Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305640 | GII.2 | |
|
|---|---|---|---|
| GII.P2 |
ORF1: 1..5069
ORF2: 5050..6678
ORF3: 6678..7457
LOCUS MW305640 7502 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg14811 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305640
VERSION MW305640.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7502)
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JOURNAL Unpublished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 7502)
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..7502
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg14811"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2016"
/note="genotype: GII.2[GII.P2]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59256.1"
/translation="AAVNSNNDNTKSSSDGMLNNMAVTLKRALGARPKQPAPREKSPR
PPRPPTPELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQPPEANTAFSVPPL
SQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISIAKVELTPLSL
YWRPVYTPQYLIPPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSRRMISRTT
GFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPLNILNILA
SCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEANELAMV
RAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKIASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKDAYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEY
ELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDELKKAIKNIT
IRKCQIVYGGNTYTLESDGKGRVVVERVQNASVQINNEIAGAVHHLRCARIRYYVKCV
QEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATTKEGCPKPRDEEEFVV
SSEDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILIKRTT
GELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHWNGESFTGKLAD
QASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMVRCARSFG
GLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
MEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHEDPFESMIP
HSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSLVNEDGVE"
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..6678
/gene="ORF2"
CDS 5050..6678
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59257.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKQNSPGQNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWETDDLKVNQPVKFS
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6678..7457
/gene="ORF3"
CDS 6678..7457
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59258.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKRLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ccgctgctgt taatagcaac aacgacaaca caaaatcttc aagtgacgga atgcttaaca
61 acatggccgt cacccttaaa cgagcccttg gggcccggcc caaacagccg gccccgaggg
121 aaaaatcccc aagaccccct agaccaccaa caccagaact aattaaaaga atcccccccc
181 caccacctaa tgatggggat gaaccaaccg tgatgtttag cactgcaggt ggtgtgtctg
241 gcctacctga gctcacaaca gtcggtcaac cacctgaagc taacacggcc tttagcgtgc
301 ctcccctcag ccaaagggaa aacagggacg ctaaggagcc gttaactgga actattctgg
361 aaatgtggga cggggagatt tatcactatg gactgtatgt ggaaaaaggg cttgtgttag
421 gcgtgcacaa gccaccggct gccatcagca tagccaaagt ggaattaacg cctctctcac
481 tgtattggag gcctgtgtac acgcctcagt acctcatacc tccagacacc ttgaggaaac
541 tccatggtga actattcccc tatacagcct ttgaaaacaa ctgttatgcc ttctgctgtt
601 gggttttgga ccttaacgat tcatggctaa gcaggaggat gattagtagg actactggct
661 ttttcaggcc ctaccaagag tggaacagga agcccctccc aaccatggat gactcaaaat
721 tgaaaaaggt cgcaaacatc gttctatgtg cgttgtcatc attgttcact agacccatta
781 aggatataat tggcaagctt aagcccctca acatcctgaa cattctggcc tcgtgcgact
841 ggaccttcgc tggcatagtt gagtcactaa tcctcttggc tgaactcttt gatgtgttct
901 ggacaccccc agatgtgtct gcgatgatcg cacccctcct cggtgactat gagctacaag
961 gccctgaaga catcgctgtg gagctcgtac ccgttgtgat gggtgggata ggtctggtgc
1021 tgggattcac caaagagaaa ataggtaaga tgctctcctc tgcagcatca actttgaggg
1081 catgcaaaga tcttggagcc tatggactgg agatactgaa actagtcatg aaatggttct
