Typing tool
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Typing tool
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Complete norovirus genomes
| MK590974 | GII.2 | |
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| GII.P16 |
ORF1: 1..5099
ORF2: 5080..6708
ORF3: 6708..7487
LOCUS MK590974 7496 bp RNA linear VRL 11-MAR-2019
DEFINITION Norovirus GII isolate V17T03764_Noro_GII_P16_GII_2 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION MK590974
VERSION MK590974.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7496)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F., Marine,R.L. and
Wadford,D.A.
TITLE Norovirus GII.P16-GII.2 from School Outbreaks; California, 2017
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7496)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F., Marine,R.L. and
Wadford,D.A.
TITLE Direct Submission
JOURNAL Submitted (05-MAR-2019) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7496
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="RGDS-2017-1015"
/isolate="V17T03764_Noro_GII_P16_GII_2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: CA"
/collection_date="Jun-2017"
/note="genotype: GII.P16-GII.2"
gene <1..5099
/gene="ORF1"
CDS <1..5099
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QBJ03987.1"
/translation="KMASNDATVAVACNNNNDKEKSSGEGLFTNVSSTLKKALGARPK
QPAPRDKLQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGVSGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT
MGELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEA
PKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRRQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..995
/gene="ORF1"
/product="p48"
mat_peptide 996..2093
/gene="ORF1"
/product="NTPase"
mat_peptide 2094..2624
/gene="ORF1"
/product="p22"
mat_peptide 2625..3023
/gene="ORF1"
/product="VPg"
mat_peptide 3024..3566
/gene="ORF1"
/product="Pro"
mat_peptide 3567..5096
/gene="ORF1"
/product="RdRp"
gene 5080..6708
/gene="ORF2"
CDS 5080..6708
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBJ03988.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPLSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6708..7487
/gene="ORF3"
CDS 6708..7487
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBJ03989.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTI
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQD"
ORIGIN
1 tgaagatggc gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaaag
61 aaaaatcttc aggtgaaggc ttattcacaa atgtgtcttc caccttaaag aaagccctcg
121 gggctaggcc caaacagcct gccccgagag acaaactaca aaagccccca agaccaccaa
181 ctcccgagtt ggtcaagagg ataccccctc ccccacctaa tggcgaagaa gaagaagaac
241 cagtcattag gtatgaggtt aagagtgggg tctctggcct gcccgagctc acaacagtcc
301 cccaaccgga cgtggccaac acagcattca gcgttccacc actgagcttg agagaaaaca
361 gggaggccaa ggaaccgcta acaggggcaa tattagagat gtgggatgga gagatatacc
421 actatggcct gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca
481 taagcatggc aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtgtacactc
541 cccaatacct catctcccct gaaactctca ggaggctcaa cggagaggca ttcccttaca
601 ctgcctttga caataattgc tatgcctttt gctgctgggt gttagacctc aatgactcat
661 ggcttagcag gaggatggta caaagaacaa cgggcttctt cagaccttac caagattgga
721 acagaaaacc cctgcctacc atggatgact ccaaaattaa gaaggtagca aatatattcc
781 tatgttcatt gtccacatta ttcaccagac ccataaaaga tctcatagga aaaataaaac
841 cattaaacat attgaatatc ttggcaacgt gtgactggac ttttgccgga atagtggagt
901 ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta
961 tgatcgctcc cttactcggg gactacgagt tgcaagggcc agaagacctc gccgttgaac
1021 tcgtacctgt ggtaatgggg gggattggtt tggtgttggg attcaccaaa gagaaaattg
1081 gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt ggcgcctatg
1141 gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg
