Typing tool
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Typing tool
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Complete norovirus genomes
| AY502023 | GII.4 Farmington Hills | |
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| GII.P4 Farmington Hills |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS AY502023 7559 bp RNA linear VRL 21-MAR-2006
DEFINITION Norovirus genogroup 2 strain Hu/NoV/Farmington Hills/2002/USA
nonstructural polyprotein, capsid protein, and minor structural
protein genes, complete cds.
ACCESSION AY502023
VERSION AY502023.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7559)
AUTHORS Zheng,D.P., Ando,T., Fankhauser,R.L., Beard,R.S., Glass,R.I. and
Monroe,S.S.
TITLE Norovirus classification and proposed strain nomenclature
JOURNAL Virology 346 (2), 312-323 (2006)
PUBMED 16343580
REFERENCE 2 (bases 1 to 7559)
AUTHORS Zheng,D.-P. and Monroe,S.S.
TITLE Phylogenetic analysis of Norovirus outbreaks in land and on cruise
ships
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 7559)
AUTHORS Zheng,D.-P., Monroe,S.S. and Massey,J.P.
TITLE Direct Submission
JOURNAL Submitted (11-DEC-2003) Respiratory and Enteric Viruses Branch,
Division of Viral and Rickettsial Diseases, Centers for Disease
Control and Prevention, 1600 Clifton Rd, MS: G04, Atlanta, GA
30333, USA
FEATURES Location/Qualifiers
source 1..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/NoV/Farmington Hills/2002/USA"
/isolate="2003707376"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/note="type: GII/4"
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AAR97662.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARS
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVISYSVKDGVSGLPELSTVRQPE
EANTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTSNELTGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEVTNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPNVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="ORF2"
/codon_start=1
/product="capsid protein"
/protein_id="AAR97663.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQLNDPTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGML
TQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTKFTPVGVVQDG
NGTHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="ORF3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAR97664.1"
/translation="MAGAFFAGLASDVLGSGLGSLISAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMEVKRAMLLEGGFSETDASRGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRAAVPARGFSSVPS
NTSTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
polyA_site 7559
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcccccccc gagggaaaca ccacaaagac ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaaat
241 agtgatttct tatagtgtca aagatggcgt ttccggtttg cctgagcttt ccaccgttag
301 gcaaccggaa gaagctaata cggccttcag tgtccccccg ctcaatcaga gggagaatag
361 ggatgctaag gagccactga ctggaacaat tctggaaatg tgggatgggg aaatctacca
421 ctacggcctg tatgtggagc gaggtcttgt actaggcgtg cacaaaccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtatactcc
541 tcagtacctc atctctccag acactctcaa gaaattacac ggagaaacgt tcccttacac
601 agcctttgac aacaattgct atgccttttg ctgctgggtc ctggacctaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccccactg tggatgattc caagttaaag aaggtagcta atatattcct
781 gtgtgctctg tcttcgctgt tcaccaggcc cataaaagac ataataggga agctaaagcc
841 tcttaacatc ctcaacatct tggcctcatg tgattggact ttcgcaggca tagtggagtc
901 catgatactc ctggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagtt acaaggaccc gaggaccttg cagtggagct
1021 cgtccctgta gtgatggggg gaattggttt ggtgctggga ttcaccaaag agaagattgg
1081 aaaaatgttg tcatctgctg cgtccacctt gagagcttgc aaagatcttg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcccttctgg cgagaatcgc tgctgcacgt tccctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgat ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaagaacgc
1921 ctttagttct gatttttcac acataaaact agcactggct ccacagggtg gcttcgataa
1981 aaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gctagatgag tttgaactac agggcccagc
2101 tctcaccact ttcaactttg atcgcaacaa agtgcttgcc tttaggcaac ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgag agttgggagg cagctcaagg atgtcagaac
2221 catgccagag cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agatagtgta
2281 cagtggttgc acctacacac ttgagtctga cggcaagggc aatgtgaaag ttgacagagt
