IRESite_Id:41 summary record describing characteristics of GBV-C IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `41`	Version: `10`
Originaly submitted by: Václav Vopálenský	Submission date: `2005-09-23 00:00:00`
Reviewed by: Václav Vopálenský	Last change: `2008-06-26 03:12:48`

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: `GBV-C`	The genetic origin of this natural mRNA/+RNA: `viral`

The GenBankId GI:# number of the most similar mRNA/+RNA sequence to this one.
1572849

The mRNA/+RNA description:

Hepatitis GB virus C polyprotein, partial cds.

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

CCCCCCCCCC GGCACTGGGT GCAAGCCCCA GAAACCGACG CCTACTGAAG TAGACGTAAT GGCCCCGGCC CGAACCGGCG ACCGGCCAAA AGGTGGTGGA 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

TGGGTGATGA CAGGGTTGGT AGGTCGTAAA TCCCGGTCAT CCTGGTAGCC ACTATAGGTG GGTCTTAAGG GGAGGCTACG GTCCCTCTTG CGCATATGGA 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

GGAAAAGCGC ACGGTCCACA GGTGTTGGTC CTACCGGTGT AATAAGGACC CGGCGCTAGG CACGCCGTTA AACCGAGCCC GTTACTCCCC TGGGCAAACG 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ACGCCCACGT ACGGTCCACG TCGCCCTTCA ATGTCTCTCT TGACCAATAG GCGTAGCCGG CGAGTTGACA AGGACCAGTG GGGGCCGGGC GGGAGGGGGA 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

AGGACCCCCA CCGCTGCCCT TCCCGGGGAG GCGGGAAATG CATGGGGCCA CCCAGCTCCG CGGCGGCCTA CAGCCGGGGT AGCCCAAGAA CCTTCGGGTG 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

AGGGCGGGTG GCATTTTCTT TTCCTATACC GATCATGGCA GTCCTTCTGC TCCTACTCGT GGTGGAGGCC GGGGCTATTT TAGCCCCGGC CACCCATGCT 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

TGTAGCGCGA AAGGGCAATA TTTCCTCACA AACTGTTGCG CCCTGGAGGA CATAGGCTTC TGCCTGGAGG GCGGATGCCT GGTGGCTCTG GGGTGCACCA 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

TTTGCACCGA CCGCTGCTGG CCACTGTATC AGGCGGGTTT GGCCGTGCGG CCCGGCAAGT CCGCCGCCCA GTTGGTGGGG GAACTCGGTA GTCTCTACGG 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

GCCCTTGTCG GTCTCGGCTT ATGTGGCCGG GATCCTGGGG CTTGGGGAGG TCTACTCGGG GGTCCTCACC GTCGGGGTGG CGTTGACGCG CAGGGTCTAC 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

CCGGTCCCGA ACCTGACGTG TGCAGTAGAG TGTGAGTTGA AGTGGGAAAG TGAGTTTTGG AGATGGACTG AACAGCTGGC CTCAAACTAC TGGATTCTGG 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

AATACCTCTG GAAGGTGCCT TTCGACTTTT GGCGGGGAGT GATGAGCCTT ACTCCTCTCT TGGTGTGCGT GGCGGCCCTC CTCCTGCTGG AGCAGCGTAT 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

TGTCATGGTC TTCCTCCTGG TCACTATGGC GGGCATGTCG CAAGGCGCGC CCGCCTCAGT GTTGGGGTCA CGGCCTTTCG AGGCCGGGTT GACTTGGCAG 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

TCTTGTTCTT GCAGGTCGAA CGGGTCCCGC GTGCCGACGG GGGAGAGGGT TTGGGAACGT GGGAACGTCA CACTTTTGTG TGACTGCCCC AACGGTCCTT 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

GGGTGTGGGT CCCGGCCCTT TGCCAGGCAA TCGGATGGGG CGACCCTATC ACTCATTGGA GCCACGGACA AAATCAGTGG CCCCTTTCTT GTCCCCAATT 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

