Typing tool
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Typing tool
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Complete norovirus genomes
| MW305716 | GII.2 | |
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| GII.P16 |
ORF1: 1..5069
ORF2: 5050..6678
ORF3: 6678..7457
LOCUS MW305716 7498 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-S251-16 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305716
VERSION MW305716.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7498)
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JOURNAL Unpublished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 7498)
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..7498
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-S251-16"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="30-Dec-2016"
/note="genotype: GII.2[GII.P16]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59484.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDKPQK
PPRPPTPELVKRVPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP
PLSLRENREAKEPLTGAVLEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPL
SLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR
TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNI
LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELA
MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG
TINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI
ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQP
DMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD
EFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRN
VTIKRCQIIYGGSTYDLESDGKGKILVEKVKNTSVQTNNELAGALHHLKHARIRYYVK
CVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFII
SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD
DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP
AGMTEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT
GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN
DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT
KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE
AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLAD
QASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFG
GLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIP
HSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPNFVNEDGVE"
mat_peptide <1..965
/gene="ORF1"
/product="p48"
mat_peptide 966..2063
/gene="ORF1"
/product="NTPase"
mat_peptide 2064..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="QPJ59485.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQVQIGTWQTDDLTVNQPVKFT
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="QPJ59486.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTA
GSSHGTASSNSTRSTSLSQSTVSRATSRTGAWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaaag aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag
121 acaaaccaca aaagccccca agaccaccaa ctcccgagtt ggtcaagagg gtaccccctc
181 ctccacctaa cggcgaagaa gaagaagaac cagtcattag gtatgaggtt aagagtggga
241 tctctggcct gcccgagctt acaacagtcc cccaaccgga cgtggccaac acagcattca
301 gtgttccacc actgagcttg agagaaaaca gggaggccaa ggagccgcta acaggggcag
361 tattagagat gtgggatgga gagatatacc actatggcct gtacgtggag aaaggcttag
421 tgttgggtgt gcacaaacca cctgcagcca taagcatggc aagagtggag ctgacgccgt
481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaaccctca
541 ggaggctcaa cggagaggca ttcccttaca ccgcctttga caacaactgc tatgcctttt
601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggta caaagaacaa
661 caggcttctt cagaccttac caagagtgga acagaaaacc cctgcctacc atggatgact
721 ccaaaattaa gaaggtagca aatatatttc tatgttcatt gtccacatta ttcaccagac
781 ccataaaaga cctcatagga aaaattaaac cattgaacat attgaatatc ctggcaacgt
841 gtgactggac ttttgccgga atagtggagt ctctgatatt acttgctgaa ctcttcggag
901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgagt
961 tgcaagggcc agaagacctc gccgttgaac tcgtacctgt ggtaatgggg gggattggtt
