Typing tool
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Complete norovirus genomes
AF414402 | GI.4 | ||
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GI.P4 |
ORF1: 1..588 ORF2: 572..2206 ORF3: 2206..2841LOCUS AF414402 2931 bp ss-RNA linear VRL 26-JUL-2016 DEFINITION Norwalk-like virus NLV/New Orleans/266/1993/US RNA polymerase (orf1) gene, partial cds; and capsid protein (orf2) and minor structural protein (orf3) genes, complete cds. ACCESSION AF414402 VERSION AF414402.1 KEYWORDS . SOURCE Norwalk-like virus NLV/New Orleans/266/1993/US ORGANISM Norwalk-like virus NLV/New Orleans/266/1993/US Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 81) AUTHORS Ando,T., Jin,Q., Gentsch,J.R., Monroe,S.S., Noel,J.S., Dowell,S.F., Cicirello,H.G., Kohn,M.A. and Glass,R.I. TITLE Epidemiologic applications of novel molecular methods to detect and differentiate small round structured viruses (Norwalk-like viruses) JOURNAL J. Med. Virol. 47 (2), 145-152 (1995) PUBMED 8830118 REFERENCE 2 (bases 1 to 2931) AUTHORS Ando,T., Monroe,S.S., Noel,J.S. and Glass,R.I. TITLE A one-tube method of reverse transcription-PCR to efficiently amplify a 3-kilobase region from the RNA polymerase gene to the poly(A) tail of small round-structured viruses (Norwalk-like viruses) JOURNAL J. Clin. Microbiol. 35 (3), 570-577 (1997) PUBMED 9041391 REFERENCE 3 (bases 1 to 2931) AUTHORS Ando,T., Noel,J.S. and Fankhauser,R.L. TITLE Genetic classification of 'Norwalk-like viruses. JOURNAL J. Infect. Dis. 181 (Suppl 2), S336-S348 (2000) PUBMED 10804147 REFERENCE 4 (bases 1 to 2931) AUTHORS Ando,T., Seto,Y., Noel,J.S., Monroe,S.S., Glass,R.I. and Fankhauser,R.L. TITLE Direct Submission JOURNAL Submitted (27-AUG-2001) Viral Gastroenteritis Section/Division of Viral and Rickettsial Diseases/National Center for Infectious Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA FEATURES Location/Qualifiers source 1..2931 /organism="Norwalk-like virus NLV/New Orleans/266/1993/US" /mol_type="genomic RNA" /strain="Hu/NLV/New Orleans/266/1993/US" /db_xref="taxon:171834" /clone="pYS01A" /note="NLV/266; NLV/S01; group: GI/4" gene <1..588 /gene="orf1" CDS <1..588 /gene="orf1" /note="nonstructural protein" /codon_start=1 /product="RNA polymerase" /protein_id="AAL12958.1" /translation="LITLCAMSEVTGLSPDVIQSQSYFSFYGDDEIVSTDIDFDPARL TQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLRRTISKDAAGFQGRLDRGSIERQLW WTRGPNHDDPSETLIPHPQRKVQLISLLGEASLHGEKFYRKISSKVIQEIKTGGLEMY VPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV" gene 572..2206 /gene="orf2" CDS 572..2206 /gene="orf2" /note="major structural protein" /codon_start=1 /product="capsid protein" /protein_id="AAL12959.1" /translation="MMMASKDATPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRVVLAGNAFTAGKVIICRVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVVGRVLTCPGPDFNFL FLVPPTVEQKTRPFTAPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ PLGATPVSVSQLCKFRGRITSGQRALNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLPSITLDENVSSGGDYIGTIQWTSPPSDS GGANTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR" gene 2206..2841 /gene="orf3" CDS 2206..2841 /gene="orf3" /codon_start=1 /product="minor structural protein" /protein_id="AAL12960.