1201 agctagccat ggtgagggcc atagaggatg ctgtactaga ccttgaggca atagaaaata
1261 accacatgac aaccctgttg aaagacaaag acagcttagc aacgtacatg aaaacactgg
1321 acatggagga ggagaaagcc aggaggttgt ccacaaaatc tgcgtcccct gacatagttg
1381 ggacaatcaa cgccctgctg gctcgaatag cagcagccag gtcattagtc cacagggcca
1441 aggaagagtt atctagcagg atgaggccag tagttgttat gatatctggc aaaccaggaa
1501 taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg
1561 accaaagagt cggactcata ccgcgaaacg gtgtggacca ttgggatgca tacaaaggtg
1621 aaagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca
1681 tacaagaatt ggctgatacg tgtcccctca ccttaaattg tgacagaatt gaaaataagg
1741 gaaaagtttt tgacagtgaa gtcataataa tcacaacaaa cctcgccaat ccggccccac
1801 ttgattatgt caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg
1861 caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg
1921 ccttcaaacc agacttttca cacatcaagc tacagcttgc accccagggc ggctttgata
1981 agaatggcaa caccccacat gggaaaggag tgatgaagac cctcactacc ggttctctga
2041 ttgcccgtgc atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca
2101 caatcaccac cttcaatttc gaccggaaca gaatcacggc attcagacaa ttggctgcag
2161 aaaacaagta tggattggtg gataccatga aagttggcaa tcaattaaaa ggagtgaaaa
2221 ccatgggaga actcaaacaa gcaatcagga atgtgaccat caagaggtgc cagatcatct
2281 acggtggttc cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg
2341 tcaagaacac ctctgtacag accaacaacg aattggctgg ggccctgcac catctcaaac
2401 atgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa
2461 tcgccggcgc tgcgtttgtc accacacgca tcgcacgccg catgaacata caagaactct
2521 ggtcgaagcc acaactagat caaaatgaat cagagactaa ggaagaggcc cccaagtcag
2581 aagatgatga gttcgtcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa
2641 acaaaactgg ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg
2701 agtatgacga gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt
2761 atcttcaaga cagagacaga tactatgagg agctcgccat tgccaaggcc acggaagaag
2821 acttctgtga agaggaggag atcaaaatcc gtcagagaat tttccgtccc accaggagac
2881 aaagaaagga agagagggcc acattagggc tagtaacagg ttcagaaatc cgaaaaagaa
2941 accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacagg agtgttgact
3001 acaatgagaa actggacttt gaggcccccc caagcatatg gtctaggatt gtgagctttg
3061 gttctggctg gggcttctgg gtgtcaccaa gccttttcat aacatcaact catgtaatcc
3121 ccgcaggcat aacagaagca tttggagtct ccatcaaaca aattcagatc cacaaatcag
3181 gcgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca ggaatgatct
3241 tggaagaagg tgcgcctgag ggcaccgtgg caactgtgct catcaaacgc cccaccggag
3301 agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt caaggccgca
3361 tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga atggacttgg
3421 gaacaactcc tggtgactgt ggctgtcctt atatctataa aaggggcaat gactatatag
3481 tcattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg
3541 gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac
3601 ccatcctagg ccctgggggt gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat
3661 cgaacacgcc ccttccacca gggacatatg agcctgccta cctcggtggc cgtgatccgc
3721 gtgttaaggg tgggccttcc ctgcagcagg taatgagaga ccagttgaag ccattcactg
3781 aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa accatcatca
3841 atgtcctcga acaaaccctg gaccctccac aaaagtggac atacgcacag gcgtgtgcct
3901 cacttgacaa aaccacctcc agcgggcacc cccatcacgt ccgaaagaat gaattttgga
3961 atggtgagac cttcactggt aaactggcag accaagcatc aaaagcaaac ctaatgtttg
4021 aggaagggaa acacatgaca ccagtgtaca cagcagcact caaggacgag ctagtcaaga
4081 ctgagaaaat ctatggaaag atcaagaaga gactgctctg gggctctgac ttgtccacca
4141 tgatccggtg cgctaggtca tttggtgggc tcatggacga gatgaaggca cactgcatat
4201 cactcccagt ccgagttggc atgaatatga atgaagatgg cccaataata tttgagaaac
4261 attccagata caaatatcac tatgatgcag actactctcg ttgggattca acacaacaga