2341 tcagagcacc tccgtgcaga ccagcaatga gctgactggc gccctgcacc acctaaggtg
2401 tgccagaatc aggtactatg tcaggtgtgt ccaggaggcc ctgtattcca tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga ggttaccaac aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcatttcatc cgacgacatt aaaactgagg gtaagaaagg
2641 gaagaacaag actggtcgcg gcaagaagca cacagccttc tcaagcaaag gtctcagtga
2701 tgaagagtat gatgagtaca agaggattag agaagagagg aatggcaagt attccataga
2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 aaaacaacgc aaggaggaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaaccca gatgatttca agcccaaggg gaaactgtgg gctgacgatg acagaagtgt
3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggct tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtacacaa
3181 atcaggcgaa ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggtat
3241 gatcttagaa gaaggtgcgc ccgaaggcac cgtggtcaca ctactcataa aaaggtctac
3301 aggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tctaacgcca aaagcatgga
3421 cctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggggagg ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaagacca aattctggag
3661 atcgtccaca gcaccactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccccagggtc aagggtggcc cttcattgca gcaagtcatg agggatcagt tgaaaccatt
3781 tacagagccc aggggaaagc caccaaagcc aaatgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg
3901 cgcgtccctc gacaagacca cttccagtgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gaatccttca caggcaagct ggcagatcag gcttccaagg ccaacctgat
4021 gttcgaagaa gggaagaaca tgaccccagt ctacacaggt gcgcttaagg atgaattggt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc
4141 gaccatgatc cgatgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgttacactt cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatattcga
4261 gaggcattcc aggtacagat atcactatga tgctgattac tctcggtggg attcaacaca
4321 acagagagct gtgttggcag cagctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtctcccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gttacaaatc tgtcccctga
4561 catcatacag gctaattccc tcttctcctt ttatggtgat gacgaaatcg ttagcacaga
4621 cataaaattg gacccagaga agttgacagc aaagctcagg gaatatgggc tgaaaccaac
4681 ccgccctgac aaaactgaag ggccccttgt tatctctgaa gacttaaatg gtctgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacagtt gatgtcctta ctgggagagg ccgcactcca
4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctga
5341 atccctacct ttctcatttg gccagaatgt acaatggcta tgcaggtggc tttgaagtgc
5401 aggtaatcct tgcggggaat gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catataatag
5521 tagatgttag gcaactggaa cctgtgttga tccccttacc tgatgttagg aacaatttct
5581 atcactacaa ccaattaaat gaccccacca ttaaattgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgagtca agaactaaac
5761 cattcaccgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cctagcggtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ttaggcacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggta ctcataatta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctgggg accccagatt
6061 tcgtgggaag gatccaaggc atgctcaccc aaactacaag gggggatggc tctacccgcg
6121 gccacaaagc tacagtgagc actggggatg tccacttcac tccaaagctg ggcagtattc
6181 agttcaacac tgatacaaac aatgattttg aaactggcca aaacacgaaa ttcaccccag
6241 tcggtgttgt ccaggatggt aatggtaccc accaaaatga accccaacaa tgggtgctcc
6301 caagctactc aggtagaact ggtcataatg tacacctagc ccccgccgta gcccccactt
6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtacccca
6421 acatgaattt ggattgtcta ctcccccagg aatgggtgca gcacttctac caagaggcag
6481 ctccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttc
6541 tatttgagtg caagcttcat aaatcaggct atgtcacagt ggctcacact ggccagcatg
6601 atttggttat cccccccaat ggctacttta gatttgattc ctgggtcaac caattctaca
6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc actataatgg ctggagcttt
6721 cttcgccggg ctggcatctg atgtccttgg ctctggactt ggttccctaa tcagtgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttgca acagggtatg atggaagtta aacgggcaat
6961 gctcctagag ggtggattct ctgaaacaga tgcatcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcggaacaag gtactgggct cctgacgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactgccag gaaggaccaa
7141 tcccagggct gctgtccccg ctcggggctt ctccagtgta ccttctaata cttctactgc
7201 tacttctgtg tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa
7321 caggaatttg tcacctttca tgaggggagc tcacaacata tcgtttgtca ccccaccatc
7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttc cctttcttta gtgtctttt
//