Typing tool
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Typing tool
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Complete norovirus genomes
| JX459900 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS JX459900 7558 bp RNA linear VRL 10-MAY-2013
DEFINITION Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU, complete genome.
ACCESSION JX459900
VERSION JX459900.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU
ORGANISM Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7558)
AUTHORS Eden,J.S., Tanaka,M.M., Boni,M.F., Rawlinson,W.D. and White,P.A.
TITLE Recombination within the Pandemic Norovirus GII.4 Lineage
JOURNAL J. Virol. 87 (11), 6270-6282 (2013)
PUBMED 23536665
REFERENCE 2 (bases 1 to 7558)
AUTHORS Eden,J.-S. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (06-AUG-2012) School of Biotechnology and Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
FEATURES Location/Qualifiers
source 1..7558
/organism="Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU"
/mol_type="genomic RNA"
/strain="Hu/GII.4/Randwick/NSW882J/2011/AU"
/host="Homo sapiens"
/db_xref="taxon:1241971"
/geo_loc_name="Australia"
/collection_date="Oct-2011"
/note="genotype: GII.4"
5'UTR 1..4
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFV08770.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSNMAVTLKRALGARP
KQPPPREIQQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGFVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGC
PRPKDDGEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG
TVVSLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AFV08771.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSTFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFDANQNTKFTPVGVIQDG
NTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="minor structural protein"
/codon_start=1
/product="VP2"
/protein_id="AFV08772.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQSQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGVPPGRANLRAAVPARGPSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSSARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7514..7558
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acaaaatgtt ttctaacatg gctgtcactc ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaata caacaaagac ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaagt
241 agtggtttct tatagtgcca aagatggcgt ttccggtttg cctgagcttt ccaccgtcag
301 gcaaccggaa gaaaccaata cggccttcag tgtcccccca ctcaatcaga gggagaatag
361 ggatgctaag gaaccactaa ctgggacaat tctggaaatg tgggatgggg aaatctacca
421 ttatggcctg tatgttgagc aaggttttgt gctgggcgtg cacaagccac cagctgccat
481 tagcctcgcc aaggtcgaat taacaccact ctccttgttc tggagacctg tgtacactcc
541 tcagtacctc atttctccag acaccctcaa gaaattacac ggagaaacat ttccctacac
601 agcctttgac aacaattgct atgccttttg ttgctgggtc ctggatttaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac aggcttcttc agaccctacc aagattggaa
721 tagaaaaccc ctccccacta tggatgattc caaattaaag aaggtggcta acatattcct
781 gtgcgccctg tcttcgctat tcactaggcc cataaaagac ataataggaa agttaaggcc
841 tcttaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ttggcggagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactcggtg atttcgagtt acaaggacct gaggaccttg tagtggagct
1021 cgtccctgtg gtaatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg catccacctt gagagcttgc aaagaccttg gtgcatatgg
1141 actagagatc ttgaagttag tcatgaagtg gttcttcccg aagaaagagg aagcgaatga
1201 actggccatg gtgagatcca tcgaggatgc agtactggac cttgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga tagcctggca acctacatga gaaccctcga
1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcacttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcaaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca ggccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 aagggtcgtc ctatgggacg actatggaat gagcaacccc atccacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctaaattgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaat ctggccaacc cagcaccact
1801 ggactacgtc aactttgagg cgtgctcgag acgcatcgac ttcctcgtgt acgcagaagc
1861 ccccgaggtc gaaaaggcga agcgcgactt cccgggccaa cctgacatgt ggaaaaacgc
1921 ttttagttct gatttctcac acataaaatt ggcactggct ccacaaggtg gctttgataa
1981 gaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag attggatgag ttcgaactac agggcccaac
2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga
2161 aaacaaatat ggattgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac
2221 catgccagaa cttaagcaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta
2281 cagtggttgc acctacacac ttgagtctga tggcaagggc aacgtgaaag ttgacagagt
2341 acagagtacc tccgttcaga ccaacaatga gctggctggc gccctgcacc atctaaggtg
2401 cgccagaatc aggtattatg ttaagtgtgt tcaggaagcc ctgtattcta tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg
2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaagacc
