Typing tool
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Typing tool
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Complete norovirus genomes
| MW305712 | GII.21 | |
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| GII.P21 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7430
LOCUS MW305712 7459 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-S015-15 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305712
VERSION MW305712.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7459)
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JOURNAL Unpublished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 7459)
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..7459
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-S015-15"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="01-Jan-2015"
/note="genotype: GII.21[GII.P21]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59472.1"
/translation="AAANSNNDNAKSSSDGVLSNMAVTFKRALGARSKQPPPRDKPPK
PPRPPTPELVKQIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPEESSTAFSVPPL
SQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELSPLSL
YWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT
GFFRPYQDWNRKPLPTMDDSKVKKVANVLLCALSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEINELAMV
RSIEDAVLDLEAIENNHMTALLKDKDSLAAYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIASSLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM
WKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEY
ELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNIT
VKKCQLVYGGSTYTLESDGKGNVCVEKVKNTSVQTNNELSGVLHHLRCARIRYYVKCV
QEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQVEDLEETSNREGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLDFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
KGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVGGGPSLQQVMREQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPQRWTYAQACASLDKTTSSGHPHHMRKNECWNGEAFTGKLAD
QASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTVKLKEYGLKPTRPDK
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..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59473.1"
/translation="MKMASNDAAPSNDGAAGLVPEINTETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRNNFVQAPNGEFTVSPRNSPGEILMNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVDMLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNVFYHFNNQPAPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFTLPILTIGELTNSRFPAPIDQLYTSPNADVVVQPQNGRCTLDGELQGTT
QLLTTAICSYRGTTSNPTSDYWDDHLLHLVHPNGATYDPTEDVPAPFGTQDFRGILYG
VLTQNTQNPRDEVSNSRGIYISSTSDKFTPKLGTIGLHQVQGDTASNQQSKFTPVGIA
VNQNTPLKQWELPNYSGALTLNTNLAPAVGPNFPGEQILFFRSNVPSVQGDHPTQEID
CLIPQEWVSHFYQESAPSQSDVALVRYVNPDTGRTIFEAKLHRQGFITIAATGSNPVV
VPPNGYFRFDSWVNQFYALAPMGTGNGRRRAQ"
gene 6672..7430
/gene="ORF3"
CDS 6672..7430
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59474.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVTAGANAINQKVEYDLTKQLQNA
SFQHDKDMLQAQVNATKQLQSDMMAIKAGVLTAGGFSPADAARGAVNAPMTKVLDWSG
