Typing tool
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Typing tool
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Complete norovirus genomes
| MW305600 | GII.2 | |
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| GII.P21 |
ORF1: 1..5069
ORF2: 5050..6678
ORF3: 6678..7445
LOCUS MW305600 7482 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg4220 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305600
VERSION MW305600.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7482)
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JOURNAL Unpublished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 7482)
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..7482
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg4220"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2004"
/note="genotype: GII.2[GII.P21]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59136.1"
/translation="TVANSNNDNAKSSSDGVLSNMAVTFKRALGARPKQPPPRDKPPR
PPRPPTPELVKRIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPEESSTAFSVPPL
SLRENRDAKEPLTGAILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
YWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLNLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKVKKVANVLLCALSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDETNELAMV
RSIEDAVLDLEAIENNHMTALLKDKDSLAAYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIASSLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEY
ELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNIS
VKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLRCARIRYYVKCV
QEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQVEDLEETSSEEGCPKPKNDEEFVI
SSDDIKAEGKKGKNKAGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNECWNGETFTGKLAD
QASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSSEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKPTRPDK
TEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDL
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..6678
/gene="ORF2"
CDS 5050..6678
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59137.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRTNFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGEMSNSRFPVPIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGQVTAHLQDNGHLYNVTITNLNGSPFDPSEDIPAPLGVPDFEGRVFG
VISQRDNYNFGGQNQPANRSHDAVVPTYTAQYTPKLGQIQIGTWQTDDITVDQPAKFT
PVGLSDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGFGNPA
IDCLVPQEWIQHFYQEAAPSLSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6678..7445
/gene="ORF3"
CDS 6678..7445
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59138.1"
/translation="MAGAFIAGLAGDVLSNGLGSLINAGANVINQRAEFDFNRQLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPSSMRTTSYSGRFTSTTPIRQADFQHTQTRPSSGSSVASYSTQSSRPTSITTA
GSSTTSNSTRSTNLPSTVSRATSRTSEWVRDQNRNLEPYMRGALQTAFVTPPSSRASD
GTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ccactgttgc taacagcaac aacgacaacg caaaatcttc aagtgacgga gtattatcta
