Typing tool
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Typing tool
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Complete norovirus genomes
| MK753013 | GII.2 | |
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| GII.P2 |
ORF1: 1..5049
ORF2: 5030..6658
ORF3: 6658..7437
LOCUS MK753013 7444 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P2-GII.2/Clackamas0943
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK753013
VERSION MK753013.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7444)
AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H.,
Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J.
TITLE Emergence and characterization of multiple viruses associated with
a novel GII.P16 polymerase in the United States, 2015-2018
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7444)
AUTHORS Barclay,L., Cannon,J.L., Tsaknaridis,L.J., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (04-APR-2019) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, 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..7444
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Clackamas0943"
/isolate="Hu/US/2016/GII.P2-GII.2/Clackamas0943"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="04-Apr-2016"
/note="genotype: GII.P2-GII.2"
gene <1..5049
/gene="ORF1"
CDS <1..5049
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBS47699.1"
/translation="NDNTKSSSDGMLNNMAVTLKRALGARPKQPAPREKPPRPPRPPT
PELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQPPEANTAFSVPPLSQRENR
DAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISIAKVELTPLSLYWRPVY
TPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSRRMISRTTGFFRPY
QEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPLNILNILASCDWTF
AGIVESLILMAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAVELVPVVMGGIGLVL
GFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEANELAMVRAIEDA
VLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSASPDIVGTINALLAR
IAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKIASTLTGDQRVGLI
PRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFD
SDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDMWKDAYR
SDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEYELQGPP
LSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDELKKAIKNIIIRKCQI
VYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRCARIRYYVKCVQEAIYS
LLQIAGTVFVTSRIVSRMNIQNLWSRPLSEDADEATIKEGCPKPRDEEEFIVSSDDIK
PEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSIEEYLQDRDKYYEE
VAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSEIRKRNPDDFKPKG
KLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGITEA
FGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILIKRPTGELMPL
AARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYIVIG
VHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSS
TTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTI
INVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWNGESFTGKLADQASKAN
LMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMVRCARSFGGLMDEL
KAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQRDVLAAAMEIMVK
FSAEPQLAQIVAEDLLSPSVVDVGDFKVSINEGLPSGVPCTSQWNSIAHWLLTLCALS
EVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGLKPTRPDKTEGPLI
ISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHEDPFESMIPHSQRPI
QLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD
RNLAPSLVNEDGVE"
mat_peptide <1..939
/gene="ORF1"
/product="p48"
mat_peptide 940..2037
/gene="ORF1"
/product="NTPase"
mat_peptide 2038..2574
/gene="ORF1"
/product="p22"
mat_peptide 2575..2973
/gene="ORF1"
/product="VPg"
mat_peptide 2974..3516
/gene="ORF1"
/product="Pro"
mat_peptide 3517..5046
/gene="ORF1"
/product="RdRp"
gene 5030..6658
/gene="ORF2"
CDS 5030..6658
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47700.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6658..7437
/gene="ORF3"
CDS 6658..7437
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47701.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIEATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPSSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 aacgacaaca caaaatcttc aagtgacgga atgcttaata acatggccgt cacccttaaa
61 cgagcccttg gggcccggcc caaacagcca gccccgaggg aaaaaccccc aagaccccct
121 agaccaccaa caccagaatt aatcaaaaga atcccccccc caccacctaa tgatggggac
181 gaaccaaccg tgatgttcag cactgcaggt ggtgtgtctg gcctacctga gctcacaaca
241 gtcggtcaac cacctgaagc taacactgcc tttagtgtgc ccccccttag ccaaagggaa
