Typing tool
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Typing tool
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Complete norovirus genomes
| MW305738 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305738 7528 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate JW2015 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305738
VERSION MW305738.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7528)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7528)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="JW2015"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="2015"
/note="genotype: GII.4[GII.P31]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59550.1"
/translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAPLSL
FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIA
IKKCQIVYNGGTYTLEADGKGSVKVDKVQSAIVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCPKPKDDEEFVV
SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQTVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59551.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59552.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt gtgttttcta
61 acatggctgt cacttttaag cgggccctcg gggcgcggcc taaacagccg cccccgaagg
121 aaataccacc cagacccccg cgaccaccca caccagaatt ggtcaaaaag atccctcctc
181 ccccgcccaa cggggaggat gaattagtgg tctcttacag cgccaaagat ggcgtttccg
241 gactgcctga gctcaccact gtcaggcaac cggaagaaac caacacggcg ttcagtgtcc
301 ccccactcaa ccaaagggag agcagggacg ccaaggagcc actaactgga acaatcattg
361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttatacttg
421 gtgtgcacaa gccaccggca gccattagcc ttgccaaggt cgagctagca ccgctctctt
481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagat
541 tacatggaga gtcattcccc tacactgcat ttgacaacaa ttgttacgcc ttttgttgtt
601 gggtattaga cctaaacgac tcatggctaa gcaggagaat gattcagaga acaacaggct
661 tcttcaggcc gtaccaggat tggaacagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agccaacata ttcttgtgca ctttgtcttc actattcacc agacccatta
781 aggacataat agggaagttg aaacctctta acatccttaa cattctggct acatgtgatt
841 ggaccttcgc aggcatagtg gaatccttaa tactcttggc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgatcg cccccttgct aggtgattat gaactgcaag
961 gacctgagga ccttgcagtg gaactggtcc caatagtgat gggggggata ggtttggtgc
1021 taggatttac caaagagaaa atcggaaaga tgctatcatc cgctgcatcc actttaagag
1081 cttgtaaaga ccttggtgca tacggactgg aaatcttaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgaactgg ctatggtgag atccatcgag gatgcagtac
1201 tagacctcga ggcaattgaa aacaaccaca tgaccaccct actcaaagac aaagacagct
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca
1321 aatctgcttc acccgatatt gtgggtacaa tcaactctct tctggcaaga atcgctgctg
1381 cacgctccct agtgcatcgg gcgaaagaag agctctccag caggccgaga cctgtcgttg
1441 tgatgatatc gggaagacca gggataggga aaactcacct tgccagggag ctggccaaga
1501 agatcgcggc ctccctcaca ggggaccagc gtgtgggcct tatcccacgc aatggtgtcg
1561 accactggga cgcatacaag ggcgaaagag ttgtcctatg ggacgactat ggaatgagta
1621 accccatcca tgatgccctc aggctgcagg agcttgctga cacttgcccc ctcacgctaa
1681 attgtgacag aattgagaac aaagggaaag tctttgacag tgatgccata attatcacca
1741 ccaatctggc caacccagca ccactggatt atgtcaactt tgaagcgtgc tcgagacgca
1801 ttgatttcct cgtgtacgca gaagcccctg aggtggagaa ggcaaagcgc gacttcccag
1861 gtcaacctga catgtggaag aacgctttta gtcctgactt ctcacacata aaactgtcat
1921 tggctccaca gggtggtttt gacaagaacg gcaacacccc gcatggaaaa ggggtcatga
1981 agaccctcac cactggctct ctcatcgccc gagcatcagg gttactccat gagaggctag
2041 atgaatatga actgcaaggc ccagccctca ccactttcaa ctttgaccgt aacaagatac
2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg
2161 gaaaacagct caaggatgtc aagactatgt cagacctcaa acaagcactc aagaacatcg
2221 cgatcaagaa gtgccaaata gtgtacaatg gtggcaccta cacacttgag gctgatggca
2281 agggtagtgt gaaagttgac aaagtgcaaa gtgccattgt gcagaccaac aatgaactag
2341 ccggtgccct acaccaccta aggtgcgcta gaatcagata ctatgttaag tgcgtccagg
2401 aggcactgta ttccatcatc caaatcgctg gggctgcgtt cgtcaccacg cgcatcgcta
2461 agcgcatgaa tatacagaat ctctggtcca agccacaggt ggaagacaca gaagagatgg
2521 ccaacaaaga tggttgccca aaacccaaag atgatgaaga gtttgtcgtc tcatccgacg
2581 acatcaaaac tgagggcaag aaagggaaga acaagtccgg ccgtggcaag aagcacacag
2641 ccttttcaag taaagggctt agtgatgagg agtacgatga gtacaagaga atcagagaag
2701 aaaggaatgg taagtactcc atagaagagt accttcagga cagagacagg tactacgagg
2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc
2821 ggcagagaat cttcagacca acaaggaaac aacgcaaaga agagagggcc tctctcggct
2881 tggtcacagg ctctgaaatc aggaagagaa acccagaaga cttcaaaccc aagggaaagc
2941 tgtgggctga tgatgacaga agtgttgact acaatgagaa actcaacttt gaggccccac
3001 caagcatctg gtcgcggata gtcaactttg gttcaggctg gggcttctgg gtctccccca
