both AUG2 and AUG3. Bicistronic T7 transcripts
were transcribed in vivo in recombinant vaccinia virus infected cells or sythesized in vitro and translated in
rabbit reticulocyte lysates.

Citations:

Hinton T. M., Crabb B. S. (2001) The novel picornavirus Equine rhinitis B virus contains a strong type II internal ribosomal entry site which functions similarly to that of Encephalomyocarditis virus. J. Gen. Virol. 82(Pt 9):2257-2269

IRESs:

IRES:

Version: `9`	Last change: `2007-05-11 00:00:00`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský
The IRES name: `ERBV_162-920`

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

162-920

Conclusion:
putative_IRES

How IRES boundaries were determined:
experimentally_determined

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

ATTGCTTTTC TTCCAACTAA ACCCCTATTG ATGTGTTGGT CGTTTGCCAA TCGGAGGGCG ACAGGCACAG GTCGCTCCGA GTTCTAGTAG TGTGGGAACT 
^162       ^172       ^182       ^192       ^202       ^212       ^222       ^232       ^242       ^252       

TGTTACTACT GATGAAACGA GGTAGTGACA CTCAGTACCT GCGAACGAGG TCGGGGCCCT CCCTTCTTCC TTCACCCAAC TTTCACTTTT CGTTCCACTT 
^262       ^272       ^282       ^292       ^302       ^312       ^322       ^332       ^342       ^352       

TAGCAGGGGT CTTCTTTCTA TCCCCCTGGC GGCATTGGAA CTAGCCGTCG CGTCTTAACG CGCAGCCCTG AAGGCCCCAC ACCTTGTGGA TCTTGCCGTG 
^362       ^372       ^382       ^392       ^402       ^412       ^422       ^432       ^442       ^452       

GGTATGTTTC TGGCATGTGT TTCTCAAGCC TGCAACCGAA GCCGAACAGC CACATGAACA GTTTGAGCGT GGTAGCGCTG TGTGAGTTGG CGGTGGATCC 
^462       ^472       ^482       ^492       ^502       ^512       ^522       ^532       ^542       ^552       

CCCTCGTGGT AACACGAGCC CCCGTGGCCA AAAGCCCAGT GTTTACAGCA CCTCTCACAT CCAGGACGAC CCCATCCTGG CGCTCACTCT TAGTAGTATG 
^562       ^572       ^582       ^592       ^602       ^612       ^622       ^632       ^642       ^652       

GCTTAGTACG CATTAGGTGG TAAGCCGAGC TCTCCCTCGG CCTTGTTCTG AATGCACACA TGTCTAGGGG CTAAGGATGT CCTACAGGTA CCCGCACGTA 
^662       ^672       ^682       ^692       ^702       ^712       ^722       ^732       ^742       ^752       

ACCTTCAGAG AGTGCGGATC TGAGTAGGAG ACCGTGGTGC ACTGCTTTAC AGATGCAGCC CGGTTTAAAA AGCGTCTATG CCCCTACAGG GTAGCGGTGG 
^762       ^772       ^782       ^792       ^802       ^812       ^822       ^832       ^842       ^852       

GCCGCGCCCT TTCCTTTTAA AACTACTTGT TCTATGGTGA CAATGGCAGG AAACATGAT
^862       ^872       ^882       ^892       ^902       ^912

Remarks:

Deletion of the 5' end to nt 189 had no apparent effect on the IRES activity. A further 5' truncation
to nt 351 caused a substantial decrease in the IRES activity. Truncation of the 3' end of the IRES to AUG1
(to nt 895) also led to a major reduction in the IRES activity; however, truncation to AUG2 (to nt 904) or
AUG3 (to nt 916) had little effect.



1436/71           TTTTGTAACTGAGGTTTTGACATCTCATTGTTTTTGAGCCCCAACGTCTTGGTGGATGCT
Hinton_1-920      TTTTGTAACTGAGGTTTTGACATCTCATTGTTTTTGAGCCCCAACGTCTTGGTGGATGCT
                  ************************************************************

1436/71           CAAAGAAGATTACTCTTGATGCTTGGCTCTCAGAAAGAATGGCACCTCAATGTTTTGAGA
Hinton_1-920      CAAAGAAGATTACTCTTGATGCTTGGCTCTCAGAAAGAATGGCACCTCAATGTTTTGAGA
                  ************************************************************

1436/71           CCCGATTCTTTTGAGTCGAGACCATTTCCCCTTCCCTGAAGATTGCTTTTCTTCCAACTA
Hinton_1-920      CCCGATTCTTTTGAGTCGAGACCATTTCCCCTTCCCTGAAGATTGCTTTTCTTCCAACTA
                  ************************************************************

1436/71           AACCCCTATTGATGTGTTGGTCGTTTGCCAATCGGAGGGCGACAGG--------------
Hinton_1-920      AACCCCTATTGATGTGTTGGTCGTTTGCCAATCGGAGGGCGACAGGTCGTTTGCCAATCG
                  **********************************************
                         ^ base 189                             ^ base 227

1436/71           ------------CACAGGTCGCTCCGAGTTCTAGTAGTGTGGGAACTTGTTACTACTGAT
Hinton_1-920      GAGGGCGACAGGCACAGGTCGCTCCGAGTTCTAGTAGTGTGGGAACTTGTTACTACTGAT
                              ************************************************
                             ^ base 252

Citations:

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