1141 tcccaaagaa ggatgaggcc aacgaactgg ctatggttag agccattgaa gacgctgtat
1201 tggacctgga ggccattgag aacaaccata tgaccactct attgaaagac aagaacagcc
1261 ttgcagccta catgaagacc ctggacatgg aagaggaaaa agctaggaag ttatccacca
1321 aatcagcctc ccctgacatt gtgggcacca taaatgccct gttggctagg atcgctgccg
1381 cgcgctcctt agttcatagg gccaaggagg agctctccag caggccaagg ccggtcgtct
1441 tgatgatctc tggcaagcca gggataggaa agacccactt ggccagagaa ctggcaaaga
1501 aaatcgcctc aacactcaca ggagaccaga gagtgggcct catcccacgg aatggagtcg
1561 accattggga tgcctataaa ggtgagagag tggtgctctg ggatgattac gggatgagca
1621 accccatcca cgatgcgctg aggttgcaag aactggcaga cacatgtcca ttgactctaa
1681 attgtgacag gattgaaaac aaggggaaag tcttcgacag cgatgcgatc ataattacca
1741 ccaatttggt caatcctgcg ccgctggatt atgtcaactt tgaggcctgc tccagacgta
1801 tagacttcct tgtgtatgct gatgccccag aagtcgagaa agcgaagcgg gacttccccg
1861 gccaaccaga catgtggaag gacgcctatc gccctgactt ctcacacatc aaactacaac
1921 ttgcaccaca aggtgggttt gacaaaaatg gtaacacccc tcatggtaaa ggagtgatga
1981 agactctcac tgccagctca ctggttgcgc gtgcctctgg tctcctgcac gagaggctag
2041 atgagtacga attgcaaggt ccacccctct caaccttcaa ctttgaccgc aacaaaattg
2101 cagcgttcag acaactcgct gctgaaaaca agtacggtct ggtagacacg atgagggtgg
2161 gtaaccagct cagaaatgtc acgaccatgg atgaactcaa gaaagctatc aagaacatca
2221 caatcagaaa gtgccagata gtctatggtg gcaacactta cacgcttgag tctgacggca
2281 agggtagagt tgtggttgag agggtgcaga acgccagcgt gcaaatcaac aatgagatcg
2341 ctggtgcagt gcaccacctt agatgtgcca gaatacggta ttatgttaag tgtgtccaag
2401 aggccatcta ctcactcctc caaattgctg gcacggtgtt tgtcacttca cgcatcgtga
2461 gccgcatgaa catccaaaat ttatggtcca ggccattaac tgaagatgca gatgaggcca
2521 ccacgaaaga ggggtgccct aaacctaggg atgaagaaga atttgtcgtc tcttcagaag
2581 acatcaagcc agagggcaag aaaggtaaaa acaagagtgg ccggggtaag aaacacacgg
2641 cattctcaag caaaggtctc agtgatgagg agtacgaaga gtacaaaagg attagagagg
2701 agagaaatgg caaatactcc atagaggaat acctacagga cagagacaag tactatgaag
2761 aggtggccat tgccagggca actgaagaag acttctgtga agaagaagag gttaagattc
2821 gtcagaggat cttcaggcca actagaaagc aacgcaagga agaaagagcc aaccttggcc
2881 tcgtcaccgg atctgagatc aggaagagga acccagatga ctttaaacca aaaggaaagc
2941 tgtgggccga cgatgatagg agcgtcgact acaacgaaag aatcagcttt gaggccccac
3001 caagcatttg gtctagaatt gtcaactttg gttctggatg ggggttttgg gtgtcaccta
3061 gcctcttcat aacatcaaca catgtcatac cccaaggcat aactgaagcc tttggtgtac
3121 ccataaggca agtgcaaata cacaaatcgg gcgaattctg tcgcctgaga ttcccaaaac
3181 ccatcaggac agatgtgtca ggtatgatac tggaggaggg agcgcctgaa ggcactgttg
3241 ccaccatact catcaagaga accactggag aactgatgcc ccttgcagca agaatgggca
3301 cccacgcgac catgaggata caaggacgca cggtgggcgg ccaaatggga atgctgctca
3361 ctggatccaa tgcaaagagc atggatcttg gcaccacacc tggtgactgt gggtgtccct
3421 atatttacaa aaggggcaat gattacatag tcattggagt tcacacagca gctgcccgtg
3481 gcggaaacac tgtcatctgc gccacacaag gtagtgaggg tgaggccaca ctcgagggtg
3541 gtgacaacaa agggacatac tgtggggcac caatcctagg acccgggagt gccccgaaac
3601 tgagcactaa gaccaaattc tggaggtcct ccacaacacc actcccaccc ggcacatacg
3661 agccggcata tctgggagga aaagaccccc gagtcaaagg tgggccatct ctgcaacaag
3721 tcatgcgaga ccaactgaag ccattcaccg aaccccgtgg caagccacca aaaccaagtg
3781 tccttgaagc tgccaaaaag acaattatca atgtgctaga gcaaacaata gaccccccac
3841 agaaatggac gtacgcgcaa gcgtgcgcgt ctcttgacaa aaccacatct agtgggtttc
3901 cccaccacgt gcgcaaaaac gagcactgga atggggaatc tttcacagga aaattggctg
3961 atcaggcatc aaaagcaaac ctaatgtttg aagaggggaa gcacatgacc ccagtttaca
4021 cagctgccct taaggatgag ttggtcaaaa ctgagaaggt gtatgggaag ataaagaaga
4081 ggttgctttg gggttctgat ctggccacaa tggtgcggtg tgcgcgctct tttggtggtt
4141 tgatggacga acttaaggcc cactgtgtga cacttccgat aagggttggc atgaatatga
4201 atgaagatgg accaatagtc tttgagaaac actccagata caggtatcac tatgatgcag
4261 actattccag gtgggattca acacagcaga gagccgtcct agctgcggcc atggagatca