TGTCTACGGC GCCGTTTCAG TGACCTGCGT GTGGGGTTCT GTGTCTTGGT TTGCTTCCAC TGGGGGTCGC GACTCCAAGG TTGATGTGTG GAGTTTGGTT 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

CCAGTTGGCT CTGCCAGCTG CACCATAGCC GCACTGGGAT CTTCGGATCG CGACACAGTG GTTGAGCTCT CCGAGTGGGG AATTCCCTGC GCCACTTGTA 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

TCCTGGACAG GCGGCCTGCC TCGTGTGGCA CCTGTGTGAG GGACTGCTGG CCCGAGACCG GGTCGGTACG TTTCCCATTC CACAGGTGTG GCGCGGGACC 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

GAGGCTGACC AGAGACCTTG AGGCTGTGCC CTTCGTCAAT AGGACAACTC CCTTCACCAT AAGGGGGCCC CTGGGCAACC AGGGGCGAGG CAACCCGGTG 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

CGGTCGCCCT TGGGTTTTGG GTCCTACACC ATGACCAAGA TCCGAGACTC CTTACACTTG GTGAAATGTC CCACCCCAGC CATTGAGCCT CCCACCGGAA 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

CGTTTGGGTT CTTCCCAGGA GTCCCCCCCC TTAACAACTG CATGCTTCTC GGCACTGAGG TGTCAGAGGT ATTGGGTGGG GCGGGCCTCA CTGGGGGGTT 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

TTACGAACCT CTGGTGCGGC GGTGTTCAGA GCTGATGGGT CGGCGGAATC CGGTCTGCCC GGGGTTTGCA TGGCTCTCTT CGGGACGGCC TGATGGGTTC 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

ATACATGTTC AGGGCCACTT GCAGGAGGTG GATGCGGGCA ACTTCATTCC GCCCCCACGC TGGTTGCTCT TGGACTTTGT ATTTGTCCTG TTATACCTGA 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

TGAAGCTGGC AGAGGCACGG TTGGTCCCGC TGATCCTCCT CCTGCTATGG TGGTGGGTGA ACCAGTTGGC GGTCCTTGKT GTGSCGGCTG CKCRCGCCGC 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

CGTGGCTGGA GAGGTGTTTG CGGGCCCTGC CTTGTCCTGG TGTCTGGGCC TACCCTTCGT GAGTATGATC CTGGGGCTAG CAAACCTGGT GTTGTACTTC 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

CGCTGGATGG GTCCTCAACG CCTGATGTTC CTCGTGTTGT GGAAGCTCGC TCGGGGGGCT TTCCCGCTGG CATTACTGAT GGGGATTTCC GCCACTCGCG 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

GCCGCACCTC TGTGCTTGGC GCCGAATTCT GCTTTGATGT CACCTTTGAA GTGGACACGT CAGTCTTGGG TTGGGTGGTT GCTAGTGTGG TGGCTTGGGC 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

CATAGCGCTC CTGAGCTCTA TGAGCGCGGG GGGGTGGAAG CACAAAGCCA TAATCTATAG GACGTGGTGT AAAGGGTACC AGGCYCTTCG CCAGCGCGTG 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

GTGCGTAGCC CCCTCGGGGA GGGGCGGCCC ACCAAGCCGC TGACGATAGC CTGGTGTCTG GCCTCTTACA TCTGGCCGGA CGCTGTGATG TTGGTGGTTG 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

TGGCCATGGT CCTCCTCTTC GGCCTTTTCG ACGCGCTCGA TTGGGCCTTG GAGGAGCTCC TTGTGTCGCG GCCTTCGTTG CGTCGTTTGG CAAGGGTGGT 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

GGAGTGTTGT GTGATGGCGG GCGAGAAGGC CACTACCGTC CGGCTTGTGT CCAAGATGTG CGCGAGAGGG GCCTACCTGT TTGACCACAT GGGGTCGTTC 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

