Typing tool
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Typing tool
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Complete norovirus genomes
| MW305594 | GII.4 Sydney | |
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| GII.P12 |
ORF1: 1..5069
ORF2: 5050..6669
ORF3: 6669..7475
LOCUS MW305594 7521 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate 110-1 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305594
VERSION MW305594.1
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JOURNAL Unpublished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="110-1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="16-Nov-1987"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59118.1"
/translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREILQR
PPRPPTPELVKKIPPPPPNGEDELVVSYSVKDGVSGLPELSTVRQPDEVNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTVDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS
IKRCQIVYSGCTYTLESDGKGNVKVDRVQSATVQTNNELVGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETINKGGSPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
HGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWSFTQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFEISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLRPTRPDK
TEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
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="QPJ59119.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSHDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICNFRGDVTHIVGSHDYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGLL
TQTTRADGSTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQTGQNTKFTPVGVIQDG
DHHQNEPQQWVLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVI
PPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6669..7475
/gene="ORF3"
CDS 6669..7475
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59120.1"
/translation="MAGSFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRRLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQGLMKVKQAVLLEGGFSTTDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRVTVPTRGPPSTLS
NASAATSVYSNQTVLTRLGSSAGSGTGVSSLPSTARTRNWVEDQNRNLSPFMRGALNT
SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta
61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagcct cccccgaggg
121 aaatactaca aagaccccca cgaccaccta ccccagaact ggtcaaaaag atcccccctc
181 ccccgcccaa cggggaggat gaactagtgg tttcttatag tgtcaaagat ggcgtttccg
241 gtctgcctga gctttctact gtcaggcaac cggatgaagt caatacggcc ttcagtgttc
301 ccccactcaa tcagagggag aatagggatg ccaaggagcc actaactgga acaattctgg
361 aaatgtggga tggagagatc taccattacg gcctatacgt ggagcgaggt cttgtactcg
421 gtgtgcacaa accaccagct gccatcagcc tcgccaaggt cgaactaaca ccactctcct
481 tattctggag acctgtatac actccccagt atctcatctc cccagacact ctcaagagat
541 tgcacggaga atcgttcccc tatacagcct ttgacaacaa ttgctatgcc ttctgttgct
601 gggtcttaga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt
661 tctttagacc ctatcaagat tggaatagga aacccctccc tactgtggat gactccaaat
721 taaagaaggt agctaacata ttcctgtgta ctctatcttc actattcacc aggcccatca
781 aagacataat agggaagcta agacctctta acatcctcaa catcttggcc tcatgtgatt
841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttgct aggtgattac gagttacaag
961 ggcctgagga ccttgcagtg gaactcgttc ctatagtgat ggggggaatt ggtttggtgc
1021 taggatttac caaagagaag attgggaaga tgttgtcatc tgctgcatcc accttaagag
1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgagctgg ctatggtgag atccatcgag gatgcggtgc
1201 tggacctcga agcaattgaa aacaaccata tgaccaccct gctcaaagac aaagacagtc