1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac
1081 tcagggcttg caaagatctt ggtgcctatg gcttagagat actcaaattg gtcatgaagt
1141 ggttcttccc aaagaaagag gaggccaatg agctagctat ggtgagggcc atagaggatg
1201 ctgtactaga ccttgaggca atagaaaata accacatgac aaccctgttg aaagacaaag
1261 acagcttagc aacatacatg aaaacactgg acatggagga ggagaaagcc aggaggttgt
1321 ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg gctcgaatag
1381 cagcggccag gtcattagtc cacagggcca aggaagagct atctagcagg ataaggccag
1441 tagttgttat gatatctggc aaaccaggaa taggcaaaac tcatctggcc agggaggtgg
1501 caagaaaggt ggcatccact ctcacagggg atcaaagagt cggactcata ccacgaaacg
1561 gtgtggacca ttgggatgca tacaaaggtg agagagttgt gctgtgggac gactatggca
1621 tgagtaaccc tattcatgat gctcttcgca tacaagaatt ggctgatacg tgtcccctta
1681 ccttaaattg tgacagaatt gaaaataagg gaaaagtttt tgacagtgaa gtcataataa
1741 ttacaacaaa cctcgccaat ccagccccac ttgattatgt caactttgag gcctgttcca
1801 ggagaattga tttcctggtg tacgctgagg caccagaagt agaaaaggca aaacgggact
1861 ttcctggtca gccagatatg tggaaggacg ccttcaagcc ggacttttca cacatcaagc
1921 tacagcttgc accccagggc ggctttgaca agaatggcaa caccccacat gggaaaggag
1981 tgatgaagac cctcactacc ggttctctga ttgcccgtgc atcaggccta ctgcatgaga
2041 ggatggatga atttgaactc caaggtccca caatcaccac cttcaatttc gaccggaaca
2101 gaatcacggc attcagacaa ttggctgcag aaaacaagta tggattggtg gataccatga
2161 aagttggcaa tcaattaaaa ggagtgaaaa ccatggaaga actcaaacaa gcaatcagga
2221 atgtgaccat caagaggtgc cagatcatct acggtggttc cacgtatgac cttgaatctg
2281 atggcaaggg caaaattttg gtggaaaagg tcaagaacac ctctgtacag accaataacg
2341 agttggctgg ggccctgcac catctcaaac atgcccgaat caggtactat gtcaaatgtg
2401 tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca
2461 ttgcacgccg catgaacata caagaactct ggtcgaagcc acaactagat caaaatgaat
2521 cagagactaa ggaagaggcc cccaagtcag aagatgacga gttcatcata tcttctaagg
2581 acatcaagga ggaaggaaag aagggcaaaa acaaaactgg ccgtggcaag aaacacactg
2641 cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg ataagagaag
2701 agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacagg tactatgagg
2761 agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag atcaaaatcc
2821 gtcagagaat tttccgtcct accaggaaac aaagaaagga agagagggcc acattagggc
2881 tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc aaagggaagc
2941 tgtgggccga tgacaacagg agtgttgact acaatgagaa actggacttt gaggcccccc
3001 caagcatatg gtctaggatt gtgagctttg gttctggctg gggcttctgg gtgtcaccaa
3061 gccttttcat aacatcaact catgtaatcc ccgcaggcat gacagaagca tttggagtcc
3121 ccatcaaaca aattcagatc cacaaatcag gcgaattttg ccgattcaga ttcccaaaac
3181 caattagacc agatgtgaca ggaatgatct tggaagaagg tgcgcctgag ggcaccgtgg
3241 caactgtgct catcaaacgc cccaccggag agctcatgcc tcttgcagcc agaatgggaa
3301 cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggt atgttgctca
3361 ctggatcaaa cgctaaagga atggacttgg gaacaactcc tggtgactgt ggctgtcctt
3421 acatctataa aaggggcaat gactatatag tcattggggt gcacactgca gcagcccgtg
3481 gtggaaacac tgtcatctgt gccacacagg gaagtgaggg tgaggcaact cttgagggtg
3541 gagatgacaa aggaacatac tgtggggcac ccattctggg ccctgggggt gcaccaaaat
3601 tgagcaccaa aaccaaattt tggaggtcat cgaacacccc gcttccacca gggacatatg
3661 agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccttcc ctgcagcagg
3721 taatgagaga ccagttgaag cctttcactg aacccagggg caaacctcca agaccaagtg
3781 tattggaagc agccaaacaa accatcatca atgtcctcga acaaaccctg gaccctccac
3841 aaaaatggac atacgcacag gcgtgtgcct cacttgacaa aaccacctcc agcgggcacc
3901 cccatcacgt ccgaaagaat gaattctgga atggtgagac cttcactggt aaactggcag
3961 accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acacatgaca ccagtgtaca
4021 cagcagcact caaggacgag ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga
4081 gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca tttggtgggc
4141 ttatggacga gatgaaggca cactgcatat cactcccagt ccgagttggc atgaatatga
4201 atgaagatgg cccaataata tttgagaaac attccagata caaataccac tatgatgcag