TCGCGCGCGG TCAAGGAGCG CTTGCTGGAG TGGGACGCGG CTTTGGAGMC CCTGTCATTC ACTAGGACGG ACTGTCGCAT CATACGAGAC GCCGCCAGGA 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

CCCTGAGCTG CGGCCAATGC GTCATGGGCT TGCCCGTGGT GGCTAGGCGC GGCGATGAGG TCCTGATTGG GGTCTTTCAG GATGTGAACC ACTTGCCTCC 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

GGGGTTTGYT CCTACAGCGC CTGTTGTCAT CCGTCGGTGC GGAAAGGGCT TCCTCGGGGT CACTAAGGCT GCCTTGACTG GTCGGGATCC TGACTTACAC 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

CCAGGAAACG TCATGGTTTT GGGGACGGCT ACCTCGCGCA GCATGGGAAC GTGCTTAAAC GGGTTGCTGT TCACGACATT CCATGGGGCT TCTTCCCGAA 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

CCATTGCGAC ACCTGTGGGG GCCCTTAACC CAAGGTGGTG GTCGGCCAGT GATGACGTCA CGGTCTATCC CCTCCCCGAT GGAGCTAACT CGTTGGTTCC 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

CTGCTCGTGT CAGGCTGAGT CCTGTTGGGT CATYCGATCC GATGGGGCTC TTTGCCATGG CTTGAGCAAG GGGGACAAGG TAGAACTGGA CGTGGCCATG 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

GAGGTTGCTG ACTTTCGTGG GTCGTCTGGG TCTCCTGTCC TATGCGACGA GGGGCACGCT GTAGGAATGC TCGTGTCCGT CCTTCATTCG GGGGGGAGGG 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

TGACCGCGGC TCGATTCACT CGGCCGTGGA CCCAAGTCCC AACAGACGCC AAGACTACCA CTGAGCCACC CCCGGTGCCA GCTAAAGGGG TTTTCAAAGA 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

GGCTCCTCTT TTCATGCCAA CAGGGGCGGG GAAAAGCACA CGCGTCCCTT TGGAGTATGG AAACATGGGG CACAAGGTCC TGATTCTCAA CCCGTCGGTT 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

GCCACTGTGA GGGCCATGGG CCCTTACATG GAGAGGCTGG CGGGGAAACA TCCTAGCATT TTCTGTGGAC ACGACACAAC AGCTTTCACA CGGATCACGG 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

ACTCTCCATT GACGTACTCT ACCTATGGGA GGTTTCTGGC CAACCCGAGG CAGATGCTGA GGGGAGTTTC CGTGGTCATC TGTGATGAGT GCCACAGTCA 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

TGACTCAACT GTGTTGCTGG GTATAGGCAG GGTCAGGGAC GTGGCGCGGG GGTGTGGAGT GCAATTAGTG CTCTACGCTA CTGCGACTCC CCCGGGCTCG 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

CCTATGACTC AGCATCCATC CATAATTGAG ACAAAGCTGG ACGTTGGTGA GATCCCCTTT TATGGGCATG GTATCCCCCT CGAGCGTATG AGGACTGGTC 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

GCCACCTTGT ATTCTGCCAT TCCAAGGCGG AGTGCGAGAG ATTGGCCGGC CAGTTCTCCG CGCGGGGGGT TAATGCCATC GCCTATTATA GGGGTAAGGA 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

CAGTTCCATC ATCAAAGACG GAGACCTGGT GGTTTGTGCG ACAGACGCGC TCTCTACCGG GTACACAGGA AACTTCGATT CTGTCACCGA CTGTGGGTTG 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

GTGGTGGAGG AGGTCGTTGA GGTGACCCTT GATCCCACCA TTACCATTTC CTTGCGGACT GTCCCTGCTT CGGCTGAATT GTCGATGCAG CGGCGCGGAC 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