61 atatggctgt cactttcaaa cgagccctcg gggcgcggcc taaacaaccg cccccgaggg
121 acaaaccacc aagaccccca agaccaccca caccagagtt ggttaagaga atcccccctc
181 ccccacccaa cggggaggac gagccaacca tttcttacaa tgtcaaagag ggtgtttctg
241 gtttgcccga actctcgacg gtcacccaac cggaagagag ctctacggca ttcagcgtcc
301 cccctcttag tctgagggag aacagagatg caaaggaacc cttgactgga gccatcttgg
361 aaatgtggga cggggagatc taccattatg gcttgtacgt ggaacgagga ttggtgctcg
421 gtgtacacaa accaccagca gccattagcc ttgctaaggt tgagttgacc cccttgtctt
481 tgtattggag accagtgtac actccacagt acctcatttc ccctgacact ctcagaaagc
541 tgcatgggga gacgttccct tacacagcct ttgacaacaa ctgttatgcc ttctgctgtt
601 gggttcttaa cttgaacgat tcatggctga gcaggaggat gatacagagg acaacgggct
661 tctttcgacc ctaccaggat tggaacagga aacctctccc cacgatggat gactccaaag
721 tgaagaaggt agccaatgtt ctcctctgtg ctctctcatc attgtttacc agaccaatta
781 aggatattat tggaaagttg aaacccctaa acatcctcaa catcctagcc acatgtgatt
841 ggactttcgc aggcatagta gagtccctga tactcttggc tgaactgttt ggagttttct
901 ggacaccccc agacgtgtct gcaatgatcg ctcccttact gggtgattat gagctacagg
961 ggcccgagga cctcgctgtg gaactcgtac ccgtagtgat gggagggata ggtttggtgc
1021 tgggattcac caaagagaag atcggcaaaa tgctttcatc tgctgcttca accctgagag
1081 catgtaaaga tctcggtgca tatgggctgg agatcctcaa gttggtcatg aaatggtttt
1141 tcccaaagaa agacgagaca aacgaactgg cgatggtgag atccatcgag gatgcagtgc
1201 tggacctcga ggccattgag aacaaccata tgacagcact gctcaaggat aaggatagcc
1261 ttgcagccta catgaggact cttgacttgg aggaggagaa ggcgaggaag ttgtccacca
1321 agtctgcctc accggacatc gtgggcacga tcaacgccct actttcaagg attgcagccg
1381 cccggtctct agtacacagg gccaaggagg aactgtcaag taggccccga ccggtcgttg
1441 tgatgatttc aggaagacca ggtataggga aaacccatct agctagagag ttggcaaaga
1501 agatcgcctc ctcactcaca ggtgaccaga gggtgggcct catcccacgc aatggagtcg
1561 accactggga tgcatacaaa ggtgaaagag tcgttctctg ggacgactat gggatgagca
1621 accctatcca cgatgccctc agactccagg aactcgctga cacctgcccc ctgacactta
1681 actgtgacag gattgagaac aaaggcaaag tctttgacag tgacgctata ataataacca
1741 ccaatttagc caacccagcg ccactggatt atgtcaactt tgaagcttgc tcaaggcgta
1801 tagacttcct cgtctatgct gatgcccctg aagttgagaa ggccaaacga gacttcccag
1861 gccagccaga tatgtggaaa gacaccttca aacctgattt ctcacacata aaactgacac
1921 tagccccaca agggggtttt gacaagaatg gcaacacccc tcatgggaag ggtgtcatga
1981 agaccctcac tgctagttcc ctcgttgccc gagcatcagg gctccttcac gagagactag
2041 acgagtatga gctgcaaggc ccaactccca caacattcaa cttcgaccgt aacaaggtgc
2101 ttgcttttag gcaacttgct gctgagaaca agtacggtct tgttgacaca atgagggtcg
2161 gatcgcagct caagaatgtc aaaaccatga cagaactcaa acaggctctc aagaacatct
2221 cagtcaagaa atgccagctt gtgtatggcg ggagcacgta cacacttgaa tctgatggca
2281 aaggcaatgt gcatgtcgag aaggtaaaca acaccagtgt gcaaactaac aacgagctct
2341 ccggggcttt gcaccatctc aggtgtgcca ggattaggta ttatgtcaag tgtgtccagg
2401 aagctctcta ctccattttg caaattgccg gggctgcgtt cattaccacg cgcattgcaa
2461 agcgcatgaa tatacaaaac ctctggtcca aaccacaggt ggaggatttg gaggagacta
