Typing tool
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Typing tool
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Complete norovirus genomes
| MW305542 | GII.4 New Orleans | |
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| GII.P4 Yerseke |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305542 7523 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate PNV018146 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305542
VERSION MW305542.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7523)
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JOURNAL Unpublished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 7523)
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..7523
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PNV018146"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="24-Jun-2009"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ58962.1"
/translation="AVADSNNDTVKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR
PPRPPIPELIKNIPPPPPNGEDDIVVSYSVKDGVSGLPDLSTVRQPEESNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLARVELTPLSL
YWRPVYTPQYLISPDALKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAIV
RSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS
IKKCQIVYSGSTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARIRYYVRCV
QEALYSIIQIAGAAFVTTRIVKRMNIQNLWSKPQVENTEETTSKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGTKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGCEGEAILEGGDNKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDK
TEGPLAISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGSNHEDPFETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPNFVNEDGVE"
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="QPJ58963.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSSDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLATQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFATDTDNDFVANQNTKFTPVGVIQDG
DTAHRNEPQQWVLPSYSGRNSHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="QPJ58964.1"
/translation="MAGAFLAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPPGALPGRANLRAAVPARGSPSTFS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARARSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc tgatagcaac aacgacaccg taaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagcct cccccgaggg
121 aaataccaca aagaccccca cgaccaccca ttccagaact gatcaaaaat atcccccctc
181 ccccacccaa cggagaggat gacatagtgg tttcttatag tgtcaaagat ggtgtctctg
241 gtttgcctga tctttccacc gtcaggcaac cggaagaatc taacacggcc ttcagtgtcc
301 ctccactcaa tcagagggag aatagagatg ctaaggagcc actgactgga acaattttgg
361 aaatgtggga tggagaaatc tatcactatg gcctgtatgt agagcgaggt cttgtgctag
421 gtgtgcacaa accaccagct gccatcagcc tcgctagggt cgaactaaca ccactctcct
481 tgtactggag acctgtgtat actccccagt acctcatttc tccagacgct ctcaagaaac
541 tacacggaga gacgttcccc tacacagcct ttgacaacaa ctgctatgcc ttttgttgtt
601 gggtcctgga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct
661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gactccaagt
721 taaagaaggt agctaacata ttcctgtgtg cactgtcttc gctattcacc aggcctataa
781 aagatataat agggaagcta aggcctctta acatcctcaa catcttggcc tcatgtgact
841 ggacttttgc aggcatagtg gagtccttga tactcttggc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgactac gagctacaag
961 gacccgagga ccttgcagtg gagctcgtcc ctgtagtgat ggggggaatt ggtttggtgc
1021 taggtttcac caaagagaag attggaaaaa tgttgtcatc tgctgcttcc accttgagag
1081 cttgtaaaga tcttggtgca tatgggttag agatcctaaa gttggtcatg aagtggttct
1141 tcccgaagaa agaggaagca aacgaactgg ctatagtgag atccatcgag gatgcagtcc
1201 tggatctcga agcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagtc
1261 tgacaaccta catgagaacc cttgaccttg aggaggagaa agccaggaaa ctctcaacca
1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgctgctg
1381 cacgttctct ggtgcatcga gcgaaggagg aactttctag cagaccaaga cctgtagtgt
1441 tgatgatatc aggcagacca ggaataggga agacccacct tgccagggaa gtggctaaga
1501 gaatcgcagc ctcccttaca ggagaccagc gtgtaggcct cgtcccacgc aatggcgtcg
1561 accattggga tgcgtacaag ggagagaggg tcgttctgtg ggacgactat ggaatgagca
1621 atcctatcca cgatgccctc agattgcaag aactcgctga cacttgcccc ctcaccctaa
1681 actgtgacag gattgagaac aaaggaaagg tctttgacag cgatgtcatc attatcacca
1741 ctaatctggc taacccagca ccactggact atgtcaactt tgaagcatgc tcgaggcgca
1801 tcgacttcct cgtgtatgca gaagcccctg aggtcgaaaa ggcgaagcgt gacttcccag
1861 gccaacccga catgtggaag aacgccttca gttctgattt ctcacacata aaactaacac
1921 tggctccaca gggtggtttc gacaagaacg ggaacacccc acacgggaag ggcgtcatga
1981 agactctcac cacaggctcc cttattgccc gggcatcagg gctactccac gagaggttag
2041 atgaatttga actacagggc ccaactctca ctaccttcaa ctttgatcgc aacaaagtgc
2101 ttgcctttag acaacttgct gctgaaaaca agtatgggtt aatggacaca atgaaagttg
2161 ggaggcagct caaggatgtc agaacaatgc cagagctcaa gcaagcactc aagaatattt
2221 caatcaagaa gtgccagata gtgtatagtg gtagcaccta cacacttgag tctgatggca
2281 agggcaatgt gaaggttgac agagttcaga gtgcctccgt gcagaccaac aatgagctgg
2341 ctggcgccct acaccatcta aggtgcgcca gaataagata ctatgtcagg tgtgtccagg
2401 aggccttgta ttccatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaaaac ctatggtcta agccacaagt ggaaaacaca gaggagacta
2521 ccagcaagga cgggtgtcca aaacccaaag atgacgagga gttcgtcatt tcatccgacg
2581 acatcaaaac tgagggcaag aaagggaaaa acaagactgg ccgcggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtacgatga gtacaagagg attagagaag
2701 aaaggaatgg taaatactcc atagaagagt accttcagga cagggacaaa tactatgagg
2761 aggtggccat tgccagggcg actgaggaag acttctgtga agaggaggag gccaagatcc
2821 ggcaaaggat cttcaggcca acaaggaaac aacgcaagga ggaaagagct tctctcggtt
2881 tagtcacagg ttctgaaatt aggaaaagaa atccagatga tttcaaaccc aaagggaaac
2941 tgtgggctga cgatgacaga agtgtggact acaatgagaa actcagtttt gaagccccac
3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggattctgg gtctccccca
3061 gtttgttcat aacatcaacc catgtcatac cccagggaac aaaggagttc tttggagtcc
3121 ccatcaaaca aattcaggta cataagtcag gcgaattctg tcgcttgaga ttcccaaaac
3181 caatcagaac tgatgtgaca ggcatgatct tagaagaagg tgcacccgag ggcaccgtgg
3241 tcacactact catcaaaaga tccactggag aactcatgcc cctagcagct aggatgggga
3301 cccacgcaac catgaaaatc caaggacgca ctgttggagg tcaaatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggatctgg gtaccacacc aggtgattgt ggctgtccct
3421 acatctacaa gagaggaaat gactatgtgg tcattggagt tcacacggct gccgctcgtg
3481 ggggcaacac tgtcatatgt gccacccagg ggtgtgaggg agaggctata cttgaaggtg
3541 gtgacaataa aggtacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac
3601 ttagcaccaa gaccaaattc tggagatcgt ccacagcacc actcccacct ggtacctatg
3661 aaccagccta tcttggtggt aaggacccca gagtcaaggg tggaccttca ctgcagcagg
3721 tcatgaggga tcagctgaag ccattcacag agcccagggg caagccacca aagccaagtg
3781 tgttggaagc tgctaagaaa accatcatca atgtccttga gcaaacaatt gatccacctg
3841 agaagtggtc gttcgcacaa gcttgcgcgt cccttgacaa gaccacctcc agtggccatc
3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag
3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa gaacatgacg ccagtctata
4021 cagctgcgct taaggatgaa ttagtcaaaa ctgacaaaat ttatagcaag atcaagaaga
4081 ggcttctctg gggctcggat ttggcgacca tgatccggtg tgctcgagca ttcggaggcc
4141 taatggatga actcaaagcg cactgtgtca cacttcccat tagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaggc actccaggta cacgtaccac tatgatgctg
4261 attattctcg atgggattca acacaacaga gagccgtgtt ggcagcagct ctagaaatca
