Typing tool
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Typing tool
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Complete norovirus genomes
| MW305652 | GII.4 Farmington Hills | |
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| GII.P4 US95 |
ORF1: 1..5069
ORF2: 5050..6669
ORF3: 6669..7475
LOCUS MW305652 7521 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate 288 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305652
VERSION MW305652.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="288"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Japan"
/collection_date="15-Nov-1995"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59292.1"
/translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEEANTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEETNELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEGTGEVINKDGCPRPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFTQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA
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..6669
/gene="ORF2"
CDS 5050..6669
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59293.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICTFRGDVTHIAGSHDYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
SQTTRGDGSTRAHKATVSTGSVHFTPKLGSVQYTTDTNNDFETGQNTKFTPVGVIQDG
NNHQNEPQQWALPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGPHDLVI
PPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6669..7475
/gene="ORF3"
CDS 6669..7475
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59294.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQGMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTSQPSGALPGRTNLRATVPARGSSSTPS
SISTATSVYSNQTVSTRLGSSAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGALNT
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aaataccaca aagaccccca cgaccaccta ccccagaact ggtcaaaaag atcccccctc
181 ccccgcccaa cggggaggat gaaatagtgg tttcttatag tgtcaaagat ggcgtttccg
241 gtctgcctga gctttccacc gtcaggcaac cggaagaagc caatacggcc ttcagtgttc
301 ccccactcaa ccagagggag aatagggatg ctaaggagcc actaactgga acaattctag
361 aaatgtggga tggagagatc taccattacg gcctatatgt ggagcgaggt cttatacttg
421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgagctaaca ccactctcct
481 tgttctggag gcctgtgtat actccccagt atctcatctc tccagacact ctcaagaaat
541 tacacggaga atcgtttccc tacacagcct ttgacaacaa ttgctatgcc ttctgttgct
601 gggtcttgga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt
661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt ggctaacata ttcctgtgtg ctctatcttc actattcacc aggcccataa
781 aagacataat agggaagcta aggcctctta acatcctcaa catcttggcc tcatgtgatt
841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgattac gagttacaag
961 gacctgagga ccttgcagtg gaactcgttc ctgtagtgat ggggggaatt ggtctggtgc
1021 taggatttac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttaagag
1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa gttagtcatg aagtggttct
1141 tcccaaagaa agaggaaaca aatgaactgg ctatggtgag atccatcgag gatgcagtgc
1201 tggacctcga ggcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagtc
1261 tggcaaccta catgaaaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgctgctg
1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgttgtct
1441 tgatgatatc aggcagacca ggaataggga agacccacct tgctagggaa gtggccaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gcgtaggcct cgtcccacgc aatggcgtcg
1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat gggatgagca
1621 atcccatcca cgacgccctc aggttgcaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaac aaaggaaagg tcttcgacag tgatgtcata attatcacca
1741 ctaacctggc caatccagca ccactggact atgtcaactt tgaagcatgc tcgaggcgca
1801 tcgatttcct cgtgtatgca gaagcccctg aagtcgaaaa ggcgaaacgt gacttcccag
1861 gccaacctga catgtggaag aacgccttca gttctgattt ctcacacata aaactaacac
1921 tggctccaca gggtggcttc gataagaacg ggaacacccc acacgggaag ggcgtcatga
1981 agactctcac cactggctcc cttattgccc gggcatcagg gctactccat gagaggctag
2041 atgaatttga actacagggc ccagctctca ccaccttcaa ctttgatcgc aacaaagtgc
2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt gatggacaca atgaaagttg
2161 gaagacagct taaggatgtc agaaccatgc cagagcttaa acaagcactc aagaatatct
2221 caatcaagaa gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca
2281 agggcaatgt gaaagttgac agagttcaga gtgcctccgt gcagaccaac aacgagctgg
2341 ccggcgccct gcaccatcta aggtgcgcca gaatcaggta ctacgtcaag tgtgtccagg
2401 aggccctgta ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaaggcaca ggggaggtta
2521 tcaacaagga cgggtgccca agacccaaag atgatgagga gttcgtcatt tcatccgatg
2581 acatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtacgacga gtacaagagg atcagagaag
2701 aaagaaatgg caagtactcc atagaagagt accttcagga cagggacaaa tactatgagg
2761 aggtggccat tgccagggcg accgaggaag atttctgtga agaggaggag gccaagattc
2821 ggcaaaggat tttcagacca acaaggaaac aacgcaagga ggaaagggcc tctctcggtt
2881 tagtcacagg ttctgaaatc aggaaaagga acccagatga tttcaagccc aaggggaaac
2941 tgtgggctga tgatgacagg agtgtggact acaatgagaa actcagtttt gaggccccac
3001 caagcatctg gtcgaggata gtcaattttg gttcaggttg gggcttttgg gtctctccca