2521 gcagcgagga gggttgccca aaacctaaaa atgatgagga atttgttatt tcctccgatg
2581 acatcaaagc cgagggcaag aaaggaaaga ataaagctgg ccgtggcaag aagcacacag
2641 ccttttccag taaaggtctc agtgacgagg agtacgaaga gtacaagaga atcagagaag
2701 agagaaatgg aaagtactcc atagaggaat acctacagga cagagacaag tactatgagg
2761 aggtggccat agccagggca actgaggaag atttctgtga agaagaggag gccaaaatcc
2821 ggcaaaggat attcagacca acaagaaaac aacgcaaaga ggaaagggcc tctcttggtt
2881 tggtcacagg ttctgagatc aggaagagaa acccagatga cttcaagccc aaagggaaac
2941 tatgggctga tgatgacagg agtgttgact acaatgagaa acttagtttc gaggctccac
3001 caagcatttg gtcacgaata gtcaactttg gttcagggtg gggcttttgg gtctcaccta
3061 gcctcttcat aacatcaacc catgtcattc cccagggcgc acaggagttc tttggagtgc
3121 ccatcaaaca gatacaaatt cataaatcag gtgagttctg tcggcttagg ttcccaaaac
3181 caatcaggac agatgtcacg ggcatgatct tagaggaagg tgctccagaa ggcactgttg
3241 ccacacttct catcaagaga ccaactgggg aactcatgcc cttggcagcc agaatgggca
3301 cccacgcgac catgaaaatc cagggtcgca ctgttggtgg gcagatgggt atgctactca
3361 cagggtctaa cgccaagagc atggatttgg gcacaactcc tggcgattgt ggttgtccct
3421 acatctacaa gaggggtaac gactacgtgg tcattggagt tcacaccgct gccgctcgtg
3481 gaggaaacac tgtcatctgt gcgacccaag gaagcgaggg tgaagccatg ctagagggtg
3541 gcgacaacaa gggaacctac tgtggagcac caatactagg ccctgggaat gcccccaaac
3601 tcagcactaa aaccaaattc tggaggtcat ccaccacccc cctgccaccc ggaacctatg
3661 aaccagctta tctgggtggc aaggacccta gagtgaaagg tggtccctca ctgcaacagg
3721 ttatgaggga tcaactaaaa ccattcactg agcccagagg caaaccaccc aaaccaagtg
3781 tgttagaagc tgccaagaag actataatca atgtgcttga acagacaata gacccacctc
3841 aaaaatggac atacgcacag gcgtgtgcat cactagataa gaccacttcc agcggccacc
3901 ctcaccacat gcggaagaac gagtgctgga acggggagac tttcacaggg aaactggcag
3961 accaagcatc aaaggccaac ctaatgtatg aggaaggaaa gaacatgacc ccagtgtaca
4021 caggagcttt gaaggacgag ctagtcaaga ctgataagat ctatgggaag atcaaaaaga
4081 gactcctatg ggggtcagac ctatcaacca tgatacggtg tgcacgagcc ttcggtggac
4141 tgatggacga gctcaaggcc cattgcgtca cactaccagt cagggttggc atgaatatga
4201 atgaggatgg acccataata tttgagaaac attccagata cagataccat tatgatgcag
4261 attactcccg ctgggactcg acacaacaaa gagcagtact ggctgcagct ctggaaataa
4321 tggtcaaatt ctcatcagaa cctcatctgg cccaagtggt tgcggaagac ctcttgtccc
4381 ccagtgtgat ggatgtgggt gatttcaaga tatcaatcaa tgaggggtta ccctctggcg
4441 taccttgcac ctcacaatgg aactccattg cccattggct cctcacacta tgtgcactgt
4501 ctgaagtcac agatctgtcc cctgacatca tccaggcaaa ctccctgttc tccttttatg
4561 gtgatgatga aatagtgagc acagatatca aattggaccc agaaaaattg acaacaaaat
4621 tgagggaata cgggctaaaa ccaacccgtc ctgataaaac agaaggaccc ttaattatct
4681 ctgaagattt ggatggcctg accttcttac ggagaacggt gacccgcgat ccggctgggt
4741 ggtttggcaa actggaccaa agttcaatac tcagacagat gtactggacc aggggaccaa
4801 accatgaaga cccctctgaa acaatgatac cacactccca aagacccata caactgatgt
4861 cactactggg tgaagctgca ttacatggcc catcattcta cagtaaaatc agcaaactgg
4921 tcatctcaga attgaaagag ggtgggatgg atttttacgt gcccaggcaa gaaccaatgt