3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtcc
3121 ctatcaagca aatccagata cacaagtcag gtgaattctg ccggttgaga ttcccaaagc
3181 caatcagaac tgatgtgacg ggcatgattc tagaagaagg tgcgcccgag gggaccgtgg
3241 ccacactgct catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga
3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggt atgctcctga
3361 caggatccaa cgccaagagt atggacctag gcacaacacc aggcgactgc ggctgcccct
3421 acatctacaa gagggggaat gactacgtgg tcataggagt ccatacggcc gctgcccgtg
3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggag
3541 gtgacagtaa agggacatac tgtggcgcac caatcttggg cccagggagc gctccgaaac
3601 tcagtaccaa gactaagttt tggagatcat ccacaacacc actcccacct ggcacctacg
3661 aaccagccta cctcggtggc aaagacccta gagtcaaagg tggcccttca ttgcaacaag
3721 ttatgaggga ccagctgaag ccattcacag agcccagagg caaaccacca agaccaaatg
3781 tgttggaagc tgccaagaaa accatcatca atgtccttga gcaaacaatt gatccacccc
3841 aaaaatggtc atttgcgcaa gcttgcgcat cccttgacaa aaccacctcc agcggccacc
3901 cgcaccacat gcggaaaaac gactgttgga atggggagtc cttcacagga aaattggctg
3961 atcaagcctc caaggccaac ctaatgtttg aagagggaaa gaacatgact ccagtctaca
4021 caggtgcact taaagatgag ttggtaaaga ccgataaagt ttatggtaag gtcaaaaaga
4081 ggcttctgtg gggttcagat ctggcgacca tgatacggtg cgcccgagct tttggaggcc
4141 ttatggatga actcaaggca cactgtgtca cacttcctgt cagagttggt atgaacatga
4201 acgaggatgg ccccatcatc tttgagaagc actccagata tagatatcac tatgatgctg
4261 attattcccg gtgggactca acacaacaaa gggatgtgct agcagcagca ctagaaatca
4321 tggttaagtt ctctccagaa ccacacctgg cccagacagt tgcagaagac ctcctttccc
4381 ctagtgtgat ggatgtaggt gactttcaaa tatcaataag tgagggtctc ccctctgggg
4441 taccttgtac ctcccagtgg aattccatcg cccactggct cctcactctg tgtgcactct
4501 ctgaagtcac ggacctgtcc cctgatatca ttcaggccaa ctcccttttc tccttctatg
4561 gtgatgatga gattgtaagc acagacataa aattggaccc agagaagctg acagcaaagc
4621 tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct
4681 ctgaagacct ggatggcctg acatttctcc ggagaactgt gacccgtgat ccagctggct
4741 ggtttggaaa attggaacaa agttcaattc tcaggcaaat gtactggacc aggggtccca
4801 accatgaaga tccatttgaa acaatgatac cacactccca aagacccata caattgatgt
4861 ccttgctggg cgaggctgca ctccacggcc cggcattcta tagcaaaatt agcaagttag
4921 tcattgcaga gttgaaggaa ggtggcatgg atttttacgt acccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgccatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct tgggccctga tctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aaggtcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag
5461 gtcactatgt tcccccatat agttgtagat gttaggcaat tagaacctgt gttgattccc
5521 ttacccgatg ttaggaataa tttctatcat tacaatcaat caaatgaccc caccattaag
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggatga tgtcttcaca
5641 gtttcttgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtacca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cagtgccttt
5821 gttgtccaac cacaaaacgg taggtgcacg actgatggcg tgctcctagg caccacccag
5881 ctgtctcctg tcaacatctg caccttcaga ggagatgtca cccatatcac aggtagtcgt
5941 aactacacaa tgaatttggc ttctcagaat tggaacaatt atgacccaac agaagaaatc
6001 ccagctcctc taggaactcc agattttgtg gggaagattc aaggcgtgct cacccaaacc
6061 acaaggacag atggctcaac acgcggccac aaagccacag tgtacactgg gagcgccgac
6121 tttgcaccaa agctgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct
6181 aaccaaaaca caaaattcac cccagttggt gtcatccaag atggcagcac cacccaccga
6241 aatgaacccc aacagtgggt gctcccaagt tactcaggca gaaacactcc caatgtgcat
6301 ctggcccccg ctgtagcccc cactttcccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg acgtggctct gctaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgtaagc ttcataaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttatccccc ccaatggtta ttttaggttt
6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcactat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa tcaaaaagtt gagtttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctacaa caggcttcct
6841 ttcaacatga caaagagatg ctccaagcac aaattgaggc caccaaaagg ctacaacagg
6901 aaatgatgaa agttaagcag gcagtgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ctggaacggg acaaggtact
7021 gggctcccga tgctagaact acaacataca atgcaggccg cttttccacc cctcaaccat
7081 cgggggcact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggttcctcta
7141 gtaagtcttc taattcttct actgccactt ctgtgtactc aaatcaaact acttcaacga
7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cttcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca
7321 acatatcgtt tgtcacccca ccatctagta gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagccactct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcgtaatg tgaaaagaca aaattgatta
7501 tctttctttt tctttcttta gtgtcttt
//