Typing tool
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Typing tool
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Complete norovirus genomes
| AY581254 | GII.4 Farmington Hills | |
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| GII.P4 Farmington Hills |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS AY581254 7558 bp RNA linear VRL 14-SEP-2004
DEFINITION Human calicivirus Hu/NLV/Oxford/B5S22/2003/UK, complete genome.
ACCESSION AY581254
VERSION AY581254.1
KEYWORDS .
SOURCE Human calicivirus Hu/NLV/Oxford/B5S22/2003/UK
ORGANISM Human calicivirus Hu/NLV/Oxford/B5S22/2003/UK
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7558)
AUTHORS Dingle,K.E.
CONSRTM Norovirus Infection Control in Oxfordshire Communities Hospitals
TITLE Mutation in a Lordsdale norovirus epidemic strain as a potential
indicator of transmission routes
JOURNAL J. Clin. Microbiol. 42 (9), 3950-3957 (2004)
PUBMED 15364974
REFERENCE 2 (bases 1 to 7558)
AUTHORS Dingle,K.E.
TITLE Direct Submission
JOURNAL Submitted (24-MAR-2004) Microbiology/NDCLS, Oxford University, John
Radcliffe Hospital, Headley Way, Oxford, Oxfordshire OX3 9DU, UK
FEATURES Location/Qualifiers
source 1..7558
/organism="Human calicivirus Hu/NLV/Oxford/B5S22/2003/UK"
/mol_type="genomic RNA"
/strain="Hu/NLV/Oxford/B5S22/2003/UK"
/db_xref="taxon:270370"
/country="United Kingdom"
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AAS89039.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARS
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVISYSVKDGVSGLPELSTVRQPE
EANTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTSNELTGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEEVTNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWD
STQQRAVLASALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="ORF2"
/codon_start=1
/product="capsid protein"
/protein_id="AAS89040.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGML
TQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTRFTPVGVVQDG
NGTHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/codon_start=1
/product="ORF3 protein"
/protein_id="AAS89041.1"
/translation="MAGAFFAGLASDVLGSGLGSLISAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMEVKRAMLLEGGFSETDASRGAIN
APMTKALDWSGTRYWAPDARTTTYNTGRFSTPQPSGALPGRTNPRATVPARGFSNAPS
NTSTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
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 ttccggtctt cctgagcttt ccaccgttag
301 gcaaccggaa gaagctaata cggccttcag tgtccccccg ctcaatcaga gggagaatag
361 ggatgctaag gagccactga ctggaacaat tctggaaatg tgggatgggg aaatctacca
421 ttacggcctg tatgtggatc gaggtcttgt actaggcgtg cacaaaccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtatactcc
541 tcagtacctc atctctccag acactctcaa gaaattacac ggagaaacat tcccttacac
601 agcctttgac aacaattgct atgccttttg ctgctgggtc ctggacctaa acgactcgtg
661 gctgagtagg agaatgatcc agaggacaac 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 cttgatactc ctggcagagc tctttggaat 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 gttcttccca aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgt tccctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac cctaaactgt 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 atataaaact agcactggct ccacagggtg gcttcgataa
1981 aaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gctagatgag tttgaactac agggcccagc
2101 tctcaccacc 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 tctgtgcaga ccagcaatga gctgactggc gccctgcacc acctaaggtg
2401 tgccagaatc aggtactatg tcaggtgtgt ccaggaggcc ctgtattcca tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat cgtcaaacgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaag acacagagga ggtcaccaac 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 ctgaaggcac cgtggtcaca ctactcataa aaaggcctac
3301 aggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tctaacgcca aaagcatgga
3421 cctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatc ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggggagg ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaagacca aattctggag
3661 atcgtccaca gcaccacttc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccccagggtc aagggtggcc cttcattgca gcaagtcatg agggatcagt tgaaaccatt
3781 tacagagccc aggggaaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg
3901 cgcgtccctc gacaagacca cttccagtgg ccatccgcat 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 gtgttggcat cagctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt
4441 cacaatatca atcaacgagg gcctcccctc tggggtaccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgcgc gctctctgaa gttacaaatc tgtcccctga
4561 catcatacag gctaattccc tcttctcctt ttatggtgat gatgaaatcg 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 aatgttcagg 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 accattacaa ccaatcaaat gaccccacca ttaaattgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccccga ttttgatttc atatttctgg tgccacccac agttgagtca agaactaaac
5761 cattcaccgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cctattcctt
5821 tggaaaagtt gttcacgggt cctagcggtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtactc ttaggcacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccat attgcaggca ctcataatta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctgggg accccagatt
6061 tcgtgggaag gatccaaggc atgctcaccc aaactacaag gggagatggc tctacccgcg
6121 gccacaaagc tacagtgagc actggggatg tccacttcac tccaaagcta ggcagtattc
6181 agttcaacac tgatacaaac aatgattttg aaactggcca aaacacgaga ttcaccccag
6241 ttggtgttgt ccaggatggt aatggcaccc accaaaatga acctcaacaa tgggtgctcc
6301 caagctactc aggtagaact ggtcataatg tacacctagc ccccgccgta gcccccactt
6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtacccca
6421 acatgaattt ggattgttta ctcccccaag 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 attataatgg ctggagcttt
6721 cttcgccggg ctggcatctg atgtccttgg ctctggactt ggttccctaa tcagtgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac aggaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttgca acagggtatg atggaagtta aacgggcaat
6961 gctcctagag ggtggattct ctgaaacaga tgcatcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttagactgga gcggaacaag gtactgggct cctgatgcta ggactacaac
7081 atacaacaca ggccgctttt ccacccctca accctcgggg gcactgccag gaaggaccaa
7141 tcccagggct actgtccccg ctcggggctt ctccaatgca ccttctaata cttctactgc
7201 tacttctgtg tattcaaatc aaactgtttc aacgagactt ggttctacag ctggctctgg
7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa
7321 caggaatttg tcacctttca tgaggggggc tcacaacata tcgtttgtca ccccaccatc
7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt cctttcttta gggtcttt
//