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRVVDWGG VRVAAPQSSATTLRSGNFMAVPLPAQPKHKPLASEGYSNPAYDPVQRTASWVQSQNSS RTWSPYHRQALQTVWVTPPGSTSSSSISSVSTAPRRYFNTDRLPLFANLRR" 3'UTR 2842..2931 ORIGIN 1 ctgatcacat tgtgtgctat gtctgaagtc acgggtttat cacctgatgt catacaatcc 61 caatcttact tttctttcta tggtgatgat gagatagtct caacagacat tgattttgac 121 cccgcccgcc tcactcaagt gcttaaggaa tatgggttga gacccacccg gccagacaaa 181 tcagaagggc ccatcatact tagaagacag gtggatggcc ttgttttctt aaggaggaca 241 atctctaaag atgctgcagg ctttcaggga aggctagata ggggctcgat tgaaaggcag 301 ctctggtgga ctcgaggccc taaccatgat gaccccagtg agactctaat cccacacccc 361 caaaggaaag tacagctcat atccctcctt ggtgaggctt ccctccatgg tgagaagttt 421 tacagaaaaa tctccagtaa agtcatacag gagataaaga ctggtggttt agaaatgtat 481 gtgccaggat ggcaggccat gttccgctgg atgcgcttcc atgatctcgg attgtggaca 541 ggagatcgca atctcctgcc cgaattcgta aatgatgatg gcgtctaagg acgctacacc 601 aagcgcagat ggcgccactg gcgccggcca gctggtaccg gaggttaata cagctgaccc 661 tatacctatt gaccctgtgg ctggctcctc tacagccctt gccacagcag gccaagttaa 721 tttgattgat ccctggataa tcaataattt tgtgcaagcc ccccagggcg agtttacaat 781 atccccaaat aatacccccg gtgatgtgct ttttgatttg cagttaggac ctcatttaaa 841 ccctttcctc tcccatcttt ctcagatgta taatggttgg gtaggcaaca tgcgagtacg 901 tgttgtcttg gctggtaacg ctttcacggc tgggaaggtt ataatttgcc gtgtcccccc 961 tggctttcaa tctcgcactc tttccatagc tcaggctact ttatttcccc atgttattgc 1021 tgatgttagg acccttgatc ctgtagaagt gccccttgaa gatgtcagga atgtgctgta 1081 tcataataat gacacccaac ctaccatgcg cctcctttgc atgttgtata ctcctctccg 1141 caccggaggg gcgtctggtg ggactgattc ttttgtggta gttgggcgtg tgctcacttg 1201 cccgggccct gattttaatt tcttattcct agtccctcct acagtcgagc aaaagacccg 1261 cccttttact gcgcctaata tccctttgaa gtacctgtct aattctagga tcccaaaccc 1321 tatcgagggt atgtcattgt cacctgacca gacccaaaat gttcaattcc agaatggtag 1381 gtgtacaatt gatggtcaac ccctcggggc cacacctgtc tcagttagcc agttgtgtaa 1441 gtttaggggt aggattacat ctggacagag agcgctcaat ttgacagagt tggatggttc 1501 accttttatg gcctttgccg cccccgcccc tgcgggtttc ccggatcttg gatcctgtga 1561 ttggcatatt gaaatgagta aaatcccaaa ctctagtacc cagaacaatc caatagtggt 1621 caattctgtc aaacccaata gtcaacagtt tgtcccgcac ttgccaagta tcacccttga 1681 tgaaaacgtt tctagtgggg gtgactatat tggtactata caatggacct ctcctccttc 1741 tgattccggc ggagccaaca caaatttttg gaaaatccct gactatgggt ctagcctagc 1801 agaagcttca cagttggccc ccgctgtcta tccacctggt ttcaatgagg tgattgtgta 1861 ctttatggca tctatacccg gtcccaatca gtctgggtcc cctaacttgg tgccatgcct 1921 gcttccccag gaatatataa cacacttcat tagtgagcag gcccccattc agggtgaggc 1981 tgccttactc cattatgtag acccagacac caatcgtaac ctgggtgagt ttaaattgta 2041 ccctggtggt tatttaacct gtgttcctaa tagttctagt actggacctc agcagcttcc 2101 tcttgatggt gtatttgttt ttgcttcttg ggtttctaga ttttatcaat taaagcctgt 2161 gggaacagcc ggaccggcta gaggtaggct tggtgtccgt agataatggc ccaagccatt 2221 ataggagcca ttgccgcctc cgcagccggt agcgccctgg gtgctggcat ccaagctggt 2281 gctgaagctg cgttacaggc acagagatat caacaagatc tgactttgca gcaaaattct 2341 tttaatcatg ataaagaaat gttaggttat caagtggaaa tgtctaataa gttgctagct 2401 aagaatctta acacccgcta ttctctcctc caagcgggtg gcctctcgcc ctctgatgcg 2461 gctagggctg tggctggggc ccctgtcact agagtggtcg actggggtgg agtgcgtgtt 2521 gcggcacctc aatcatctgc caccacattg aggtctggta atttcatggc agtgccgctc 2581 ccagcacagc caaagcataa gccccttgcc agtgagggtt actccaatcc tgcttatgac 2641 cctgtgcagc gcacagcttc ttgggttcaa tctcaaaatt ccagccggac ttggtcccca 2701 taccataggc aagcccttca gactgtgtgg gtgacccccc ctggttctac ttcttcttct 2761 tccatttctt ctgtttctac cgcccctcga aggtatttta atacagatag attgcctctg 2821 ttcgcaaact tgaggcgtta atgttgtaat aagattagtg agcatcctat tcaaatttgg 2881 ttttgtataa tttggttgta tttggccttt aattttgatt tggttgatgc c //