4981 ttaggtggat gagattctca gatttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc
5101 ctcgtgccag aaagtaacaa tgaggtcatg gctcttgagc cagtggctgg cgctgccttg
5161 gcggctccag tcactggcca aacaaatatt atagaccctt ggattagaac aaattttgtc
5221 caggccccta atggtgaatt cactgtttct ccacgcaacg cccctggtga agtgctgtta
5281 aatctagagt tgggtccaga attaaatcct tatctggcac atttagcaag aatgtacaac
5341 gggtatgccg gcggaatgga ggtgcaggtc atgttagctg gaaatgcgtt tacagctgga
5401 aagttggtct tcgccgcagt cccacctcac tttcccgttg aaaatcttag cccacagcaa
5461 atcacaatgt ttccccatgt gattattgat gttagaactt tggaacctgt cctgttacca
5521 ctccctgatg ttagaaataa tttctttcat tataatcaaa aggatgatcc taagatgaga
5581 attgtggcta tgctctatac tcccctcaga tcaaatggtt ctggtgatga tgtattcaca
5641 gtttcttgta gagtgttaac taggccctcc cctgatttcg attttacgta tttggtgcca
5701 ccaacggtgg aatccaaaac aaagccattc acactcccaa tcctcacatt aggggagatg
5761 tccaattcaa gatttccagt gcctatagat caaatgtaca ctagccctaa tgaagttatt
5821 tctgtgcaat gtcagaatgg caggtgcaca ctggacgggg agctccaagg gacaacccag
5881 ctccaggtca gtggtatttg cgcattcaag ggacaagtga ccgcccacct acaggacaat
5941 ggacatcttt acaatgtcac catcacaaat ttgaatgggt ccccttttga cccctctgag
6001 gacatccccg ctcccctggg tgttcccgac tttgaaggga gggttttcgg tgtcatcagc
6061 caaagagata attacaattt tggtggacaa aaccagcctg caaataggtc tcatgatgct
6121 gtggtcccaa cttacacagc tcaatatact ccaaaattgg gtcaaattca aattggcacg
6181 tggcagactg atgacataac agtcgaccag cctgctaaat tcaccccagt tggccttagt
6241 gacacagacc actttaacca atgggtggtc cccaggtatg ctggtgcatt aaatttgaac
6301 acaaatcttg ccccttccgt tgcaccggtg ttcccaggag agcggttgct tttctttaga
6361 tcatacatcc cccttaaagg tggttttggt aacccagcca ttgattgcct ggtgccacag
6421 gagtggatac agcacttcta ccaagaagct gctccctcac tgagtgaggt cgcccttgtc
6481 aggtatatca atccggacac tggtcgggca ctgtttgagg ccaagctcca tagggctggc
6541 ttcatgacag tctcgagtaa caccagtgcc ccggtggttg tacctgccaa tgggtacttc
6601 agatttgatt cttgggtgaa ccaattttat tctcttgccc ccatgggaac tggcaatggg
6661 cgtagaagga ttcaataatg gctggtgctt ttattgctgg tttagcagga gacgtgctca
6721 gcaatgggct cggctcatta atcaatgcag gtgctaatgt aattaatcag agagcagaat
6781 ttgattttaa tcgacagtta caacaaaatt cttttaatca tgataaggag atgttgcagg
6841 ctcaaataca ggcaaccaag cagctgcagg ctgacatgat ggctataaag cagggggtgt
6901 tgactgctgg cggcttctcc cccgctgatg cagccagggg cgctgtaaat gcgcccatga
6961 cacaagcact agattggaat ggcacaaggt actgggcacc aagttccatg agaacaacat
7021 cctattccgg aagattcaca tcaaccactc caataagaca ggctgatttt caacacaccc
7081 aaacccggcc ttcaagtggt tcttccgtgg cctcctactc cacacagtcc tcaagaccaa
7141 cctcaataac aactgcgggg tcttcaacca cgtccaactc gacccgcagt acaaatctcc
7201 cctcgacagt ttctagggcc acctctagaa ctagtgagtg ggttagagac caaaatagga
7261 atttggaacc ctacatgcgt ggtgccttac aaacagcctt tgtcacacca ccttctagca
7321 gggcatctga tgggacggtc tcaaccgttc ccaagggtgt tttggactcc tggacacctg
7381 cgtttaacac ccgcaggcag ccgctctttg cacacctccg taagaggggg gagtcacaag
7441 cctagtgaaa aggaaaattt taaaatgatt tgatttgcct tt
//