GCACGGGGAG AGGTCGGTCG GGCCGCTACT ACTACGCTGG GGTCGGTAAG GCTCCCGCGG GGGTGGTGCG GTCTGGTCCG GTCTGGTCGG CAGTGGAAGC 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

TGGAGTGACC TGGTATGGAA TGGAACCTGA CTTGACAGCA AACCTTCTGA GACTTTACGA CGACTGCCCT TACACCGCAG CCGTCGCAGC TGACATTGGT 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

GAAGCCGCGG TGTTCTTTGC GGGCCTCGCG CCCCTCAGGA TGCATCCCGA TGTTAGCTGG GCAAAAGTTC GCGGCGTCAA TTGGCCCCTC CTGGTGGGTG 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

TTCAGCGGAC GATGTGTCGG GAAACACTGT CTCCCGGCCC GTCGGACGAC CCTCAGTGGG CAGGTCTGAA AGGCCCGAAT CCTGTCCCAC TACTGCTGAG 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

GTGGGGCAAT GATTTGCCAT CAAAAGTGGC CGGCCACCAC ATAGTTGACG ATCTGGTCCG TCGGCTCGGT GTGGCGGAGG GATACGTGCG CTGTGATGCT 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

GGRCCCATCC TCATGGTGGG CTTGGCCATA GCGGGCGGCA TGATCTACGC CTCTTACACT GGGTCGCTAG TGGTGGTAAC AGACTGGGAT GTGAAGGGAG 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

GTGGCAATCC CCTTTATAGG AGTGGTGACC AGGCCACCCC TCAACCCGTG GTGCAGGTCC CCCCGGTAGA CCATCGGCCG GGGGGGGAGT CTGCGCCACG 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

GGATGCCAAG ACAGTGACAG ATGCGGTGGC AGCCATCCAG GTGAACTGCG ATTGGTCTGT GATGACCCTG TCGATCGGGG AAGTCCTCAC CTTGGCTCAG 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

GCTAAGACAG CCGAGGCCTA CGCAGCTACT TCCAGGTGGC TCGCTGGCTG CTACACGGGG ACGCGGGCCG TCCCCACTGT ATCAATTGTT GACAAGCTCT 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

TCGCCGGGGG TTGGGCCGCC GTGGTGGGTC ACTGTCACAG CGTCATTGCT GCGGCGGTGG CTGCCTATGG AGCTTCTCGA AGTCCTCCAC TGGCCGCGGC 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

GGCGTCCTAC CTCATGGGGT TGGGCGTCGG AGGCAACGCA CAGGCGCGCT TGGCTTCAGC TCTTCTACTG GGGGCTGCTG GTACGGCTCT GGGGACCCCT 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

GTCGTGGGAC TCACCATGGC GGGGGCCTTC ATGGGCGGTG CCAGCGTGTC CCCCTCCCTC GTCACTGTCC TACTTGGGGC TGTGGGAGGT TGGGAGGGCG 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

TTGTCAACGC TGCCAGTCTC GTCTTCGACT TCATGGCTGG GAAACTTTCA ACAGAAGACC TTTGGTATGC CATCCCGGTA CTCACTAGTC CTGGRGCGGG 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

CCTCGCGGGG ATTGCCCTTG GTCTGGTTTT GTACTCAGCA AACAACTCTG GCACTACCAC ATGGCTGAAC CGTCTGCTGA CGACGTTGCC ACGGTCATCT 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

TGCATACCCG ACAGCTACTT CCAACAGGCT GACTACTGCG ACAAGGTCTC GGCAATCGTG CGCCGCCTGA GCCTTACTCG CACCGTGGTG GCCCTGGTCA 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

ACAGGGAGCC TAAGGTGGAT GAGGTCCAGG TGGGGTACGT CTGGGATCTG TGGGAGTGGG TGATGCGCCA GGTGCGCATG GTGATGTCTA GACTCCGGGC 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