4321 gggcagtact agcagcagcc ttggaaatca tggtcagatt ctctgcagaa ccacaattgg
4381 cacaaatagt cgctgaggat ctgctggctc ctagtgtagt agatgtagga gactttaaaa
4441 ttacaataaa tgaagggctc ccttctggtg tgccatgcac ttctcagtgg aactccatcg
4501 cacactggct gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta
4561 tacaggcaaa ttccatgttc tcattttacg gtgatgacga gattgtcagc accgatataa
4621 aattggaccc tgaacagtta accgccaaat tgaaggagta cggcctgaaa ccaacccgcc
4681 cagacaaaac cgagggaccc ctgattatca gtgaagattt gaacggtctc actttcctcc
4741 gaaggacggt gactcgtgac ccagctggct ggtttggaaa actagaccaa agctcaattc
4801 tgaggcagat gtactggact agaggaccaa atcatgaaga ccccaatgag acaatgatac
4861 cccattctca aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac
4921 cctctttcta cagtaaaatc agtaaattgg tcataactga actcaaagaa ggtgggatgg
4981 acttttacgt gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca
5041 cgtgggaggg cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgaatgac
5101 gccgctccat ctactgatgg tgcagccggc ctcgtgccag aaagtaacaa tgaggtcatg
5161 gctcttgaac ccgtggctgg tgccgccttg gcagccccgg tcaccggtca aacaaatatt
5221 atagaccctt ggattagagc aaactttgtc caggccccta atggtgaatt cacagtctct
5281 ccccgaaatg cccctggtga agtgctactg aatctagagt tgggtccaga attaaatcct
5341 tatctggcac atttagcaag aatgtacaat gggtatgccg gtgggatgga ggtgcaggtc
5401 atgttggctg ggaacgcgtt cacagccggc aagttggtct tcgccgccgt gccaccccac
5461 ttcccggttg aaaaccttag cccacagcaa atcaccatgt tccctcatgt gatcatagat
5521 gtgagaacct tggaacctgt tttattacca ctccctgatg ttaggaataa cttcttccat
5581 tataatcaga aagatgatcc caagatgaga attgtggcta tgctttatac ccccctcagg
5641 tctaatggtt caggtgatga tgtgtttaca gtctcctgta gagtgttgac tagaccttcc
5701 cctgactttg acttcacata cctggtgcca ccaacagtgg agtctaaaac aaagccattc
5761 accctcccaa tcctcacact tggggaactt tccaattcta ggttcccatt gtccatagac
5821 cagatgtaca ccagccctaa cgaagttata tcagtgcagt gtcaaaatgg taggtgcaca
5881 ctggacgggg agctccaagg gacaacacaa ctccaagtca gtggcatttg tgctttcaaa
5941 ggtgaagtga ccgcccactt gcatgacaat gatcatctat ataatgttac catcacaaac
6001 ttgaatgggt ccccttttga tccctccgag gatatccctg cccctctggg tgtgcctgac
6061 ttccagggaa gggtttttgg tatcatctcc caaagagaca aacacaacag tcctgggcat
6121 aatgaaccag caaacagggg acacgacgct gtggtcccta cttacacagc acagtatact
6181 ccaaaactgg gacaaattca aattggcacg tggcaaactg acgaccttac agtcaaccaa
6241 ccagtcaaat tcaccccagt tggactcaat gacactgaac attttaacca atgggtggtc
6301 cctaggtatg ctggtgccct aaatctcaat acaaaccttg ccccttctgt tgctccagta
6361 tttccaggag agcgcctgct attcttcaga tcatacattc ccctcaaggg tggttatgga
6421 aacccagcca ttgattgcct actaccacaa gagtgggtgc aacacttcta tcaggaagca
6481 gccccttcaa tgagtgaggt ggccctcgtc aggtacatca acccggacac tggtcgggca
6541 ctgtttgagg ccaagctcca tagagctggt ttcatgacag tctcgagcaa caccagtgcc
6601 ccggtggttg tgcctgccaa cggatacttc agatttgatt cttgggtgaa ccaattttat
6661 tctctcgccc ccatgggaac tgggaatggg cgtagaaggg ttcaataatg gctggagctt
6721 ttgtagctgg tcttgcaggg gacgtgctca gcaatgggct tagttcatta atcaatgcag
6781 gtgctaatgc aataaatcag agggcagaat ttgattttaa tcagaaattg cagcaaaatt
6841 cttttaatca tgataaggag atgttacagg ctcagattca ggcaactaag cagctgcagg
6901 cagacatgat ggctataaaa caaggggtct tgaccgctgg cggcttttcc cctgctgatg
6961 cagccagagg tgctgtgaac gcgcccatga cacaggcgct ggattggaat ggcacaaggt
7021 attgggcacc aaactccatg aggaccacat cttattctgg aaaattcaca tcaaccgccc
7081 cagtgaggca ggctgacttc caacacaccc aaagccggcc ttcgagtggc tcctctgtgt
7141 cttcctttgc cactcagtct tcaaggccaa ctctgaccac aaccattggt tcctcacatg
7201 gcacagcctc atcaaattca actcgcagta caagcctctc ccaatcaacg gtctccagag
7261 ctacatctag gactggtgag tgggttagag atcaaaatag aaatttggaa ccctacatgc
7321 atggtgcctt acagacagcc tttgtcaccc caccttccag cagggcatct gacgggacag
7381 tctcaaccgt cccgaaaggt gttttggact cctggacacc tgcgtttaac acccgcaggc
7441 agccgctttt tgcacacctc cgtaagaggg gggagtcaca agattagtga aaaggt
//