Typing tool
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Typing tool
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Complete norovirus genomes
| MW305539 | GII.4 Osaka | |
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| GII.P4 US95 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305539 7520 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate PNV007073 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305539
VERSION MW305539.1
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JOURNAL Unpublished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="PNV007073"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="02-Jun-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="QPJ58953.1"
/translation="AVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQPPPREVPQR
PPRPPPPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEENNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGLVLGVHKPPAAISLAKVELSPLSL
FWRPVYTPQYLISPDTLRKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANVFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVYWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKQEENELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM
WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGRQLKEVKTMPDLKQALRNIS
IKKCQIVYSGCTYVLESDGKGNVKVDKVQSTSVQTNNELSGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTGEAINKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
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="QPJ58954.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLERLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICTFRGDVTHIAGSRNYAMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
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="QPJ58955.1"
/translation="MAGAFFAGLASDVLGSGLGSLIGAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINSRTPTPARGSSSTSS
NASIATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa agagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aagtaccaca aagaccccca cgaccacccc ccccagaact ggtcaaaaag atcccccccc
181 ccccgcccaa cggggaggat gaaatagtgg tttcctatag tgtcaaagat ggtgtttccg
241 gcttgcccga actttccacc gtcagacaac cggaagaaaa caatacagcc ttcagtgttc
301 ccccactcaa ccagagggaa aatagggatg ctaaggagcc actgactggg acaattttgg
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 ggagctcttt 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 tgaccacatt gctcaaggac aaagacagtc
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgagg atcgctgctg
1381 cacgttccct ggtgcatcga gcaaaggagg agctttccag cagaccaaga ccagttgtcc
1441 tgatgatatc aggcagacca ggaataggga agactcacct tgctagagaa gtggccaaga
1501 gaatcgcatc caccctcaca ggagaccagc gtgtgggcct catcccacgc aatggcgtcg
1561 accactggga tgcgtacaag ggggaaaggg tcgtcctatg ggacgactac 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 atgttgagaa ggcgaaacgt gacttcccag
1861 gacaaccaga catgtggaag aacgccttca gttctgactt ctcacacata aaactgacac
1921 tggccccaca aggtggcttc gacaagaacg gaaacacccc gcacggaaag ggcgtcatga
1981 agacactcac cactggctcc ctcattgccc gggcatcagg gctacttcat gagaggatgg
2041 atgagtttga attacagggc ccggctctca ccaccttcaa ctttgatcgc aacaaagtgc
2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt ggtggacaca atgagagtcg
2161 gaaggcagct caaggaggtt aaaaccatgc cagatcttaa acaggcactc aggaacatct
2221 caattaagaa 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 tcatctgacg
2581 atatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag
2641 ccttctcaag caaaggtctt agtgatgaag agtacgatga gtacaagagg attagagaag
2701 aaagaaatgg caagtactct atagaagagt acctccagga cagggacaaa tactatgagg
2761 aggtggccat tgctagggca actgaggaag acttctgtga agaagaggag gccaagattc
2821 ggcaaaggat tttcaggcca acaaggaaac aacgcaagga ggaaagggcc tctctcggtt
2881 tggtcacagg ctctgaaatc aggaaaagaa acccagatga tttcaagccc aaggggaagc
2941 tgtgggccga cgatgacaga agtgtggact acaatgaaaa actcagtttt gaggccccac
3001 cgagcatctg gtcgaggata gtcaactttg gctcgggttg gggcttttgg gtctctccca
3061 gtctgttcat aacatcaacc cacgtcatac cccagggtgc taaagagttc tttggagtcc
3121 ctatcaagca gatccagata cataagtcag gcgagttttg tcgcttgaga ttcccaaaac
3181 caatcagaac tgatgtgacg ggcatgatct tagaagaagg tgcgcccgaa ggcaccgtgg
3241 tcacactgct catcaagagg cctactggag aacttatgcc cttagcagct agaatgggga
3301 cccatgcaac catgagaatt caagggcgca ctgttggggg 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 acaaacaatt gacccacctg
3841 agaaatggtc attcgcgcaa gcttgtgcgt ccctcgataa gaccacttcc agtggccacc
3901 cgcaccacat gcggaaaaat gactgctgga acggggaatc cttcacaggt aagctggcag
3961 atcaggcttc caaggccaac ctgatgtttg aagaggggaa gaacatgacc ccagtctaca
4021 caggtgcgct caaggacgaa 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 tgggttgaaa ccaacccgcc ctgacaagac tgaaggaccc cttgtcattt
4681 ctgaagacct gaatggtctg accttcctgc ggagaactgt gacccgcgat ccagctggtt
4741 ggtttggaaa attggagcag agttcaatac tcagacaaat gtactggact aggggcccca
4801 accatgaaga cccatctgaa acaatgattc cacattccca aagacccata caattgatgt
4861 ccctgctggg agaggccgca ctccacggcc cagcattcta cagcaagatt agcaagttgg
4921 ttattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gctttgtgaa tgaagatggc gtcgaatgac gccaacccat 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 gttaatcccc
5521 ctacctgatg ttaggaacaa tttctatcac tacaaccaat caaatgaccc caccattaaa
5581 ttgatagcaa tgctgtatac accacttagg gccaataatg ctggagatga tgtcttcacg
5641 gtctcttgtc gagtgctcac gaggccatcc cctgattttg atttcatatt tctggtaccg
5701 ccaacagttg aatcaagaac caaaccattc 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 aattatgcaa tgaatttggc ctctcaaaat tggagcaact atgacccaac agaagaaatc
6001 ccagcccccc tgggaacccc agattttgtg ggaaagatcc aaggcatgct cacccaaacc
6061 acaagaagag atggctcgac ccgcggccac aaagccacag tgctcactgg gagtgccgac
6121 tttgccccaa aattgggcag agtccaattc gccactgaca cagacaacga tttcgagtct
6181 ggcgaaaaca cgaaattcac cccagtcggc gtcatccagg atggttccac cacccaccgg
6241 aatgaacccc aacaatgggt gctcccaaat tactcaggta gaactggtca taatgtgcac
6301 ctagcccctg ccgttgcccc cacttacccg ggagagcaac tccttttctt caggtccact
6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg
6421 gtgcggcact tctaccaaga ggcagccccg 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 taatctgcaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc cactaaaaag ctgcaacagg
6901 aaatgatgaa agtcaaacag gcaatgctct tagagggtgg attctctgaa acagatgcag
6961 cccgtggggc aattaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggcccctga tgctaggact acaacataca atgcaggccg cttttccacc cctcaacctt
7081 cgggggcact gccaggaaga attaactcta ggactcctac ccccgctcgg ggctcctcca
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 aattttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
7501 tctttctttt ctttttcttt
//