CCTCTGCCCT GTGGTGTCAC TCCCCTTGTG GCACTGCGGG GAGGGGTGGT CCGGTGAATG GCTTCTCGAT GGGCACGTGG AGAGTCGTTG TCTGTGCGGG 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

TGTGTAATCA CCGGCGACGT CCTCAATGGG CAACTCAAAG ATCCAGTTTA CTCTACCAAG CTGTGCAGGC ACTACTGGAT GGGAACTGTG CCGGTCAACA 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

TGCTGGGCTA CGGGGAAACC TCACCTCTTC TCGCCTCTGA CACCCCGAAG GTGGTACCCT TCGGGACGTC GGGGTGGGCT GAGGTGGTGG TGACCCCTAC 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

CCACGTGGTG ATCAGGCGCA CGTCCTGTTA CAAACTGCTT CGCCAGCAAA TTCTTTCAGC AGCTGTAGCT GAGCCCTACT ACGTTGATGG CATTCCGGTC 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

TCTTGGGAGG CTGACGCGAG AGCGCCGGCC ATGGTCTACG GTCCGGGCCA AAGTGTTACC ATTGATGGGG AGCGCTACAC CCTTCCGCAC CAGTTGCGGA 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

TGCGGAATGT GGCGCCCTCT GAGGTTTCAT CTGAGGTCAG CATCGAGATC GGGACGGAGA CTGAAGACTC AGAACTGACT GAGGCCGATT TGCCACCAGC 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

GGCTGCTGCC CTCCAAGCGA TAGAGAATGC TGCGAGAATT CTCGAACCGC ACATCGATGT CAYCATGGAG GATTGCAGTA CACCCTCTCT CTGTGGTAGT 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

AGCCGAGAGA TGCCTGTGTG GGGAGAAGAC ATACCCCGCA CTCCATCGCC TGCACTTATC TCGGTTACGG AGAGCAGCTC AGATGAGAAG ACCCTGTCGG 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

TGACCTCCTC GCAGGAGGAC ACCCCGTCCT CAGACTCATT TGAAGTCATC CAAGAGTCTG ATACTGCTGA ATCAGAGGAA AGCGTCTTCA ACGTGGCTCT 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

TTCCGTACTA AAAGCCTTAT TTCCACAGAG CGATGCCACA CGAAAGCTAA CGGTTAAGAT GTCTTGCTGT GTTGAGAAGA GCGTAACACG CTTCTTTTCT 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

TTAGGGTTGA CCGTGGCTGA CGTGGCTAGC CTGTGTGAGA TGGAGATCCA GAACCATACA GCCTATTGTG ACAAGGTGCG CACTCCGCTC GAATTGCAAG 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

TTGGGTGCTT GGTGGGCAAT GAACTTACCT TTGAATGTGA CAAGTGTGAG GCACGCCAAG AGACCCTTGC CTCCTTCTCC TACATATGGT CCGGGGTCCC 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

ACTTACTCGG GCCACTCCGG CCAAACCACC AGTGGTGAGG CCGGTGGGGT CCTTGTTGGT GGCAGACACC ACCAAGGTCT ACGTGACCAA TCCGGACAAT 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

GTTGGGAGGA GGGTTGACAA GGTGACTTTC TGGCGCGCTC CTCGGGTACA CGACAAGTTC CTCGTGGACT CGATCGAGCG CGCTCGGAGA GCTGCTCAAG 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

GCTGCCTAAG CATGGGTTAC ACTTATGAGG AGGCAATAAG GACTGTTAGG CCGCATGCTG CCATGGGCTG GGGATCTAAG GTGTCGGTCA AGGACTTGGC 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

CACCCCTGCG GGGAAGATGG CTGTTCATGA CCGGCTTCAG GAGATACTTG AAGGGACTCC GGTCCCTTTT ACCCTGACTG TCAAAAAGGA GGTGTTCTTC 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

