Typing tool
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Typing tool
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Complete norovirus genomes
| KY424340 | GII.4 Sydney | |
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| GII.P12 |
ORF1: 1..5069
ORF2: 5050..6669
ORF3: 6669..7475
LOCUS KY424340 7521 bp RNA linear VRL 19-APR-2018
DEFINITION Norovirus GII.4 isolate Hu/GII.4/MD04-7A/1988/US nonstructural
polyprotein gene, partial cds; and major capsid protein VP1 and
minor capsid protein VP2 genes, complete cds.
ACCESSION KY424340
VERSION KY424340.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
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/MD04-7A/1988/US"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="USA"
/collection_date="Jan-1988"
/note="genotype: GII.4"
CDS <1..5069
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="APU54783.1"
/translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREILQR
PPRPPIPELVKKIPPPPPNGEDELVVSYSVKDGVSGLPELSTVRQPDEANTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIL
IKRCQIVYSGCTYTLESDGKGNVRVDRVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETINKDGCPKPKDDEEFVV
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWSFTQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVALPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLTISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5050..6669
/codon_start=1
/product="major capsid protein VP1"
/protein_id="APU54784.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSHDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICNFRGDVTHIVGSHDYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGLL
TQTTRADGSTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQTGQNTKFTPVGVIQDG
DHHQNEPQQWVLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVI
PPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6669..7475
/codon_start=1
/product="minor capsid protein VP2"
/protein_id="APU54785.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQDLMKVKQAVLLEGGFSTTDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRVTFPARGPPSTLS
NASTATSVHSNQTVSTRLGSSAGSGTGVSSLPSTARTRNWVEDQNRNLSPFMRGALNT
SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagcct cccccgaggg
121 aaatactaca aagaccccca cgaccaccta tcccagaact ggtcaaaaag atcccccctc
181 ccccgcccaa cggggaggat gaactagtgg tttcttatag tgtcaaagat ggcgtttccg
241 gtctgcctga gctctccact gtcaggcaac cggatgaagc caatacggcc ttcagtgttc
301 ccccactcaa tcagagggag aatagggatg ccaaggagcc actaactgga acaattctgg
361 aaatgtggga tggagagatc taccattacg gcctatatgt ggagcgaggt cttgtacttg
421 gtgtgcacaa accaccagct gccatcagcc tcgccaaggt cgaactaaca ccactctcct
481 tgttctggag acctgtatac accccccagt atctcatctc cccagacact ctcaagagat
541 tgcacggaga atcgttcccc tatacagcct ttgacaacaa ttgctatgcc ttctgttgct
601 gggtcttaga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt
661 tctttagacc ctatcaagat tggaatagga agcccctccc tactgtggat gactccaagt
721 taaagaaggt agctaacata ttcctgtgtg ctctatcttc actattcacc aggcccatca
781 aagacataat agggaagcta agacctctta acatcctcaa catcttggcc tcatgtgatt
841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct
901 ggacaccccc agatgtgtct gcaatgattg cccccttgct aggtgattat gagttacaag
961 ggcctgagga ccttgcagtg gaactcgttc ctatagtgat ggggggaatt ggtttggtgc
1021 taggatttac caaagagaag attgggaaga tgttgtcatc tgctgcatcc accttaagag
1081 cttgtaaaga tcttggtgca tacgggctag aaatcctaaa attagtcatg aagtggttct
1141 ttccaaagaa agaggaagca aatgagctgg ctatggtgag atccatcgag gatgcggtac
1201 tggacctcga ggcaattgaa aacaaccata tgaccaccct gctcaaagac aaagacagtc
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtctgcttc acctgacatc gtgggtacaa tcaacgccct tctggcgaga atcgctgctg
1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgttgtcg
1441 tgatgatttc aggcagacca gggataggga agacccacct tgccagggaa ctggccaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggtct catcccacgc aatggcgtcg
1561 accactggga cgcatacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagta
1621 accccatcca tgatgccctc aggttacaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgccata attatcacca
1741 ctaatctggc caacccagca ccactggact atgtcaactt 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 gcaagcactc aagaatatct
2221 taatcaagag gtgccagata gtgtacagtg gttgcaccta tacgcttgag tctgatggca
2281 agggcaatgt aagagttgac agagttcaga gcgccaccgt gcagaccaat aacgagctgg