TRYWAPNSTKTTSQSGQFSSVNVHRPFIQSKTVQPSPPRAPSSSGSVRSLSTQSTMLS
NSSSSSLGTPSTQSTNLSSSRTANWVRSQRNLSPYMDGALQTAFITPPSSRASSTGTV
STVPRGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ccgctgctgc caacagcaac aacgacaacg caaaatcttc aagtgacggc gtattatcca
61 atatggctgt cacttttaaa cgagccctcg gggcgcggtc caaacaaccg cctccgaggg
121 acaaaccacc aaaacccccg agaccaccca caccagagtt ggttaaacaa atcccccctc
181 ccccacccaa cggggaggac gagccaacca tttcttacaa cgttaaagag ggtgtttctg
241 gtctgcctga actctcaacg gtcacccaac cggaagagag ctctacggca ttcagcgttc
301 cccctcttag tcagagggag aacagagatg cgaaggaacc cctgactgga accatcctgg
361 agatgtggga cggggagatc taccattatg gcttatatgt ggaacgagga ttagtgctcg
421 gtgtacacaa accaccagca gccatcagcc ttgctaaggt tgaactatcc cccttgtctt
481 tgtactggag acctgtgtac accccacagt acctcatttc ccctgacact ctcaaaaagt
541 tgcatgggga gacgttccct tacacagcct ttgacaacaa ctgttatgcc ttctgctgtt
601 gggttcttga cttgaacgat tcatggctga gcagaaggat ggtacagagg acaacgggct
661 tctttcggcc ttaccaggac tggaacagaa aacccctccc cacaatggac gactccaaag
721 tgaagaaggt ggccaatgtt ctcctctgtg ctctctcatc attgttcact agaccaatta
781 aggacattat tggaaagtta aaacccctaa atatcctcaa catcctagcc acatgtgatt
841 ggacttttgc aggcatagta gaatccctga tcctcttggc tgaactgttt ggagttttct
901 ggacaccccc agatgtgtct gcaatgatcg ctcccttact gggtgattat gagctacagg
961 ggcctgagga cctcgctgtg gaactcgtac ctgtagtaat gggagggata ggtttggtgc
1021 tgggattcac caaagagaaa attggcaaaa tgctttcatc tgctgcttca accctgaggg
1081 cgtgcaaaga tctcggagct tatggactgg agatactcaa attggtcatg aagtggtttt
1141 tcccaaagaa agacgagata aacgaattgg caatggtgag atccatcgag gacgcagtgc
1201 tggacctcga ggccatcgag aacaaccata tgacagctct actcaaggat aaggacagcc
1261 ttgcagccta catgaggact cttgacttgg aggaggagaa ggcgaggaag ttgtccacca
1321 agtctgcatc accggacatc gtgggcacga tcaatgccct actggcaagg attgcagctg
1381 cccggtctct agtacacagg gctaaggaag aactgtctag cagacctcga ccggtcgttg
1441 tgatgatttc agggagacca ggtataggga agacccatct agctagagag ttggcaaaga
1501 agattgcctc ctcactcaca ggtgaccaga gggtgggcct catcccacgc aacggggtcg
1561 accactggga tgcatacaaa ggtgaaagag tcgtcctctg ggacgactac ggaatgagca
1621 accctatcca cgacgccctc agactccagg agcttgctga cacctgcccc ctaacactta
1681 attgtgacag gattgaaaac aaaggtaaag tctttgacag tgacgccata ataataacta
1741 ccaatttggc caacccagcg ccactggatt atgtcaactt tgaagcttgc tcaagacgca
1801 tagacttcct cgtctatgct gatgcccctg aagttgagaa ggctaaacga gacttcccag
1861 gccagccaga catgtggaag gacaccttca aacctgactt ctcacacata aaactgacat
1921 tagccccaca aggaggtttt gacaagaacg gcaatacccc tcatgggaag ggtgttatga
1981 agaccctcac tgctagttcc ctcgttgccc gagcatcagg gctcctccac gagagactag
2041 acgagtatga gctgcaaggc ccaactccca caacattcaa cttcgaccgc aacaaggtgc
2101 ttgcttttag gcaactcgct gctgagaaca agtacggtct cgttgataca atgagggtcg
2161 gatcacaact caagaatgtc aaaaccatga cagaactcaa acaggctctc aagaacatca
2221 cagtcaagaa atgccagctt gtgtatggcg ggagcacata cacacttgaa tctgatggca
2281 aaggcaatgt gtgtgttgag aaggtgaaga acacaagtgt gcagactaac aacgagctct
2341 ccggcgttct gcaccatctc aggtgtgcca ggattaggta ctatgttaag tgtgtccagg