AAAGATCGTA AGGAGGAGAA GGCCCCCCGC CTCATTGTGT TCCCCCCCCT GGACTTCCGG ATAGCTGAAA AGCTCATTCT GGGAGACCCG GGGCGGGTTG 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

CAAAGGCCGG TGTTGGGGGG GCTTACGCCT TCCAGTACAC CCCCAACCAG CGGGTTAAGG AGATGCTAAA GCTGTGGGAA TCAAAGAAGA CCCCGTGCGC 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

CATCTGTGTG GATGCCACTT GCTTCGACAG TAGCATTACT GARGAGGACG TGGCACTAGA GACAGAGCTT TACGCCCTGG CCTCGGACCA TCCAGAATGG 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

GTGCGCGCCC TGGGGAAATA CTRTGCCTCT GGCACAATGG TGACCCCGGA AGGGGTGCCA GTGGGCGAGA GGTATTGTAG GTCCTCGGGT GTGTTGACCA 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

CAAGTGCTAG CAACTGTTTG ACCTGCTACA TCAAAGTGAG AGCCGCCTGT GAGAGGATCG GACTGAAAAA TGTCTCGCTT CTCATCGCGG GCGATGACTG 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

CTTAATTGTG TGCGAGAGGC CTGTATGCGA CCCTTGCGAG GCCCTGGGCC GAACCCTGGC TTCGTACGGG TACGCGTGTG AGCCCTCGTA TCACGCTTCA 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

CTGGACACAG CCCCCTTCTG CTCCACTTGG CTCGCTGAGT GCAATGCGGA TGGGRAAAGG CATTTCTTCC TGACCACGGA CTTTCGGAGA CCACTCGCTC 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

GCATGTCGAG CGAGTACAGT GACCCTATGG CTTCGGCCAT TGGTTACATT CTCCTCTACC CCTGGCRTCC CATCACACGG TGGGTCATCA TCCCGCATGT 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

GCTAACATGC GCTTCTTCCC GGGGTGGTGG CACACSGTCT GATCCGGTTT GGTGTCAGGT TCATGGTAAC TACTACAAGT TTCCCCTGGA CAAACTGCCT 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

AACATCATCG TGGCCCTCCA CGGACCAGCA GCGTTGAGGG TTACCGCAGA CACAACCAAA ACAAAGATGG AGGCTGGGAA GGTTCTGAGC GACCTCAAGC 
^8701      ^8711      ^8721      ^8731      ^8741      ^8751      ^8761      ^8771      ^8781      ^8791      

TCCCTGGTCT AGCCGTCCAC CGCAAGAAGG CCGGGGCATT GCGAACACGC ATGCTCCGGT CGCGCGGTTG GGCGGAGTTG GCTAGGGGCC TGTTGTGGCA 
^8801      ^8811      ^8821      ^8831      ^8841      ^8851      ^8861      ^8871      ^8881      ^8891      

TCCAGGACTC CGGCTTCCTC CCCCTGAGAT TGCTGGTATC CCAGGGGGTT TCCCTCTGTC CCCCCCCTAC ATGGGGGTGG TTCATCAATT GGATTTCACA 
^8901      ^8911      ^8921      ^8931      ^8941      ^8951      ^8961      ^8971      ^8981      ^8991      

GCSCAGCGGA GTCGCTGGCG GTGGTTGGGG TTCTTAGCCC TGCTCATCGT AGCGCTCTTT GGGTGAACTA AATTCATCTG TTGCGGCAAG GTTGAGCGGC 
^9001      ^9011      ^9021      ^9031      ^9041      ^9051      ^9061      ^9071      ^9081      ^9091      

TGATCACCGC TCAAGGAGGT TCCCGCCCTC CCCGCCCCAG GGGTCTCCCC GCTGGGTAAA AAGGGCCCGG CCTTGGGAGG CATGGTGGTT ACTAACCCCC 
^9101      ^9111      ^9121      ^9131      ^9141      ^9151      ^9161      ^9171      ^9181      ^9191      