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca
1321 agtctgcttc acctgatatc gtgggtacaa tcaacgccct tctggcgaga atcgctgctg
1381 cacgttccct ggtgcatcga gcgaaagagg agctttccag cagaccaaga cctgttgtcg
1441 tgatgatatc aggcagacca gggataggga agacccacct tgccagggaa ctggccaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggtct catcccacgc aatggcgtcg
1561 accactggga cgcatacaag ggagagaggg tcgtcctatg ggacgactat ggaatgagta
1621 atcccatcca tgatgccctc aggttgcaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaac aaaggaaagg tctttgacag cgatgccata attatcacca
1741 caaatctggc caacccagca ccattggact atgtcaactt tgaggcatgc tcgaggcgca
1801 tcgatttcct cgtgtatgca gatgcccctg aagtcgagaa ggcgaaacgt gattttccag
1861 gccaacctga catgtggaag aacgctttca gtcctgactt ctcgcacata aaactaacgc
1921 tggctccaca gggtggcttc gacaagaatg gaaacacccc acatgggaag ggcgtcatga
1981 agaccctcac tactggctcc ctcattgccc gggcatcagg gctactccat gagaggttag
2041 atgagtatga gctgcagggc ccaactctca ccactttcaa ctttgatcgc aacaaggtgc
2101 ttgcttttag gcagcttgct gctgaaaaca aatacgggct gatggacaca atgaaagttg
2161 gaagacagct caaggatgtc agaaccatgc cagagcttaa acaagcactc aagaatattt
2221 caatcaagag gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca
2281 agggcaatgt gaaagttgac agggttcaga gcgccaccgt gcagaccaat aacgagcttg
2341 tcggcgccct acaccatcta aggtgcgcca gaattaggta ctatgtcaag tgtgtccagg
2401 aggccctgta ctccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca
2461 agcgcatgaa catacaagac ctctggtcca aaccacaagt ggaagacaca gaggagacta
2521 tcaacaaggg cgggtcccca aaacccaaag atgatgagga gttcgtcatc tcatctgacg
2581 acatcaaaac tgagggcaag aaagggaaga acaagaccgg ccgtggcaag aagcacacag
2641 ccttctcaag caaaggtctc agtgatgaag agtacgatga gtacaagagg atcagagaag
2701 aaagaaacgg taagtactcc atagaagagt accttcagga cagggacaag tactatgagg
2761 aggtggccat tgccagggcg accgaggagg acttctgtga agaggaggag gccaagattc
2821 ggcagaggat tttcaggcca acaaggaaac aacgcaagga ggagagggcc tctctcggtt
2881 tagtcacagg ctccgaaatc aggaagagga acccagatga tttcaagccc aaggggaaac
2941 tgtgggctga tgatgacagg agtgtagact acaatgagag actcaatttt gaggccccac
3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggcttttgg gtttctccca
3061 gtctgttcat aacatcaact catgtcatac cccatggcgc acaggagttc tttggagtcc
3121 ccatcaagca aattcagata cacaaatcgg gcgaattctg ccgcctaagg ttcccaaaac
3181 caatcaggac tgatgtgacg ggtatgatct tagaagaagg tgcgcccgaa ggtaccgtgg
3241 ccacactact catcaagagg cctactggag aacttatgcc cttagcagcc agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg ccaaatgggc atgcttctga
3361 caggatccaa cgccaaaagt atggatctag gcaccacacc aggtgactgc ggctgcccct
3421 acatctacaa gagggaaaat gactacgtgg ttattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg agaggctaca cttgaaggcg
3541 gtgacagtaa gggaacctac tgtggtgcac caatcctagg cccaggaagt gccccaaaac
3601 tcagcaccaa gactaaattt tggagatcat ctacaacacc tctcccacct ggcacctatg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgcaacaag
3721 ttatgaggga ccagctgaaa ccatttacag agcccagggg caaaccacca aagccaagtg
3781 tgttggaggc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctc
3841 agaagtggtc attcacgcaa gcttgcgctt ccctcgacaa gactacttcc agtggccacc
3901 cacatcacat acggaagaac gactgctgga acggggaatc cttcacaggc aagttggcag
3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtttaca
4021 caggtgcgct taaggatgag ttggtcaaaa ctgacaaaat ttatggtaag atcaagaaga
4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtta cacttcctgt cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaggc attccaggta taaatatcac tatgatgctg
4261 attattctcg gtgggattca acacaacaaa gagccgtgtt ggcagcagcc ctagaaatca
