Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| JQ613552 | GII.4 Apeldoorn | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS JQ613552 7559 bp RNA linear VRL 30-APR-2014
DEFINITION Norovirus Hu/GII.4/NSW123B/2010/AU, complete genome.
ACCESSION JQ613552
VERSION JQ613552.2
KEYWORDS .
SOURCE Norovirus Hu/GII.4/NSW123B/2010/AU
ORGANISM Norovirus Hu/GII.4/NSW123B/2010/AU
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7559)
AUTHORS Eden,J.S., Hewitt,J., Lim,K.L., Boni,M.F., Merif,J., Greening,G.,
Ratcliff,R.M., Holmes,E.C., Tanaka,M.M., Rawlinson,W.D. and
White,P.A.
TITLE The emergence and evolution of the novel epidemic norovirus GII.4
variant Sydney 2012
JOURNAL Virology 450-451, 106-113 (2014)
PUBMED 24503072
REFERENCE 2 (bases 1 to 7559)
AUTHORS Eden,J.-S. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (02-FEB-2012) School of Biotechnology and Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
REFERENCE 3 (bases 1 to 7559)
AUTHORS Eden,J.-S. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (02-AUG-2012) School of Biotechnology and Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
REMARK Sequence update by submitter
COMMENT On Aug 2, 2012 this sequence version replaced JQ613552.1.
##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7559
/organism="Norovirus Hu/GII.4/NSW123B/2010/AU"
/mol_type="genomic RNA"
/strain="Hu/GII.4/NSW123B/2010/AU"
/host="Homo sapiens"
/db_xref="taxon:1183266"
/geo_loc_name="Australia"
/collection_date="Aug-2010"
/note="genotype: GII.4"
5'UTR 1..4
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFP33183.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEVVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AFJ21432.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTPGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="minor structural protein"
/codon_start=1
/product="VP2"
/protein_id="AFP33184.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFFETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTST
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMMGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7514..7559
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctactcca gaactggtca aaaatattcc ccctccccca cccaacggag aggatgaagt
241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattatcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctta atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct
781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggagtc
901 tctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggatcttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgccg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctgaagttgg tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctata gtgaggtcca tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgggcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 tcctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaataaatat ggattgatgg acacaatgag agttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa cgtctcaatt aagaagtgcc aaatagtgta
2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtactcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga gaccaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gtctcagtga
2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaagttgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atctggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtgcacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ccacacttga aggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggtccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagcca aggggtaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacgtgcgga aaaacgactg
3961 ctggaacgga gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcactcaagg atgagttagt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc agatacacat atcactatga tgctgattac tctcgatggg actcaacaca
4321 acagagagcc gtgctggcag cagctttaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tatcccctga
4561 taccatacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg aacagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagaccctt ctgaaacaat
4861 gattccacac tcccagagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagca ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgta gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatttga
5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggt ttgagcccca gccaggtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgttagg aataatttct
5581 accactataa tcaatcaaat gaccccacca tcaaattgat agcaatgttg tacacaccac
5641 ttagggctaa taatgccggg gatgatgtct tcacagtttc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gtttacgggc cccagtagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc ccctgtcaac atctgcacct
5941 ttagagggga tgtcacccat actccaggca gtcataacta cacaatgaat ttggcctccc
6001 aaaattggaa cagttacgat ccaacagaag aaatcccagc ccctctagga actccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc aaacaacaag gacaaatggc tcgactcgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc
6181 aatttgccac tgacacagac aatgattttg aaactaacca aaacacaaag tttaccccag
6241 tcggtgttat ccaggatggt agtactaccc cccgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggcagaaac attcataatg tgcacctggc ccccgctgtg gcccccactt
6361 tcccgggcga gcagctcctc ttcttcagat ctactatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgcctg ctcccccagg aatgggtgca gtacttctac caggaggcag
6481 ccccagcaca atctgacgtg gctctgttaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaatcaaa aagttgaatt tgaaaacaac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat
6961 gctcctagag ggtggattct ttgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggccgctttt ccacccctca accctcgggg gcactaccag gaagagctaa
7141 tcttagggct actgtccccg cccggggttc ctccagcacg tctactaatt cttctattgc
7201 tacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa
7321 taggaatttg tcacctttca tgatgggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgca agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt
//