TGGCAGGGTT AACGCCTGAT GGTGCTAATG CACTGCCGCT TCGGCGGCGG GTCGCTACCT TATAGCGTAA TCCGTGACTA CGGGCTGCTC GCAGAGCCCT 
^9201      ^9211      ^9221      ^9231      ^9241      ^9251      ^9261      ^9271      ^9281      ^9291      

CCCCGGATGG GGCACAGTGC ACTGTGATCT GAAGGGGTGC ACCCCGGTAA GAGCTCGGCC CAAAGGCCGG GTTCTACT
^9301      ^9311      ^9321      ^9331      ^9341      ^9351      ^9361      ^9371

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:

Hepatitis GB virus C

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: `3`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský

The abbreviated name of this ORF/gene:
GBV_C

The description of the protein encoded in this ORF:
Hepatitis GB virus C 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):

535-9066

Remarks:

This sequence has been edited according to Figure 7 in cited article by curator. Monocistronic and bicistronic
T7 transcripts were tested in vitro in rabbit reticulocyte lysates. Please refer also to GI:1575393.

Citations:

Simons J. N., Desai S. M., Schultz D. E., Lemon S. M., Mushahwar I. K. (1996) Translation initiation in GB viruses A and C: evidence for internal ribosome entry and implications for genome organization. J. Virol. 70(9):6126-6135

IRESs:

IRES:

Version: `8`	Last change: `2007-05-15 00:00:00`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský
The IRES name: `GBV-C`

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

13-642

Conclusion:
putative_IRES

How IRES boundaries were determined:
experimentally_determined

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

CACTGGGTGC AAGCCCCAGA AACCGACGCC TACTGAAGTA GACGTAATGG CCCCGGCCCG AACCGGCGAC CGGCCAAAAG GTGGTGGATG GGTGATGACA 
^13        ^23        ^33        ^43        ^53        ^63        ^73        ^83        ^93        ^103       

GGGTTGGTAG GTCGTAAATC CCGGTCATCC TGGTAGCCAC TATAGGTGGG TCTTAAGGGG AGGCTACGGT CCCTCTTGCG CATATGGAGG AAAAGCGCAC 
^113       ^123       ^133       ^143       ^153       ^163       ^173       ^183       ^193       ^203       

GGTCCACAGG TGTTGGTCCT ACCGGTGTAA TAAGGACCCG GCGCTAGGCA CGCCGTTAAA CCGAGCCCGT TACTCCCCTG GGCAAACGAC GCCCACGTAC 
^213       ^223       ^233       ^243       ^253       ^263       ^273       ^283       ^293       ^303       

GGTCCACGTC GCCCTTCAAT GTCTCTCTTG ACCAATAGGC GTAGCCGGCG AGTTGACAAG GACCAGTGGG GGCCGGGCGG GAGGGGGAAG GACCCCCACC 
^313       ^323       ^333       ^343       ^353       ^363       ^373       ^383       ^393       ^403       

GCTGCCCTTC CCGGGGAGGC GGGAAATGCA TGGGGCCACC CAGCTCCGCG GCGGCCTACA GCCGGGGTAG CCCAAGAACC TTCGGGTGAG GGCGGGTGGC 
^413       ^423       ^433       ^443       ^453       ^463       ^473       ^483       ^493       ^503       

ATTTTCTTTT CCTATACCGA TCATGGCAGT CCTTCTGCTC CTACTCGTGG TGGAGGCCGG GGCTATTTTA GCCCCGGCCA CCCATGCTTG TAGCGCGAAA 
^513       ^523       ^533       ^543       ^553       ^563       ^573       ^583       ^593       ^603       

GGGCAATATT TCCTCACAAA CTGTTGCGCC
^613       ^623       ^633

Remarks:

GB virus C UTR (522 nt) and putative open reading frame (108 nt)

Citations:

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