Typing tool
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Typing tool
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Complete norovirus genomes
| KY424336 | GII.4 Sydney | |
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| GII.P4 Bristol |
ORF1: 1..5069
ORF2: 5050..6669
ORF3: 6669..7475
LOCUS KY424336 7521 bp RNA linear VRL 19-APR-2018
DEFINITION Norovirus GII.4 isolate Hu/GII.4/MD104-9/1987/US nonstructural
polyprotein gene, partial cds; and major capsid protein VP1 and
minor capsid protein VP2 genes, complete cds.
ACCESSION KY424336
VERSION KY424336.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7521)
AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C.J.,
Sosnovtsev,S.V. and Green,K.Y.
TITLE Static and Evolving Norovirus Genotypes: Implications for
Epidemiology and Immunity
JOURNAL PLoS Pathog. 13 (1), e1006136 (2017)
PUBMED 28103318
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7521)
AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C.,
Sosnovtsev,S.S. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (03-JAN-2017) LID, NIAID, NIH, 50 South Drive, B50/R6316,
Bethesda, MD 20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Bowtie v. 2; Sequencher v. 5
Sequencing Technology :: Sanger dideoxy sequencing; IonTorrent
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7521
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/isolate="Hu/GII.4/MD104-9/1987/US"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="USA"
/collection_date="Nov-1987"
/note="genotype: GII.4"
CDS <1..5069
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="APU54771.1"
/translation="AVANSNNDTAKSSSDGVLSSMAITFKRALGARPKQPPPREILQR
PPRPPTPELVKKIPPPPPNGEDELVVSYSVKDGVSGLPELSTVRQPDEANTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAVSLAKVELTPLSL
FWRPVYTPQYLISPDTLKRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTVDDSKLKKVANLFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILMAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS
IKRCQIVYSGCTYTLESDGKGNVKVDRVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETINKDGCPKPKDDEEFVV
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLPQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWSFTQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLTISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5050..6669
/codon_start=1
/product="major capsid protein VP1"
/protein_id="APU54772.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSHDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICNFRGDVTHIVGSHDYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGLL
TQTTRADGSTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQTGQNTKFTPVGVIQDG
DHHQNEPQQWVLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVI
PPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6669..7475
/codon_start=1
/product="minor capsid protein VP2"
/protein_id="APU54773.1"
/translation="MAGSFFAGLASDVLGSGLGSLINAGAGAINQKVELENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQDLMKVKQAVLLEGGFSTTDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRITVPARGPPSTLS
NASIATSVYSNQTVSTRLGSSAGSGTGVSSLPSTARTRNWVEDQNRNLSPFMRGALNT
SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctat cacttttaaa cgagccctcg gggcgcggcc taaacagcct cccccgaggg
121 aaatactaca aagaccccca cgaccaccta ccccagaact ggtcaaaaag atcccccctc
181 ccccgcccaa cggggaggat gaactagtgg tttcttatag tgtcaaagat ggcgtttccg
241 gtctgcctga gctttccact gtcaggcaac cggatgaagc caatacggcc ttcagtgttc
301 ccccactcaa tcagagggag aatagggatg ccaaggagcc actaactgga acaattctgg
361 aaatgtggga tggagagatc taccattacg gcttatatgt ggagcgaggt cttgtacttg
421 gtgtgcacaa accaccagct gccgtcagcc tcgccaaggt cgaactaaca ccactctcct
481 tgttctggag acctgtatac actccccagt atctcatctc cccagacact ctcaagagat
541 tgcacggaga atcgttcccc tatacagcct ttgacaacaa ttgctatgcc ttctgttgct
601 gggtcttaga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt
661 tctttagacc ctatcaagat tggaatagga aacccctccc tactgtggat gactccaaat
721 taaagaaggt agctaactta ttcctgtgtg ctctatcttc actattcacc aggcccatca
781 aagacataat agggaaacta agacctctca acatcctcaa catcttggcc tcatgtgatt
841 ggactttcgc aggcatagtg gagtccttga tactcatggc agagctcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttgct aggtgattac gagttacaag
961 ggcctgagga ccttgcagtg gaactcgttc ctatagtgat ggggggaatt ggtttggtgc
1021 taggatttac caaagagaag attgggaaga tgttgtcatc tgctgcatcc accttaagag
1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa attagtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgagctgg ctatggtgag atccatcgag gatgcggtgc
1201 tggacctcga ggcaattgaa aacaaccata tgaccaccct gctcaaagac aaagacagtc
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtctgcttc acctgatatc gtgggtacaa tcaacgccct tctggcaaga atagctgctg
1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cccgttgtcg
1441 tgatgatatc aggcagacca gggataggga agacccacct tgccagggaa ctggccaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggtct catcccacgc aatggcgtcg
1561 accactggga cgcatacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagta
1621 atcccatcca tgatgccctc aggttacaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgccata atcatcacca
1741 ctaatctggc caacccagca ccactggact acgtcaactt tgaggcatgc tcgaggcgca
1801 tcgatttcct cgtgtatgca gatgcccctg aagtcgagaa ggcgaaacgt gattttccag
1861 gccaacctga catgtggaag aacgctttca gtcctgattt ctcgcacata aaactaacgc
1921 tggctccaca gggtggcttc gacaagaatg gaaacacccc acatgggaag ggcgtcatga
1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctactccat gagaggttag
2041 atgagtatga gctacagggc ccaactctca ccactttcaa ctttgatcgc aacaaggtgc
2101 ttgcttttag gcagcttgct gctgaaaaca aatacgggct gatggacaca atgaaagttg
2161 gaagacagct caaggatgtc agaaccatgc cagagcttaa acaagcactc aagaatatct
2221 caatcaagag gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca
2281 agggcaatgt gaaagttgac agagttcaga gcgccaccgt gcagaccaat aacgagctgg
2341 ccggcgccct acaccatcta aggtgcgcca gaattaggta ctatgtcaag tgtgtccagg
2401 aggccctata ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca gaggagacta
2521 tcaacaagga cgggtgccca aaacccaaag atgatgagga gttcgtcgtc tcatctgacg
2581 acatcaaaac tgagggcaag aaagggaaga acaagactgg ccgtggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtacgatga gtacaagaga atcagagaag
2701 aaagaaacgg caagtactcc atagaagagt accttcagga cagggacaag tactatgagg
2761 aggtggccat tgccagggcg accgaagagg acttctgtga agaggaggag gccaagattc
2821 ggcagaggat tttcaggcca acaaggaaac aacgcaagga ggagagggcc tctctcggtt
2881 tagtcacagg ctctgaaatc aggaagagga acccagatga tttcaagccc aagggaaaac
2941 tgtgggctga tgatgacagg agtgtagact acaatgagag actcagtttt gaggccccac
3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggcttttgg gtttctccca
3061 gcctgttcat aacatcaact catgtcatac cccagggcgc acaggagttc tttggagtcc
3121 ccatcaagca aattcagata cacaaatcgg gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcaggac tgatgtggcg ggcatgatct tagaagaagg tgcgcccgaa ggtaccgtgg
3241 ccacactact catcaagagg cctactggag aacttatgcc cttagcagcc agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcaaatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggatctag gcaccacacc aggtgactgc ggctgcccct
3421 acatctacaa gagggagaat gactacgtgg ttattggagt ccacacggct gccgctcgtg
3481 gggggaacac tgtcatatgt gccacccagg ggagtgaggg agaggctaca cttgaaggcg
3541 gtgacagtaa gggaacctac tgtggtgcac caatcctagg cccaggaagt gccccaaaac
3601 tcagcaccaa gactaaattc tggagatcat ctacaacacc actcccacct ggcacctatg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgccacaag
3721 tcatgaggga tcagctgaaa ccatttacag agcccagggg caaaccacca aagccaagtg
3781 tgttggaggc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctc
3841 agaagtggtc attcacgcaa gcttgcgcgt ccctcgacaa gactacttcc agtggccatc
3901 cgcaccacat acggaaaaac gactgctgga acggggaatc cttcacaggc aagttggcag
3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccggtctaca
4021 caggtgcgct taaggatgag ttggtcaaaa ctgacaaaat ttatggcaag atcaagaaga
4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgggca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtta cacttcctgt cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaggc attccaggta taaatatcac tatgatgctg
4261 attactctcg gtgggattca acgcaacaga gagccgtatt agcagcagcc ctagaaatca
4321 tggttaaatt ctccccagaa ccacatctgg cccagatagt tgcagaagac cttctctctc
4381 ctagtgtgat ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg
4441 tgccctgcac ctcccaatgg aattccatcg cccactggct cctcactctc tgtgcactct
4501 ctgaagtcac aaacttgtcc cctgatatca tacaggctaa ttccctcttc tccttttatg
4561 gcgatgatga aattgtcagt acagatataa agttggaccc agagaaattg acagcaaaac
4621 tcaaggaata cgggttgaaa ccaacccgcc ctgacaaaac tgaaggaccc cttactatct
4681 ctgaagactt gaatggtctg accttcctgc ggagaactgt gacccgcgac ccagctggct
4741 ggtttggaaa attggaacag agttcaatac ttaggcaaat gtactggact aggggcccca
4801 accatgaaga cccatctgaa acaatgatac cacactccca aagacccata caattaatgt
4861 ccctactggg cgaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagctag
4921 tcattgcaga gctgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgctatt
5161 gcggcacctg tagcgggcca acaaaatata attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga gatactatgg
5281 agcgcgccct tgggccctga tttgaacccc tatctttctc atttgtccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaagta atcctcgcgg ggaacgcgtt caccgccggg
5401 aaagttatat ttgcagcagt tccaccaaac tttccaactg aaggcttaag ccccagccag
5461 gttactatgt tcccccatat aattgtagat gttaggcaat tggaacctgt gttgatcccc
5521 ctacctgatg ttaggaataa tttctatcat tacaatcaat cacatgattc tacccttaag
5581 ttgatagcaa tgttgtatac accactcagg gctaataatg ccggggacga tgtcttcaca
5641 gtctcttgtc gagttctcac gaggccatcc cccgattttg atttcatatt cttggtgcca
5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg
5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcctag cagtgctttt
5821 gttgtccaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg tactacccag
5881 ctgtcagctg tcaacatctg taactttagg ggggatgtca cccatattgt gggcagccat
5941 gattatacaa tgaatctggc ttcccaaaat tggagcaatt atgacccaac agaagaaatc
6001 ccagcccccc tgggaacacc agattttgtg gggaagatcc aaggcctgct cacccagacc
6061 acaagagcgg atggctcgac ccgtgcccac aaagctacag tgagcactgg gagtgtccac
6121 ttcactccaa agttgggtag tgttcaattc accactgaca caaacaatga tttccaaact
6181 ggccaaaaca cgaaattcac cccagttggc gtcatccagg acggtgatca ccatcagaat
6241 gagccccaac aatgggtact cccaaattac tcaggtagaa ctggtcataa tgtgcacctg
6301 gcccctgccg ttgcccccac ttttccgggt gagcaactcc ttttctttag atccactatg
6361 cccggatgta gcgggtatcc caacatgaat ttggattgcc tactccccca ggaatgggtg
6421 ctgcacttct accaggaagc agctccagca caatccgatg tggctctgct gagatttgtg
6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatatcaca
6541 gtggctcaca ccggcccgta tgacttggtt atccccccca atggttattt tagatttgat
6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggaacggg gcgcagacgt
6661 gcattataat ggctggatct ttctttgctg gattggcatc tgatgtcctc ggctctggac
6721 ttggttctct aatcaatgct ggagctgggg ccatcaacca aaaagttgaa cttgaaaata
6781 acagaaaatt gcaacaagct tccttccaat ttagtagcaa tctacaacag gcttccttcc
6841 aacatgataa agagatgctc caagcacaaa ttgaggctac tcaaaaattg caacaggatc
6901 tgatgaaggt taaacaggca gtgctcctag agggtggatt ttccacaaca gatgcagccc
6961 gtggggcaat caatgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg
7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccacccct cagccttcgg
7081 gggcattgcc aggaagaact aatcctagga ttaccgtccc cgctcggggc ccccccagca
7141 cactttctaa tgcttctatt gctacttctg tgtattcaaa tcaaactgtt tcaacgagac
7201 taggttcttc agctggttct ggtaccggtg tctcgagtct cccgtcaact gcaaggacta
7261 ggaactgggt tgaggaccaa aacaggaatt tgtcaccttt catgaggggg gctctcaaca
7321 catcattcgt cacccctcca tctagtagat cctctaacca aggcacagtc tcaaccgtgc
7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg
7441 ctcacattcg caaacgaggg gagtcacggg tgtaatgtga aaagacaaaa ttgattttct
7501 ttcttttctt tagtgtcttt t
//