2401 aagctctcta ctccatcttg caaattgccg gggctgcatt catcaccacg cgcattgcaa
2461 agcgcatgaa catacaaaac ctatggtcca aaccacaagt ggaagatttg gaggagacta
2521 gcaacaggga gggctgtcca aaacctaaag atgatgagga atttgttatc tcctctgatg
2581 acatcaaaac cgagggcaag aaaggaaaga acaagactgg ccgtggcaag aagcacacag
2641 ccttttccag caaaggtctc agcgatgagg agtacgatga gtacaagaga atcagagaag
2701 agagaaatgg caagtactcc atagaggaat acctacagga cagagacaag tactatgagg
2761 aggtggccat agccagggca actgaggaag atttctgtga agaagaggag gccaaaatcc
2821 ggcaaaggat atttagacca acaagaaagc aacgcaaaga ggaaagggcc tctcttggtt
2881 tggtcacagg ttctgagatt aggaagagaa atccagatga cttcaaacct aaagggaagc
2941 tatgggctga tgatgacagg agtgttgact acaatgagaa acttgacttc gaggctccac
3001 caagcatttg gtcacgaata gttaactttg gttcagggtg gggcttctgg gtctcgccta
3061 gcctcttcat aacatcaacc cacgtcattc ccaaaggtgc acaggagttc tttggagtgc
3121 ctatcaagca aatacaaatt cataaatcag gagagttctg ccggctaaga tttccaaaac
3181 caatcaggac agatgtcacg ggcatgatct tagaggaagg tgctccagaa ggaactgttg
3241 ccacacttct catcaagaga ccaactgggg aactcatgcc cttggcagct agaatgggta
3301 cccacgcgac catgaaaatc cagggtcgca ctgttggtgg gcagatgggc atgctactca
3361 cggggtctaa cgccaagagt atggacttgg gcacaactcc tggtgactgt ggctgtccct
3421 acatctacaa gagggggaac gactacgtgg tcattggagt ccacaccgcc gctgcccgtg
3481 gaggaaacac tgtcatctgt gcaacccaag gaagtgaggg tgaagccatg ctagagggtg
3541 gcgacaataa gggaacctac tgtggagcac caatattagg ccctggaaat gcccctaaac
3601 tcagtaccaa aaccaaattc tggagatctt ctaccacccc cctgccaccc ggaacctatg
3661 aaccagctta tctgggtggc aaggacccca gagtgggggg tggtccctca ctgcaacagg
3721 ttatgaggga gcaactaaaa ccattcactg agcccagagg caaaccacca aaacctagtg
3781 tgctagaagc tgccaagaag actataatca atgtgcttga acagacaata gacccacctc
3841 aaagatggac atacgcacag gcgtgtgcat cactagataa gaccacttcc agcggccacc
3901 ctcaccacat gcggaagaac gagtgctgga acggagaggc tttcacagga aaattggcag
3961 accaagcatc aaaagctaat ttaatgtatg aggaaggaaa gaacatgacc ccagtataca
4021 caggagctct gaaggacgaa ctagtcaaga ctgataagat ctatgggaag atcaagaaga
4081 gactcctatg gggttcagac ctatcaacca tgatacggtg tgcacgagct ttcggtgggc
4141 tgatggacga gctcaaggcc cattgcgtca cactaccagt tagggttggc atgaacatga
4201 atgaggatgg acccataata tttgagaaac attccagata cagataccat tatgatgcag
4261 attactctcg ctgggactcg acacagcaaa gagcagtgct ggctgcagcc ctggaaataa
4321 tggtcaaatt ttcaccagaa cctcatctgg cccaagtagt tgcagaagac ctcttgtccc
4381 ccagtgtgat ggatgtgggt gatttcaaga tttcaatcaa cgaggggtta ccctctggtg
4441 tgccttgcac ctcacaatgg aactccattg cccactggct cctcacactg tgtgcactgt
4501 ctgaagttac agatctgtcc cctgacatca tccaggcaaa ctccctattc tccttttatg
4561 gtgatgatga aatagtgagc acagacatca aattggaccc agagaaactg acagtaaagt
4621 tgaaggaata cgggttaaaa ccaacccgtc ctgataaaac agaaggaccc ttaattatct
4681 ctgaagattt ggatggcctg accttcttac ggagaacggt gactcgcgat ccggctgggt
4741 ggtttggcaa actggaccaa agttcaatac tcaggcaaat gtactggacc aggggaccaa
4801 accatgagga cccctctgaa acaatgatac cacactccca gagacccata caactgatgt
4861 cactactagg tgaagctgca ctacatggcc catcattcta tagtaaaatc agcaagttgg
