Typing tool
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Typing tool
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Complete norovirus genomes
| JX459906 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS JX459906 7560 bp RNA linear VRL 10-MAY-2013
DEFINITION Norovirus Hu/GII.4/Miranda/NSW850K/2011/AU, complete genome.
ACCESSION JX459906
VERSION JX459906.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/Miranda/NSW850K/2011/AU
ORGANISM Norovirus Hu/GII.4/Miranda/NSW850K/2011/AU
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7560)
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 7560)
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..7560
/organism="Norovirus Hu/GII.4/Miranda/NSW850K/2011/AU"
/mol_type="genomic RNA"
/strain="Hu/GII.4/Miranda/NSW850K/2011/AU"
/host="Homo sapiens"
/db_xref="taxon:1241970"
/country="Australia"
/collection_date="Jun-2011"
/note="genotype: GII.4"
5'UTR 1..4
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFV08788.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSNMAVTLKRALGARP
KQPPPREIPQGPPRPTTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGR
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEESTNKDGC
PKPKDNEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYNKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AFV08789.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFGTDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRDVPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="minor structural protein"
/codon_start=1
/product="VP2"
/protein_id="AFV08790.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFFETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRANPRTPTPARGSPNTSS
NASTATSIYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAYNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7514..7560
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acaaaatgtt ttctaacatg gctgtcactc tcaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaata ccacaaggac ccccacgacc
181 aactactcca gaactggtca aaaagatccc tccccccccg cccaacggag aggacgaagt
241 agtggtttct tatagtgcca aagatggtgt ctccggtttg cctgagcttt ccaccgtcag
301 gcaaccggaa gaaaccaata cggctttcag tgtccctccc ctcaatcaga gggagaatag
361 ggatgctaag gaaccactga ctggaacaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgttgagc gaggtcttgt gctgggtgtg cacaaaccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtacactcc
541 tcagtacctc atctctccag acacactcaa gaaattacac ggagaaacat ttccctacac
601 agccttcgac aacaattgct atgccttctg ttgctgggtc ctggatctaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccccacta tggatgattc caaattaaag aaggtagcta acatattcct
781 gtgcaccctg tcttcgctat tcaccaggcc cataaaagac ataataggga ggttaaggcc
841 tctcaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg atttcgagtt acaagggcct gaggaccttg tagtggagct
1021 cgttcctgta gtaatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 aaaaatgttg tcatctgctg catctacctt aagagcttgt aaagatcttg gtgcgtatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctagac cttgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctatatga gaacccttga
1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcccttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcgaa
1441 ggaggagctt tctagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgcgta ggcctcatcc cacgcaatgg cgtcgaccac tgggatgcgt acaaggggga
1621 gagggtcgtc ttatgggacg actatggaat gagcaatccc attcacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac actaaactgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag cgtgctcgag gcgcattgat ttcctcgtgt atgcagaagc
1861 ccccgaggtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaaaaacgc
1921 ttttagtcct gatttctcac acataaaatt ggcactggct ccacaaggtg gctttgataa
1981 gaacgggaac accccacatg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag attggatgag tttgaactac agggcccagc
2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga
2161 aaataaatac gggttgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac
2221 catgccagaa cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta
2281 tagtggttgc acctacacac ttgagtctga tggcaagggc aatgtgaaag ttgatagagt
2341 tcagagcacc tccgttcaga ccaacaatga gctggctggc gccctgcacc acctgaggtg
2401 cgccagaatc aggtactatg tcaagtgtgt tcaggaggcc ctgtattcta tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg
2521 gtccaagcca caagtggaaa acacagagga gtccaccaac aaggacgggt gcccgaaacc
2581 caaagataat gaggagttcg tcatttcatc tgacgacatt aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagtga
2701 tgaagagtat gatgagtaca agagaattag agaggaaagg aatggtaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaagaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca gaccaacaag