4321 tggttaaatt ctccccagaa ccacatctgg cccagatagt tgcagaagac cttctctctc
4381 ctagtgtgat ggatgtgggt gacttcgaaa tatcaatcaa tgagggtctc ccctctgggg
4441 taccctgcac ctcccaatgg aattccatcg cccactggct cctcactctc tgtgcactct
4501 ctgaagttac aaacttgtcc cctgatatca tacaggctaa ttccctcttc tccttttatg
4561 gcgatgatga aattgtcagt acagatataa agctggaccc agagaaattg acagcaaaac
4621 ttaaggaata cgggttgaga ccaacccgcc ctgacaaaac tgaagggccc cttgttatct
4681 ctgaagactt gaatggtctg accttcctgc ggagaactgt gacccgcgac ccagctggct
4741 ggtttggaaa attggaacag agctcaatac ttaggcaaat gtactggact aggggcccca
4801 accatgaaga cccatctgaa acaatgatac cacactccca aagacccata caattgatgt
4861 ccttactggg cgaggccgca ctccacggcc cagcgttcta cagcaaagtt agcaagctag
4921 tcattgcaga gctgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgctatt
5161 gcggcacctg tagcgggcca acaaaatata attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga gatactatgg
5281 agcgcgccct tgggccctga tttgaacccc tatctttctc atttgtccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaagta atcctcgcgg ggaacgcgtt caccgccggg
5401 aaagttatat ttgcagcagt tccaccaaac tttccaactg aaggcttaag ccccagccag
5461 gttactatgt tcccccatat aattgtggat gttaggcaat tggaacctgt gttgatcccc
5521 ctacctgatg tcaggaacaa tttctatcat tacaatcaat cacatgattc taccctcaag
5581 ttgatagcaa tgttgtacac accactcagg gctaacaatg ccggggatga tgtcttcaca
5641 gtctcttgtc gagttctcac gaggccatcc cccgattttg atttcatatt cctggtgcca
5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg
5761 tccaattcaa ggttccccat tcctttggaa aagttgtaca cgggtcctag cagtgctttt
5821 gttgtccaac cacaaaatgg cagatgtacg actgatggcg tgctcttagg cactacccag
5881 ctgtcagctg tcaacatctg taactttagg ggggatgtca cccatattgt gggcagccat
5941 gattatacaa tgaatctggc ctcccaaaat tggagcaatt atgacccaac agaagaaatc
6001 ccagcccccc tgggaacacc agattttgtg gggaagatcc aaggcctgct cacccagacc
6061 acaagagcgg atggctcgac ccgcgcccac aaagccacag tgagcactgg gagtgtccac
6121 ttcactccaa aactgggtag tgttcaattc accactgaca caaacaatga tttccaaact
6181 ggccaaaaca cgaaattcac cccagttggc gtcatccaag acggtgatca ccatcagaat
6241 gagccccaac aatgggtact accaaattac tcaggtagga ctggtcataa tgtgcacctg
6301 gcccctgccg ttgcccccac ttttccgggt gagcaactcc ttttctttag gtctactatg
6361 cccggatgta gcgggtatcc caacatgaat ttggattgcc tactccccca ggagtgggtg
6421 ctgcacttct accaggaagc agctccagca caatctgatg tggctttgct gagatttgtg
6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatatcaca
6541 gtggctcaca ccggcccgta tgatttggtt atccccccca atggttattt cagatttgat
6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggaacggg gcgcaggcgt
6661 gcattataat ggctggatct ttctttgctg ggttggcatc tgatgtcctc ggctctggac
6721 ttggttctct aatcaatgct ggagctgggg ccatcaacca aaaagttgaa tttgaaaata
6781 acagaagatt gcaacaagct tccttccagt ttagtagcaa tctacaacag gcttccttcc
6841 aacatgataa agagatgctc caagcacaaa ttgaggctac tcaaaaattg caacagggcc
6901 tgatgaaggt taaacaggca gtgctcctag agggtggatt ttccacaaca gatgcagccc
6961 gtggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg
7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccaccccc cagccttcgg
7081 gggcattgcc aggaagaact aatcctaggg ttaccgtccc cactcggggc ccccccagca
7141 cactttctaa tgcttctgct gctacctctg tgtattcaaa tcaaactgtt ttaacgagac
7201 taggttcttc agctggttct ggtaccggtg tctcgagtct cccgtcaact gcaaggacta
7261 ggaactgggt tgaggaccaa aacaggaatt tgtcaccttt catgaggggg gctctcaaca
7321 catcattcgt cacccctcca tctagtagat cctctaacca aggcacagtc tcaaccgtgc
7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg
7441 ctcacattcg caaacgaggg gagtcacggg tgtaatgtga aaagacaaaa ttgattatct
7501 ttcttttctt tagtgtcttt t
//