4261 actactctcg ttgggattca acacaacaga gggcagtact agcagcagcc ttggaaatca
4321 tggtcagatt ctctgcagaa ccacaattgg cacaaatagt cgctgaggac ctgctggccc
4381 ctagtgtagt agatgtagga gactttaaaa ttacaataaa tgaagggctc ccttctggtg
4441 tgccatgcac ttctcaatgg aactccatcg cacactggct gctaactctc tgtgccttgt
4501 ctgaagtcac caaattgtcc cctgacatta tacaggcaaa ttccatgttc tcattttacg
4561 gtgatgacga gattgtcagc accgacataa aattggaccc tgaacagtta accgccaaat
4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaaaac cgagggaccc ctaattatca
4681 gtgaggattt gaacggtctc actttcctcc gaaggacggt gactcgtgac ccagctggct
4741 ggtttggaaa actggaccaa agctcaattt tgaggcagat gtactggact agaggaccaa
4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg
4861 cattgcttgg tgaagcctct cttcacggac cctctttcta cagtaaaatc agtaaattgg
4921 tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt
4981 tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 attttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc
5101 ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg tgccgccttg
5161 gcagccccgg tcaccggtca aacaaatatt atagaccctt ggattagagc aaattttgtc
5221 caggccccca atggtgaatt tacagtctct ccccgaaatg cccctggtga agtgctactg
5281 aatctagagt tgggtccaga attaaatcct tatctggcac atttagcaag aatgtacaat
5341 gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt cacagccggc
5401 aagttggtct tcgccgccgt gccaccccac ttcccggttg aaaaccttag cccacagcaa
5461 atcaccatgt tccctcatgt gatcatagat gtgagaacct tggaacctgt tttattacca
5521 ctccctgatg ttaggaataa cttcttccat tataaccaga aagatgatcc caagatgaga
5581 attgtggcta tgctttatac ccccctcagg tctaatggtt caggtgatga tgtgtttaca
5641 gtctcctgta gagtgttgac tagaccttcc cctgactttg acttcacata cctggtgcca
5701 ccaacagtgg agtctaaaac aaagccattc accctcccaa tcctcacact tggggaactt
5761 tccaattcta ggttcccagt gtccatagac cagatgtaca ccagccctaa tgaaattata
5821 tcagtgcagt gtcaaaatgg taggtgcaca ctggacgggg agctccaagg gacgacacaa
5881 ctccaagtca gtggcatttg tgctttcaaa ggtgaagtga ccgcccactt gcatgacaat
5941 gatcacctat ataatgtcac catcacaaac ttgaatgggt ccccttttga tccctccgag
6001 gatatccctg cccctctggg tgtgcctgac ttccagggaa gggtttttgg tatcatctcc
6061 caaagagata aacacaatag tcctgggcat aatgaaccag caaacagggg acacgacgct
6121 gtggtcccta cttacacagc acagtatact ccaaaacttg gacaagttca aattggcaca
6181 tggcaaactg acgaccttac agtcaaccaa ccagtcaaat tcaccccagt tggactcaat
6241 gacactgaac actttaacca atgggtggtc cctaggtatg ctggtgccct aaacctcaat
6301 acaaaccttg ccccttctgt tgctccagta tttccaggag agcgcctgct cttcttcaga
6361 tcatacattc ccctcaaggg cggttatgga aacccagcca ttgattgcct actaccacaa
6421 gagtgggtgc aacacttcta tcaggaagca gccccttcaa tgagtgaggt ggccctcgtc
6481 agatacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca cagagctggt
6541 ttcatgacag tctcgagcaa caccagtgcc ccggtggttg tgcctgccaa cgggtacttc
6601 agatttgatt cttgggtgaa ccaattttat tctctcgccc ccatgggaac tgggaatggg
6661 cgtagaaggg ttcaataatg gctggagctt ttgtagctgg tcttgcaggg gacgtgctca
6721 gcaatgggct tagttcatta atcaatgcag gtgctaatgc aataaatcag agggcagaat
6781 ttgattttaa tcagaaattg cagcaaaatt cttttaatca tgataaggag atgttgcagg
6841 ctcagattca ggcaactaag cagctgcagg cagacatgat ggctataaaa caaggggtct
6901 tgaccgctgg cggcttttcc cctgctgatg cagccagagg tgctgtgaac gcgcccatga
6961 cacaggcgct ggattggaat ggcacaaggt attgggcacc aaactccatg aggaccacat
7021 cttattctgg aaagtttaca tcaaccgccc cagtgaggca ggctgacttc cagcacaccc
7081 aaagccggcc ttcgagtggc tcctctgtgt cttcctttgc cactcagtct tcaaggccaa
7141 ctctgaccac aaccgctggt tcctcacatg gcacagcctc atcaaattca actcgcagca
7201 caagcctctc ccaatcaacg gtctccagag ctacatctag gactggtgcg tgggttagag
7261 atcaaaatag aaatttggaa ccctacatgc atggtgcctt acagacagcc tttgtcaccc
7321 caccttccag cagggcatct gacgggacag tctcaaccgt ccctaaaggt gttttggact
7381 cctggacacc tgcgtttaac acccgcaggc agccgctttt tgcacacctc cgtaagaggg
7441 gggagtcaca agcttagtga aaaggtgaaa atttatttag gatgaattga ttttacct
//