2341 ctggcgccct acaccaccta aggtgcgcca gaattaggta ctatgtcaag tgtgtccagg
2401 aggccctgta ttccatcatc caaattgctg gggctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca gaggagacta
2521 tcaacaagga cgggtgccca aaacccaaag atgatgaaga 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 accgaggagg acttctgtga agaggaggag gccaagattc
2821 ggcaaaggat tttcaggcca acaaggaaac aacgcaagga ggagagggcc tctctcggtt
2881 tagtcacagg ctctgaaatc aggaagagga acccagatga tttcaagccc aagggaaaac
2941 tgtgggctga tgatgacagg agtgtagact acaatgagag actcagtttt gaggccccac
3001 caagcatctg gtcgaggata gtcaattttg gttcaggttg gggcttttgg gtttctccca
3061 gcctgttcat aacatcaact catgtcatac cccagggcgc acaggagttc tttggagtcc
3121 ccatcaagca aattcagata cacaaatcgg gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcaggac tgatgtgacg 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 gagggaaaat gactacgtgg ttattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg agaggctaca cttgaaggcg
3541 gtgacagtaa gggaacctac tgtggtgccc caatcctagg cccaggaagt gccccaaaac
3601 tcagcaccaa gactaaattc tggagatcat ctacaacacc actcccacct ggcacctatg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgcaacaag
3721 ttatgaggga 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 aagctggcag
3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtttaca
4021 caggtgcgct taaggatgag ttggtcaaaa ctgacaaaat ttatggtaag atcaagaaga
4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgttg cacttcctgt cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaggc attccaggta taaatatcac tatgatgctg
4261 attactctcg gtgggactca acacaacaga gagccgtatt agcagcagcc ctagaaatca
4321 tggttaaatt ctccccagaa ccacatctgg cccagatagt tgcagaagac cttctctctc
4381 ctagtgtgat ggatgtgggt gacttcaaga tatcaatcaa tgagggtctc ccctctgggg
4441 tgccctgcac ctcccaatgg aattccatcg cccactggct cctcactctc tgtgcactct
4501 ctgaagttac aaacttgtcc cctgatacca tacaggctaa ttccctcttc tccttttatg
4561 gcgatgatga aattgtcagt acagatataa agttggaccc agagaaattg acagcaaagc
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 ccttactggg cgaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagctag
4921 tcattgcaga gctgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcaggtggat 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 cacagtgtct 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 tacaaccaat cacatgattc tacccttaag
5581 ttgatagcaa tgttgtacac accactcagg gctaataatg ccggggatga tgtcttcaca
5641 gtctcttgtc gagttctcac taggccatcc cccgattttg atttcatatt cttggtgcca
5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg
5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcctag cagtgctttt
5821 gttgtccaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg cactacccag
5881 ctgtcagctg tcaacatctg taactttagg ggggatgtca cccatattgt gggcagccat
5941 gattatacaa tgaacctggc ttcccaaaat tggagcaatt atgacccaac agaagaaatc
6001 ccagctcccc tgggaacacc agattttgtg gggaagatcc aaggcctgct cacccagacc
6061 acaagagcgg atggctcgac ccgtgcccac aaagctacag tgagcactgg gagtgtccac
6121 ttcactccaa agctgggtag tgttcaattc accactgaca caaacaatga tttccaaact
6181 ggccaaaata cgaaattcac cccagttggc gtcatccaag 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 gaggtttgtg
6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatatcaca
6541 gtggctcaca ccggcccgta tgacttggtt atccccccca atggttattt cagatttgat
6601 tcctgggtca atcagttcta cacacttgcc cccatgggaa atggaacggg gcgcaggcgt
6661 gcattataat ggctggagct ttctttgctg gattggcatc tgatgtcctc ggctctggac
6721 ttggttctct aatcaatgct ggagctgggg ccatcaacca aaaagttgag tttgaaaata
6781 acagaaaatt gcaacaagct tccttccaat ttagtagcaa cctacaacag gcttccttcc
6841 aacatgataa agagatgctc caagcacaaa ttgaggctac tcaaaaattg caacaggatt
6901 tgatgaaggt taaacaggca gtgctcctag agggtggatt ttccacaaca gatgcagccc
6961 gtggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg
7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccacccct cagccttcgg
7081 gggcattgcc aggaagaact aatcctaggg ttaccttccc cgctcggggc ccccccagca
7141 cactttctaa tgcttctact gctacttctg tgcattcaaa tcaaactgtt tcaacgagac
7201 taggttcttc agctggttct ggtaccggtg tctcgagtct cccgtcaact gcaaggacta
7261 ggaactgggt tgaggaccaa aacaggaatt tgtcaccttt catgaggggg gctctcaaca
7321 catcatttgt cacccctcca tctagtagat cctctaacca aggcacagtc tcaaccgtgc
7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg
7441 cccacattcg taaacgaggg gagtcacggg tgtaatgtga aaagacaaag ttgattatct
7501 ttcttttctt tagtgtcttt t
//