2581 caaagatgat ggggagttcg tcatttcatc tgacgacatt aaaacagagg gtaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagtga
2701 tgaagagtat gatgaataca agagaattag agaggaaaga aatggcaagt actccataga
2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta gaccaacaag
2881 gaaacaacgt aaggaagaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaatccg gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt
3001 ggactataac gaaaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa
3061 ctttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa
3181 gtcaggcgaa ttctgtcgct tgaggttccc aaagccaata aggaccgatg tggctggcat
3241 gatcttggaa gaaggtgcgc ccgaaggcac cgtggtctca ctactcatca aaaggtctac
3301 tggagaactc atgcccctag cggctagaat gggaacccac gcaaccatga agattcaagg
3361 acgcactgtt ggaggtcaga tgggcatgct tttgacagga tccaacgcca aaagcatgga
3421 tctaggcacc acaccaggcg attgtggctg tccctacatc tacaagagag gaaacgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggggt gagggggaag ctacacttga aggcggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaactcagc accaaaacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaaaga
3721 ccccagagtc aagggtggcc cctcgctgca gcaagtcatg agggaccagc taaaaccatt
3781 tacggagcct aggggtaagc caccaaagcc aagtgtgtta gaagctgcta agaaaaccat
3841 catcaatgtc cttgagcaga caattgatcc acctgagaag tggtcgttcg cacaagcttg
3901 cgcatccctt gataagacca cttctagcgg ccatccgcac cacatgcgaa aaaatgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaaag ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacaggt gcacttaagg atgaattagt
4081 caaaactgac aaagtttatg gtaagatcaa gaagaggctt ctctggggct cggacctggc
4141 aaccatgatc cggtgtgctc gagcattcgg aggtctgatg gatgagctca aagcacactg
4201 tgtcacactt cctgtcagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacagat accattatga tgctgattac tctcggtggg attcaacaca
4321 acagagagcc gtactggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtagcag aagaccttct ttctcctagt gtagtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctttgtgc gctctccgaa gtcacaaatt tgtctccaga
4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagcacaga
4621 cataaaatta gacccagaga aattgacagc aaagctcaag gaatatgggt tgaaaccaac
4681 ccgccctgac aaaactgaag ggccccttgt tatttctgaa gacttagacg gtttgacttt
4741 tctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggaccagggg ccccaatcat gaagacccat ctgaatcaat
4861 gatcccacac tctcaaagac ccatacaatt gatgtcctta ctgggtgagg ccgcactcca
4921 cggcccaaca ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcggatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc gcctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa
5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtgatcct cgcggggaac gcgttcaccg ctggaaaaat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagtccca gccaggttac tatgttcccc catataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccttacc tgatgttaga aataacttct
5581 atcattataa tcagtcaaat gattctacca ttaaattgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gatgatgtct ttacagtttc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttag tgccacctac agttgaatca agaactaaac
5761 cattctctgt cccaatttta actgttgaag aaatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggc cccagtagta cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ttaggtacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggca gtcgtaacta cacaatgaat ctggcttccc
6001 aaaattggaa cagttatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacagatggc tcgacccgcg
6121 gtcacaaagc tacagtgtac actgggagtg ccgacttttc tccaaaactg ggtagagttc
6181 aatttgccac tgacacagac aatgatttcg atgctaacca aaacacaaag ttcaccccag
6241 tcggcgttat ccaggatgga aatactgccc accgaaatga accccaacaa tgggtgctcc
6301 caagctactc aggcagaaac acccataatg tgcacctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaactcctc ttcttcagat ctaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaagcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggtcc
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgactc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat gggacggggc gtaggcgtgc attgtaatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaggcttc
6841 cttccaattt agtagcaact tacaacaagc ttcctttcaa catgataaag agatgctcca
6901 atcacaaatt gaggccacca aaaagctgca acaggaaatg atgagagtta aacaagcaat
6961 gctcctagag ggtggattct ccgagacaga tgcagctcgt ggggcaatca acgcccccat
7021 gacaaaagtt ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggtcgctttt ccacccctca accctcgggg gtaccaccag gaagagctaa
7141 tcttagggct gctgtccccg cccggggtcc ctccagcaca tcttctaact cttctattgc
7201 tacttctgtg tattcgaatc agaccacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcatctgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagtagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaatacgc gcaggcagcc tctcttcgct cacatccgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaattg attatctttc ttttctttag tgtctttt
//