3061 gtctgttcat aacatcaact catgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ccatcaagca aattcagata cacaaatcag gcgaattctg ccgcttgagg ttcccaaagc
3181 caatcaggac tgatgtgacg ggcatgatcc tagaagaagg tgcgcccgaa ggcaccgtgg
3241 tcacactact catcaagagg cctactggag aacttatgcc cctagcagct agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggacctag gcaccacacc aggtgactgc ggctgcccct
3421 acatctacaa gagggaaaat gactatgtgg ttattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg ggaggctaca cttgaaggtg
3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccaggaagt gccccaaaac
3601 tcagcaccaa gaccaaattc tggagatcgt ccacaacacc actcccacct ggcacctatg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgcaacaag
3721 ttatgaggga tcagctgaaa ccatttacag agcctagggg caaaccacca aagccaagtg
3781 tgttggaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctg
3841 agaaatggtc attcacgcaa gcttgcgcgt ccctcgacaa gactacttcc agtggccatc
3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag
3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtctaca
4021 caggcgcgct caaggatgag ttagttaaaa ctgacaaaat ttatggtaag atcaagaaga
4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgagca ttcggaggct
4141 taatggatga actcaaagca cactgtgtta cacttcctat cagagttggt atgaatatga
4201 atgaagatgg ccccatcatc ttcgagaggc attccaggta caaatatcac tatgatgctg
4261 attactctcg gtgggattca acacaacaga gagccgtgtt ggcagcagcc ctagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaggac cttctttctc
4381 ctagcgtggt ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg
4441 tgccctgcac ctcccagtgg aactccatcg cccactggct tctcactctc tgtgcgctct
4501 ctgaagttac aaacttgtcc cctgacatca tacaggctaa ttccctcttc tccttttatg
4561 gtgatgatga aattgttagc acagatataa agttggaccc ggagaaattg acagcaaaac
4621 tcaaggaata cgggttgaaa ccaacccgcc ctgacaagac tgaagggccc cttgttattt
4681 ctgaagactt aaatggtcta accttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa attggagcag agctcaatac tcagacaaat gtactggact aggggcccca
4801 accatgaaga cccatctgaa acaatgattc cacattccca aagacccata caattgatgt
4861 ccctactggg agaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagttag
4921 ttattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cacagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatc
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaag taattttgta
5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccaggtga gatactatgg
5281 agcgcgccct tgggccctga tttgaatccc tacctttctc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta atcctcgcgg ggaacgcgtt caccgccggg
5401 aaaatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag
5461 gttactatgt tcccccatat aatagtagat gttaggcaat tggaacctgt gttgatcccc
5521 ttacctgatg ttaggaataa tttctatcat tataatcaat caaatgattc taccattaaa
5581 ttgatagcaa tgctgtatac accacttagg gctaacaatg ctggggatga tgtcttcaca
5641 gtctcttgtc gagtcctcac gaggccatcc cccgattttg atttcatatt cttggtgcca
5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg
5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcccag cagtgctttt
5821 gttgtccaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg cactacccag
5881 ctgtctgctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggcagccat
5941 gattatacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc
6001 ccagcccctc tgggaactcc agacttcgtg ggaaagatcc aaggcatgct ctcccaaacc
6061 acaagagggg atggctcgac ccgcgcccac aaagctacag tgagcactgg gagtgtccac
6121 ttcactccaa agctgggcag tgttcaatac accactgaca caaacaatga ttttgaaact
6181 ggccaaaaca cgaaattcac cccagtcggc gtcatccagg acggtaataa ccatcaaaat
6241 gaaccccagc aatgggcact cccaaattac tcaggtagaa ctggtcataa tgtgcaccta
6301 gcccctgccg ttgcccccac ttttccgggt gagcaacttc ttttctttag atccactatg
6361 cccggatgta gcgggtatcc caacatgaat ctggattgcc tactccccca ggaatgggtg
6421 cagcacttct accaagaagc agctccagca caatctgatg tggctttgct gagatttgtg
6481 aatccagaca caggtagggt cctgtttgag tgcaagctcc ataaatcggg ctatgtcaca
6541 gtggctcaca ctggcccgca tgatttggtt atccccccca atggttactt tagatttgat
6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg gcgtagacgt
6661 gcactataat ggctggagct ttctttgctg gattggcgtc tgatgtcctt ggctctggac
6721 ttggttccct aatcaatgct ggggctgggg ccatcaacca aaaagttgaa tttgaaaata
6781 atagaaaatt gcaacaagct tccttccaat ttagtagcaa tctacaacag gcttccttcc
6841 aacatgataa agagatgctc caagcgcaaa ttgaggccac tcaaaaattg caacagggta
6901 tgatgaaggt taaacaggca atgctcctag agggtggatt ctctgaaaca gatgcagccc
6961 gtggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca agatactggg
7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccacctct caaccttcgg
7081 gggcactgcc aggaagaact aatcttaggg ctactgtccc cgctcggggt tcctctagta
7141 caccttctag tatttccact gctacttctg tgtattcaaa tcaaactgtt tcaacgagac
7201 ttggttcttc agctggttct ggtaccagtg tctcgagtct cccgtcaact gcaaggacta
7261 ggagctgggt tgaggatcaa aacagaaatt tatcaccttt tatgaggggg gctctcaaca
7321 catcattcgt caccccacca tctagtagat cctctagcca aggcacagtc tcaaccgtgc
7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg
7441 ctcacatccg taagcgaggg gagtcacggg tgtaatgtga aaagacaaaa ttgattatct
7501 ttcccttctt tagtgtcttt t
//