Typing tool
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Typing tool
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Complete norovirus genomes
| MW305525 | GII.4 Osaka | |
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| GII.P4 US95 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305525 7520 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate PNV005999-c1 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305525
VERSION MW305525.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7520)
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JOURNAL Unpublished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 7520)
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..7520
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PNV005999-c1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="28-Apr-2008"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ58911.1"
/translation="AVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQPPPREVPQR
PPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEENNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGLVLGVHKPPAAISLAKVELSPLSL
FWRPVYTPQYLISPDTLRKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANVFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVYWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKQEENELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRTRPVVLMISGRPGIGKTHLAREVAKRIASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM
WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGRQLKEVKTMPDLKQALRNIS
IKKCQIVYSGCTYVLESDGKGNVKVDKVQSTSVQTNNELSGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTGEAINKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSVWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT
GELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGSDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGRIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHARYKYHYDADYSRWDSTQQRAVLASA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
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="QPJ58912.1"
/translation="MKMASNDANPTDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLERLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGML
TQTTRRDGSTRGHKATVLTGSADFAPKLGRVQFATDTDNDFESGENTKFTPVGVIQDG
STTHRNEPQQWVLPNYSGRTGHNVHLAPAVAPTYPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVRHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
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="QPJ58913.1"
/translation="MAGAFFAGLASDVLGSGLGSLIGAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARSSSSTSS
NASIATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa agagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aagtaccaca aagaccccca cgaccaccca ccccagaact ggtcaaaaag atcccccccc
181 ccccgcccaa cggggaggat gaaatagtgg tttcctatag tgtcaaagat ggtgtttccg
241 gcttgcccga gctctccacc gtcagacaac cggaagaaaa caatacagcc ttcagtgttc
301 ccccactcaa ccagagggaa aatagggatg ctaaggagcc actgactggg acaattctgg
361 aaatgtggga tggagagatc tatcattacg gtctctatgt ggagcaaggt cttgtacttg
421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgagctatca ccactctcct
481 tgttctggag acctgtgtat accccacaat acctcatttc cccagacact ctcaggaaat
541 tacacgggga gtcgtttccc tacacagcct ttgacaacaa ttgctatgcc ttctgttgtt
601 gggtcttgga cctaaacgac tcgtggctga gtaggaggat gatccagaga actactggct
661 ttttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaagt agccaacgta ttcctgtgtg ctctatcttc actattcacc aggcccataa
781 aagatataat agggaaacta aggcccctta acatcctcaa catcttggcc tcatgtgatt
841 ggactttcgc aggtatagtg gaatccctga tacttctggc agagctcttt ggagtttact
901 ggacaccccc agatgtgtct gcaatgattg cccccttact cggcgattac gagttgcaag