4321 tggttaaatt ctcagcagaa ccacaactag cccaaatagt tgcagaggat ctactgtcgc
4381 ctagtgtagt tgatgtgggc gacttcaaaa tttccatcaa cgaagggtta ccatcaggtg
4441 tcccttgcac ctctcaatgg aactccattg cacactggct cctcaccttg tgtgcccttt
4501 ctgaagtcac agatctctct cccgatattg tgcaagccaa ctccctcttc tccttctatg
4561 gcgatgatga aattgtgagt acagacatta aattagaccc agaaaagttg acggggaagt
4621 tgagagaata cggcctcaaa cccacccggc ctgacaagac tgagggcccc ctgatcatta
4681 gcgaggatct gaatggcctg accttcttga ggagaaccgt cacccgcgac cctgcaggat
4741 ggtttggcaa actggaccag agctctatac tcaggcaatt gtattggacc aagggtccta
4801 atcatgaaga cccctttgaa tcaatgattc cacactccca gaggcccata caactcatgt
4861 cactcttggg cgaagcagca ctgcatgaac catcgtttta cagcaagatc agcaagcttg
4921 tgatatctga gttgaaagaa ggtggaatgg atttttacgt gcccaggcaa gaacccatgt
4981 tcaggtggat gagattctcg gatttgagca cgtgggaggg cgatcgcaat cttgctccca
5041 gtcttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc
5101 ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg tgccgccttg
5161 gcagccccag tcaccggtca aacaaatatt atagaccctt ggattagagc aaattttgtc
5221 caggccccca atggtgaatt cacagtttct ccccgtaatg cccctggtga agtgctattg
5281 aatctagagt tgggtccaga attaaatcct tatctggcac acttagcaag aatgtataac
5341 gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt cacagccggc
5401 aaattggtct tcgccgctgt cccacctcac ttcccggttg aaaaccttag cccacagcaa
5461 attaccatgt tccctcatgt gattatagat gtaaggaccc tagaacctgt tttattacca
5521 cttcctgatg ttaggaacaa tttcttccat tataaccaga aagatgatcc taaaatgaga
5581 attgtggcta tgctttacac cccccttagg tctaatggtt caggtgatga tgtgttcaca
5641 gtctcctgca gggtgttgac tagaccctcc cctgattttg atttcacata cctggtgcca
5701 ccaacagtgg aatctaaaac aaaaccattc actctcccaa ttctcacact cggggaactt
5761 tccaattcta ggttcccagt gtccatagac cagatgtaca ctagccccaa tgaggttata
5821 tcagtgcagt gtcaaaatgg taggtgcaca ttggacgggg agcttcaggg gacaacacaa
5881 ctccaagtca gtggtatttg tgctttcaag ggagaagtga ccgcccattt gcatgacaat
5941 gaccatctat ataatgtcac catcacaaac ctgaatgggt ccccctttga tccctccgag
6001 gacatccctg cccctctggg cgtgcctgat ttccagggaa gggtctttgg tatcatctcc
6061 caaagagata aacagaatag ccctgggcaa aatgaaccag caaacagagg acacgacgct
6121 gtggtcccta cctacacagc acagtacacc ccaaaattgg gtcagattca aattggcaca
6181 tgggagaccg acgacctcaa agtcaatcaa ccagtcaaat tttccccagt tggtctcaat
6241 gacactgaac attttaacca atgggtggtc cccagatacg ctggtgccct aaacctcaac
6301 acaaacctcg ccccttctgt tgctccagtg tttccaggag agcgcctgct tttctttaga
6361 tcatatattc ccctcaaggg tggttatgga aatccagcca ttgattgcct attaccacaa
6421 gagtgggtgc aacacttcta tcaggaagct gccccatcaa tgagtgaggt ggcccttgtc
6481 agatacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca cagagctggt
6541 ttcatgacag tctcgagcaa caccagtgcc ccggtggttg tgcctgccaa tggatacttc
6601 agatttgact cttgggtgaa tcaattctat tctctcgccc ccatgggaac tggaaatggg
6661 cgtagaaggg ttcaataatg gctggagcct ttgtagctgg tcttgcaggg gacgtgctca
6721 gcaatgggct cagttcatta attaatgcag gtgctaatgc aataaatcag agggcagaat
6781 ttgattttaa tcagaaatta cagcaaaatt cttttaatca tgataaggag atgttgcagg
6841 ctcagattca agcaactaag cggctgcagg cagacatgat ggctattaaa cagggggttc
6901 tgactgctgg cggcttttcc cctgctgatg cagccagagg tgccgtgaat gcgcccatga
6961 cacaggcgct ggattggaac ggtacaaggt actgggcacc aggctctatg aggaccacat
7021 cttattctgg gaaattcaca tcaaccgccc cagtgaggca ggccgatttt cagcacaccc
7081 aaaaccgtcc atcgagtggc tcttctgtgt cctcctttgc cactcaatct tcaaggccaa
7141 ctctgaccac aaccactggg tcctcacatg gcacagcctc atcaaattca actcgcagca
7201 cgagcctctc ccaatcaacg gtctctagag ctacatctag gactagtgag tgggttagag
7261 atcaaaatag aaatttggaa ccctacatgc atggtgcctt acagacagcc tttgtcaccc
7321 caccctccag cagggcgtct gatgggacag tctcaaccgt cccaaagggt gttttggact
7381 cctggacacc tgcgttcaac acccgcaggc agccgctctt tgcacacctc cgtaagaggg
7441 gggagtcaca agcttagtga aaaggtggaa aatttgttta gaataaattg attttacctt
7501 tt
//