4321 tggttaagtt ctccccagaa ccacatttgg cccaggtagt cgcagaagac cttctttctc
4381 ctagcgtggt ggacgtgggt gacttcacaa tatcaattaa tgagggtctt ccctctgggg
4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcaccctc tgtgcgctct
4501 ctgaagttac aaacttgtct cctgacacca tacaagctaa ttccctcttc tctttttatg
4561 gtgatgatga aattgttagc acagacataa aattggaccc agaaaaattg acagcaaagc
4621 tcagggaata tgggttgaag ccaacccgcc ccgacaaaac tgaaggaccc cttgccatct
4681 ctgaagactt gaatggcctg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa gctggagcag agttcgatac tcaggcaaat gtactggact aggggttcca
4801 accatgaaga cccatttgag acaatgattc cacactccca aagacccata caactgatgt
4861 ccctactggg ggaggccgct ctccacggcc cagcattcta cagcaaaatc agcaagttag
4921 tcattgcaga gcttaaagaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctaagca cgtgggaggg cgatcgcaat ctggctccca
5041 attttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cacagccaac
5101 ctcgtcccag aggtcaataa tgaggttatg gctttggaac ccgttgttgg tgccgccatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt cacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct taggccctga tttgaatccc tacctttccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta atcctcgcgg ggaacgcgtt caccgccgga
5401 aagatcatat ttgcagcagt cccaccaaat ttcccaactg aaggcttgag ccccagccag
5461 gtcactatgt tcccccacat aatagtagat gttaggcaac tggaacctgt gttgatcccc
5521 ttacccgatg ttaggaataa tttctatcac tacaaccaat caagtgaccc caccatcaaa
5581 ctgatagcaa tgttgtacac accacttaga gctaacaatg ctggggacga cgtcttcaca
5641 gtttcttgtc gggttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccaa tcttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cagtgccttt
5821 gttgttcaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg taccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccatatcac aggtagtcat
5941 aactacacaa tgaatttggc tactcaaaat tggaacagtt atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agatttcgtg ggaaagattc aaggtgtgct cacccaaacc
6061 acaagggcag atggctcgac ccgcggccac aaagctacag tgtacactgg gagcgccgat
6121 tttgctccaa aactgggtag agttcaattt gccactgaca cagacaatga ttttgttgct
6181 aaccaaaaca caaagttcac cccagtcggt gtcatccagg atggcgatac tgcccaccga
6241 aatgaacccc aacaatgggt gctcccaagt tactcaggca gaaatagtca caatgtgcac
6301 ctggcccccg ctgtagcccc cacttttccg ggtgagcaac ttctcttctt cagatccact
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg
6421 gtgcagtatt tctatcaaga ggcagcccca gcacaatctg atgtggccct gctaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgtaaac ttcataaatc aggctatgtt
6541 acagtggctc acaccggcca acatgatttg gttatccccc ccaatggtta tttcagattt
6601 gattcctggg tcaaccagtt ctacacactt gcccccatgg gaaatggaac ggggcgcagg
6661 cgtgcattat aatggctgga gctttccttg ctggattggc atctgacgtc cttggctccg
6721 gacttggttc tctgatcaat gccggggctg gggccatcaa ccaaaaagtt gaatttgaaa
6781 ataacagaaa attgcaacaa gcttccttcc agtttagcag caatctacaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc caccaaaaag ttgcaacagg
6901 aaatgatgag agttaaacag gcaatgctcc tagagggtgg gttctctgaa acagatgcag
6961 cccgtggggc aatcaacgcc cccatgacaa aggctttgga ctggagtggg acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggcca tttttccacc cctcaacccc
7081 cgggggcgct gccaggaaga gccaatctta gggctgctgt ccccgctcgg ggctccccca
7141 gcacattttc caactcttct actgctactt ctgtgtactc aaatcaaacc acttcaacga
7201 gacttggttc tacagctggt tctggcacca gtgtctcgag cctcccgtca actgcaaggg
7261 ctaggagctg ggttgaggat caaaatagga acttgtcacc tttcatgagg ggggcccaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcccaaaga agttttggac tcctggactg gcgctttcaa tacgcgcagg cagcctctct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcgtaatg tgaaaagaca aaattgatta
7501 tctttctttt ctttagtgtc ttt
//