961 ggcctgagga ccttgcagtg gaacttgttc ctgtagtgat ggggggaatt ggtttggtgc
1021 taggatttac caaagagaag attggaaaaa tgctgtcatc tgctgcatcc accttaaggg
1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa gttagttatg aagtggttct
1141 tcccaaagaa acaggaagaa aatgaactgg ctatggtgag gtccatcgag gatgcagtgc
1201 tggacctcga ggcaattgaa aacaaccaca tgaccacctt gctcaaggac aaagacagtc
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtccgcttc acctgatatc gtgggcacaa tcaacgccct tctggcgagg atcgctgctg
1381 cacgttccct ggtgcatcga gcaaaggagg agctttccag cagaacaaga ccagttgtcc
1441 tgatgatatc aggcagacca ggaataggga agactcacct tgctagagaa gtggccaaga
1501 gaatcgcatc caccctcaca ggagaccagc gtgtgggcct catcccacgc aatggcgtcg
1561 accactggga tgcgtacaag ggggagaggg tcgtcctatg ggatgactat gggatgagta
1621 atcccatcca cgacgcactc aggctgcaag aactcgctga cacctgcccc ctcactctga
1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgtcata attattacca
1741 ctaatctggc caacccagca ccactggact atgtcaactt tgaggcgtgc tcgaggcgca
1801 tcgatttcct cgtgtatgcg gaagcccctg atgtcgagaa ggcgaaacgt gacttcccag
1861 gacaaccaga catgtggaag aacgccttca gttctgactt ctcacacata aaactgacac
1921 tggccccaca aggtggcttc gacaagaacg gaaacactcc gcacggaaag ggcgtcatga
1981 agacactcac cactggctcc ctcattgccc gggcatcagg gttacttcat gagaggatgg
2041 atgagtttga attacagggc ccggctctca ccaccttcaa ctttgatcgc aacaaagtgc
2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt ggtggacaca atgagagtcg
2161 gaaggcagct caaggaggtc aaaaccatgc cagatcttaa acaggcactc aggaacatct
2221 caattaaaaa gtgccagatt gtgtacagtg gttgtactta tgtacttgag tctgatggca
2281 agggcaacgt gaaagttgac aaagttcaga gcacctctgt gcagaccaac aacgagctgt
2341 ccggcgccct acaccatctg aggtgcgcca gaattaggta ttacgttaag tgtgttcagg
2401 aggccctgta ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca ggggaggcta
2521 tcaataagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatccgacg
2581 atatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtacgatga gtacaagagg attagagaag
2701 aaagaaatgg caagtactct atagaagagt acctccagga cagggacaaa tactatgagg
2761 aggtggccat tgctagggcg actgaggaag acttctgtga agaagaggag gccaagattc
2821 ggcaaaggat tttcaggcca acaaggaaac aacgcaagga ggagagggcc tctctcggtt
2881 tggtcacagg ctctgaaatc aggaaaagaa acccagatga tttcaagccc aaggggaagc
2941 tgtgggccga cgatgacaga agtgtggact acaatgaaaa actcagtttt gaggccccac
3001 cgagcgtctg gtcgaggata gtcaactttg gttcgggttg gggcttttgg gtctctccca
3061 gtctgttcat aacatcaacc catgtcatac cccagggtgc taaagagttc tttggagtcc
3121 ctatcaagca gatccagata cataagtcag gcgagttttg tcgcttgagg ttcccaaaac
3181 caatcagaac tgatgtgacg ggcatgatct tagaagaagg tgcgcccgaa ggcaccgtgg
3241 tcacactgct catcaagagg cctactggag aacttatgcc cttagcagct agaatgggga
3301 cccatgcaac catgagaatt caagggcgca ctgttggagg tcagatgggc atgcttctga
3361 caggatccaa cgccaaaagt atggatctag gcaccacacc aggtgactgc ggctgccctt
3421 acatctataa gagggaaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg
3481 ggggaaatac cgtcatatgt gccacccagg gaagtgaggg ggaggccaca cttgaaggta
3541 gtgacagtaa gggaacatac tgtggagcac caatcctagg cccagggagc gccccaaaac
3601 tcagcaccaa gaccaaattc tggagatcgt ccacaacacc actcccacct ggcacttatg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgcagcagg
3721 ttatgaggga tcagttgaaa ccatttacag aacccagagg cagaccacca aagccaagtg
3781 tgttggaagc cgccaagaaa actattatca atgtccttga acagacaatt gacccacctg
3841 agaaatggtc attcgcgcaa gcttgtgcgt ccctcgataa gaccacttcc agtggccacc
3901 cgcaccacat gcggaaaaat gactgctgga acggggaatc cttcacaggt aagctggcag
3961 atcaggcttc caaggccaac ctgatgtttg aagaggggaa gaacatgacc ccagtctaca
4021 caggtgcgct caaggatgaa ctagttaaaa ctgacaaaat ttatggcaga atcaagaaga
4081 ggctgctctg gggctcggac ttagcgacca tgatccggtg cgcccgagcg tttgggggct