4921 tcatctcaga attgaaagag ggtgggatgg acttttacgt gcccagacaa gaaccaatgt
4981 ttagatggat gagattctca gatttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg tgctgcaggt
5101 ctcgtaccag agatcaacac tgagaccttg cccctcgagc ccgtggccgg agcggcaatt
5161 gctgcccctg ttacgggcca aaataatata attgatccct ggattagaaa caattttgtg
5221 caggccccta atggtgagtt tacagtctcc cctagaaatt cccctggtga aattttaatg
5281 aatttggagc tagggccaga tcttaatcca tatttggctc acctttcaag aatgtacaat
5341 ggttatgctg gaggagtgga agtgcaagtg ctcctagctg ggaatgcgtt cacggcagga
5401 aagatccttt ttgcagcagt ccccccaaat ttccccgttg atatgcttag tcctgctcaa
5461 atcacaatgc ttccccattt aattgtagat gtcagaactt tggagcccat tatgatccct
5521 ctgcctgatg ttaggaacgt tttctatcac tttaataacc agcctgcccc aagaatgaga
5581 ttggttgcta tgctctacac tcctttaaga tccaatgggt ccggtgatga tgtattcact
5641 gtctcctgca gggtgctaac cagacctact ccggactttg agtttacata tttagttccc
5701 ccctcggtag agtccaaaac caagcctttc accctaccca tcctaacaat tggagagttg
5761 acaaattcta gattcccagc cccgatcgat cagttgtaca cttcacctaa cgctgatgta
5821 gttgtccaac cccaaaatgg ccggtgcaca ctggacggtg agctacaagg cacaacacaa
5881 cttctgacaa cggcaatatg ttcatacagg ggcacaacat caaaccccac tagtgactac
5941 tgggatgatc acctcctgca cttggtccac cccaatgggg caacatatga cccgaccgag
6001 gacgtgccag ctccttttgg cacgcaggac tttcggggca ttctgtatgg ggtgttgact
6061 caaaacaccc aaaatcccag ggacgaagtc tccaactccc gtgggatcta catctcatcc
6121 actagtgaca agttcactcc aaaattgggt acaattggct tacaccaagt gcaaggcgac
6181 acagccagca accaacaatc aaaattcaca ccagtaggga tagcggtgaa tcaaaacact
6241 cctttaaaac agtgggaact cccaaactac tctggtgccc tcaccctcaa cacaaacctt
6301 gcaccagcgg ttgggcccaa cttccctggg gagcaaatcc ttttcttcag gtcaaacgtc
6361 ccaagtgttc aaggtgacca ccctactcaa gagattgatt gcctgatccc acaagaatgg
6421 gtttcccact tctatcaaga atcagctccc tctcagagtg atgtggcttt ggtcaggtat
6481 gtcaatcctg acacagggcg cacaatcttt gaggccaaac tgcataggca ggggtttatc
6541 accatagcgg ccactggaag caaccccgtg gtcgtgcccc ccaatgggta cttcagattt
6601 gattcctggg taaaccagtt ttatgcactc gcccccatgg gaactgggaa tgggcgcaga
6661 agagctcaat aatggctgga gcttttatag caggattggc aggtgacatg ctcaccaata
6721 ctgttggttc cctggtaaca gcgggggcta atgctataaa ccaaaaagtt gaatatgacc
6781 tcaccaaaca actgcaaaat gcctccttcc aacatgacaa ggacatgctt caagcccagg
6841 tcaacgcaac aaaacaattg cagagtgaca tgatggccat caaagcaggg gttttgaccg
6901 ctggcggctt ttcccctgct gatgcagcca gaggggcagt caatgctcca atgacaaaag
6961 tcttagactg gtcagggacg cgttactggg cacccaattc aaccaaaaca acaagccaat
7021 ctggtcagtt ctcctctgta aatgtgcata gaccctttat tcaatcaaaa actgtccaac
7081 catctcctcc gcgggcgccc tcatcttcgg gtagcgttcg cagcctttct actcaatcaa
7141 caatgctttc aaattctagc tcttcttcac ttgggactcc ttcaactcag tcaacaaatc
7201 tttcttcttc tcgaacggcg aactgggttc gaagtcagag gaacctgagc ccctacatgg
7261 acggggctct gcaaacagcc tttatcaccc caccatcaag cagagcttct tctacaggca
7321 ccgtctcaac agtgcctaga ggggttttgg actcctggac acctgcgttc aacacccgca
7381 ggcagccgct tttcgcacac ctcaggaaga ggggggagtc acaagcctag tgaaaagaat
7441 cattttaata aattctttt
//