2881 gaaacaacgc aaggaagaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aaggaaccca gacgacttca agcctaaggg gaaactatgg gctgacgatg acagaagtgt
3001 ggactacaat gaaaaactca gttttgaggc cccaccaagt atctggtcaa ggatagtcaa
3061 ctttggctca ggttggggct tctgggtctc ccccagcctg tttataacat caacccacgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtacacaa
3181 gtcaggcgag ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgactggcat
3241 gatcctggaa gaaggcgcgc ccgaaggcac cgtggtcaca ctactcatca aaaggtctac
3301 tggagaactc atgcccttag cagctagaat ggggacccat gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggggt gagggggaag ctacacttga aggtggtgac aataagggaa catactgtgg
3601 cgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaaaacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gcggcaagga
3721 ccccagagtc aagggtggcc cctcgttgca gcaagttatg agggaccagc tgaaaccatt
3781 tacagagcct aggggtaagc caccaaaacc aagtgtgtta gaggctgcca agaaaaccat
3841 catcaatgtc cttgaacaaa caattgaccc acctgagaag tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttctagcgg ccatccacac cacatgcgga aaaacgactg
3961 ctggaacggg gaatctttca caggcaagct ggcggaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgactccagt ctacacaggt gcacttaagg atgaattagt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggtta ctctggggct cggatttggc
4141 aaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactc cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacagat accactatga tgctgattac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtagcag aagaccttct ttctcccagc gtggtggacg tgggggactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgcct tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc actctctgaa gttacaaatt tgtccccaga
4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagtacaga
4621 cataaaatta gacccagaga agttgacagc aaagcttaag gaatacgggt tgaaaccaac
4681 ccgccctgat aaaactgaag gacctcttgt tatttctgaa gacttagatg gcttgacctt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggactagggg ccctaaccat gaagatccat ctgaatcaat
4861 gattccacac tctcaaagac ccatacaatt gatgtcctta ctgggagagg ccgcactcca
4921 cggcccaaca ttctacaata aaatcagcaa attagtcatt gcagagttaa aagaaggtgg
4981 tatggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gtcggtgccg ctattgcggc gcctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc tcccttaggc cctgatctga
5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac
5461 caaatttccc gactgaaggc ttgagtccca gccaggtcac tatgttcccc cacataatag
5521 tggatgttag gcaattggaa cctgtgttga tccccttacc tgatgttagg aataacttct
5581 atcattataa tcaatcaaat gattctacca ttaaattgat agcaatgctg tatacaccac
5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccctga ttttgatttt atatttttgg tgccacctac agttgagtca agaactaaac
5761 catttactgt cccaatcttg actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aatggcagat
5881 gcacgactga tggcgtgctc ttaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggtt ctcgtaatta cacaatgaat ttggcttctc
6001 taaattggaa caattatgac ccaacagaag aaattccagc ccctctagga actccagatt
6061 tcgtgggaaa gattcaaggt gtgctcactc aaaccacaaa gggagatggt tcgacccgtg
6121 gtcataaagc tacagtttac actgggagtg cccccttcac tccaaagctg ggcagtgttc
6181 aattcggtac tgatacagaa aatgattttg aaactcacca aaacacaaaa ttcaccccag
6241 tcggtgtcat ccaggatggt ggcaccaccc accgaaatga accccaacaa tgggtgctcc
6301 caagttattc aggtagagat gtccctaatg tacacctagc ccctgctgta gcccccactt
6361 tcccgggtga acaacttctt ttctttaggt ctactatgcc cggatgcagc gggtatccca
6421 acatggattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag
6481 ctccagcaca atctgatgtg gctctattga gatttgtgaa tccagacacg ggcagggttc
6541 tgtttgagtg caaacttcat aaatcaggct atgtcacagt ggctcacacc ggccagcatg
6601 atttggtcat cccccccaat ggttatttta ggtttgattc ctgggttaat caattctaca
6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc tttataatgg ctggagcttt
6721 ctttgctggg ttggcatctg atgttcttag ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggct atcaaccaaa agattgattt tgaaaacaac agaaaattgc agcaagcttc
6841 cttccagttt agcagtaatc tacaacaggc ttcctttcaa catgataaag aaatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgaaagtca aacaggcagt
6961 gctcttagaa ggtggattct ttgaaacaga tgcagcccgt ggggcaatca acgcccctat
7021 gacaaaggct ctggactgga gcggaacaag gtactgggcc cctgatgcta ggactacaac
7081 atacaacgca ggccgttttt ccacccctca accttcgggg gtactgccag gaagagccaa
7141 tcccaggact cctacccccg ctcggggctc ccccaacaca tcttctaatg cttctactgc
7201 tacttctata tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agttgggttg aggatcaaaa
7321 cagaaatttg tcacctttca tgaggggggc ttacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tccagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta ggcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ccctttcttt agtgtctttt
//