4141 taatggatga actcaaagca cactgtgtca cacttcctat cagagttggt atgaacatga
4201 atgaggatgg ccctatcatc tttgagaagc atgccagata caagtaccat tatgatgctg
4261 actactctcg gtgggattca acacaacaga gagccgtgtt agcatcagct ttagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg cccaggtagt cgcagaagac cttctctctc
4381 ctagcgtggt tgatgtgggc gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg
4441 tgccctgcac ctctcaatgg aactccatcg cccactggct tctcactctc tgtgcgctct
4501 ctgaagtcac aaacttgtcc cctgacatca tacaggctaa ttccctcttc tccttctatg
4561 gcgatgatga aattgttagt acagatataa aactagatcc agagaaattg acagcgaagc
4621 tcaaagaata cgggttgaaa ccaacccgcc ctgacaaaac tgaaggaccc cttgtcattt
4681 ctgaagacct gaatggtctg accttcctgc ggagaactgt gacccgcgat ccagctggtt
4741 ggtttggaaa attggagcag agttcaatac ttagacaaat gtactggact aggggcccca
4801 accatgaaga cccatctgaa acaatgattc cacattccca aagacccata caattgatgt
4861 ccctgctggg agaggccgca ctccacggcc cagcattcta cagcaagatt agcaagttgg
4921 ttatcgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gctttgtgaa tgaagatggc gtcgaatgac gccaacccaa ctgatgggtc cacagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtagg tgccgctatt
5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga gatactatgg
5281 agtgcgccct tgggccctga tttgaaccct tacctttctc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta atccttgcgg ggaacgcgtt caccgccgga
5401 aaaatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag
5461 gttaccatgt tcccccacat aatagtggat gttaggcaat tggaacctgt gttaattccc
5521 ctacctgatg ttaggaacaa tttctatcac tacaaccaat caaatgaccc caccattaaa
5581 ttgatagcaa tgctgtacac accacttagg gccaataatg ctggagatga tgtcttcacg
5641 gtctcttgtc gagtgctcac gaggccatcc cctgattttg atttcatatt tctggtaccg
5701 ccaacagttg aatcaagaac taaaccattc actgtcccaa tcttaactgt tgaggaaatg
5761 accaattcaa gattccccat tcctttggag aggttgtaca cgggtcccag cagtgctttt
5821 gttgttcaac cacaaaacgg caggtgcacg actgatggcg tgctcttagg cactacccag
5881 ctgtctgctg tcaacatctg cacctttaga ggagatgtca cccacattgc aggctctcgc
5941 aattatacaa tgaatttggc ctctcaaaat tggaacaact atgacccaac agaagaaatc
6001 ccagcccccc tgggaacccc agattttgtg ggaaggatcc aaggcatgct cacccaaacc
6061 acaagaagag atggctcgac ccgcggccac aaagccacag tgctcactgg gagtgccgac
6121 tttgccccaa aattgggcag agtccaattc gccactgaca cagacaacga tttcgaatct
6181 ggcgaaaaca cgaaattcac cccagtcggc gtcatccagg atggttccac cacccaccgg
6241 aatgaacccc aacaatgggt gctcccaaat tactcaggta gaactggtca taatgtgcac
6301 ctagcccctg ccgttgcccc cacttacccg ggtgagcaac tccttttctt caggtccact
6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg
6421 gtgcggcact tctaccaaga ggcagctccg gcacaatctg atgtggctct attgagattt
6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggctatgtc
6541 acagtggctc acaccggcca gcatgatttg gtcatccccc ccaatggcta tttcaggttt
6601 gattcctggg ttaatcaatt ctacacactt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc cctaatcggt gctggggctg gggctatcaa ccaaaagatt gattttgaaa
6781 ataacagaaa attgcagcaa gcttccttcc agtttagcag taatctacaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc cactaaaaag ttgcaacagg
6901 aaatgatgaa agtcaaacag gcaatgctct tagagggtgg attctctgaa acagatgcag
6961 cccgtggggc aattaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggcccctga tgctaggact acaacatata atgcaggccg cttttccacc cctcaacctt
7081 cgggggcact gccaggaaga attaacccta ggactcctac ccccgctcgg agctcctcca
7141 gcacatcttc taatgcttct attgctactt ctatatattc aaatcaaact gtttcaacga
7201 gacttggttc tacagctggt tctggcacca atgtctcgag tctcccgtct actgcaagga
7261 ctaggagttg ggttgaggat caaaacagaa acttgtcacc tttcatgagg ggggctcaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga agttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgacta
7501 tctttctttt ctttttcttt
//