301 aacagggacg ctaaggaacc gttaactggg gctattctgg aaatgtggga tggggagatt
361 tatcattatg gactgtatgt ggaaaaaggg cttgtgctag gcgtgcacaa gccgccggct
421 gccattagca tagccaaagt ggaattaaca cccctctcac tgtattggag gcctgtgtac
481 acgcctcagt acctcatatc tcctgacacc ttgaggaaac tccacggtga gttatttccc
541 tatacagcct ttgaaaacaa ctgttatgcc ttctgctgtt gggttttgga cctcaacgat
601 tcatggctaa gcagaaggat gattagtagg actactggct tcttcaggcc ctaccaagag
661 tggaacagga agcctctccc aactatggat gactcaaaat tgaagaaggt cgcaaacatc
721 gttctgtgtg cattgtcatc attgttcact aggcccatta aggatataat tggcaaactt
781 aaacccctta acatcctaaa tattctggcc tcatgcgatt ggaccttcgc tggcatagta
841 gaatcattaa tcctcatggc tgaactcttt gatgtgttct ggacaccccc agatgtgtct
901 gcaatgatcg cacccctcct cggcgactat gagctacaag gtcccgaaga catcgctgtg
961 gagctcgtgc ccgttgtgat gggtgggata ggtctggtgt tgggattcac caaagagaaa
1021 ataggcaaga tgctctcctc tgcggcgtca actctgaggg cgtgcaaaga tcttggagcc
1081 tatggattgg agatactaaa actagtcatg aaatggtttt tcccaaagaa ggatgaggcc
1141 aacgaactgg ctatggtcag agccattgaa gacgctgtat tagatctgga ggctattgag
1201 aacaaccata tgaccactct actgaaggac aagaacagcc ttgcagcata catgaagacc
1261 ctggacatgg aagaggaaaa agctaggaag ctatccacca aatcagcctc ccctgacatt
1321 gtgggcacta taaacgccct gctggctagg atcgctgccg cgcgatccct agttcacagg
1381 gccaaggagg agctctccag caggccaaga ccggtcgttt tgatgatctc tggcaagcca
1441 gggataggaa agacccactt ggccagagaa ctggcaaaga aaatcgcctc gacactcaca
1501 ggagaccaaa gggttggtct tattccacga aatggagttg accattggga cgcctacaaa
1561 ggtgagagag tagtgctctg ggatgactat ggaatgagca accccatcca cgatgcgctg
1621 aggctgcagg aattggcaga cacatgtcca ttaactctaa attgtgacag gattgaaaac
1681 aaggggaaag tcttcgacag cgacgcgatc ataatcacca ccaatttggt caaccccgcg
1741 ccgttggatt atgtcaactt tgaggcctgc tccagacgta tagacttcct tgtgtatgct
1801 gatgccccag aagtcgagaa agcaaagcgg gactttcccg gtcaaccgga catgtggaaa
1861 gacgcctatc gctctgactt ctcacacatt aaactacaac ttgcaccaca aggtgggttt
1921 gacaaaaatg gtaacacccc acatggtaaa ggagtgatga agactctcac tgccagctca
1981 ctggtcgcac gtgcctctgg tctcttgcac gagagattag atgagtacga gttgcaaggc
2041 ccgcccctct caaccttcaa ctttgaccgt aacaaaatcg cagcgttcag acaactcgcc
2101 gctgaaaaca agtacggtct ggtagacacg atgagggtgg gcaaccagct cagaaatgtc
2161 acgaccatgg atgaactcaa gaaggctatc aagaacatca taatcagaaa gtgccagata
2221 gtctatggtg gcaacactta cacgcttgag tctgacggca agggcaaggt tgtagttgag
2281 agggtgcaga gcgccagcgt gcaaatcaac aatgagatcg ctggtgcagt acaccatctt
2341 agatgtgcca gaataaggta ttatgtcaag tgtgtccaag aggccatata ctcactcctc
2401 cagattgccg gcacggtgtt tgttacttca cgcatcgtaa gccgcatgaa catccaaaat
2461 ctgtggtcta ggccactatc tgaagatgca gatgaagcca ccataaaaga ggggtgccct
2521 aaacctaggg atgaagaaga attcatcgtc tcctcagatg atattaagcc agagggcaag
2581 aaaggcaaaa acaagagtgg ccggggcaag aaacacacgg cattctcaag caaagggctc
2641 agtgatgagg agtacgaaga gtacaaaaga atcagagagg agagaaatgg caagtactcc
2701 atagaggaat acctacagga cagagacaag tactatgaag aggtggccat tgccagggca
2761 actgaagaag acttctgtga agaagaagag gttaagattc gtcagaggat cttcaggcca
2821 acaagaaagc aacgcaagga agaaagagcc aaccttggcc tcgttaccgg gtctgagatc
2881 aggaagagaa acccagatga cttcaaacca aaaggaaagc tgtgggccga cgatgacagg
2941 agcgtcgact acaatgaaag aatcagcttt gaggccccac caagcatttg gtctagaatt
3001 gtcaactttg gttctggatg ggggttctgg gtgtcaccta gcctcttcat aacatcaaca
3061 cacgtcatac ctcaaggcat aactgaggcc tttggtgtac ccataaggca ggtgcaaata
3121 cacaaatcgg gcgagttctg tcgcttgaga ttcccaaaac ccatcagaac agatgtgtca
3181 ggcatgatac tggaggaggg agcgcccgaa ggtactgttg ccaccatact catcaaaaga
3241 cccactggag agctgatgcc tctagcagca agaatgggaa cccacgcgac catgaggata
3301 caagggcgca cagtgggcgg ccagatggga atgttgctca ctgggtccaa tgcaaagagc
3361 atggatcttg gcaccacgcc cggtgactgt gggtgtccct acatttacaa aaggggcaat
3421 gattatatag tcattggagt tcacacagca gccgctcgtg gcggaaacac tgtcatctgc
3481 gccacacaag gtagtgaggg tgaggctact ctcgagggtg gtgacaataa aggaacatat
3541 tgtggggcac caatcttggg ccccggaaat gccccaaaac tgagcactaa aaccaaattc
3601 tggaggtcct ctacaacacc actcccaccc ggcacgtacg agccggcata tctgggagga
3661 aaagaccccc gagtcaaagg tgggccatct ctgcaacaag tcatgcgaga ccaactgaag
3721 ccattcaccg aaccccgtgg caagccacca aaaccaagtg tccttgaagc tgctaaaaag
3781 acaattatca atgtgttaga gcaaacaata gaccccccac agaagtggac gtacgcgcaa
3841 gcgtgcgcgt ctcttgacaa aaccacatct agtggatacc cccaccacgt gcgcaaaaac
3901 gagcactgga atggggaatc tttcacagga aaattggctg atcaggcatc gaaggcaaac
3961 ctaatgtttg aagaagggaa acacatgacc ccagtttata cagctgccct taaggatgaa
4021 ttggtcaaaa ctgagaaagt gtatgggaag ataaagaaga ggttactttg gggctctgac
4081 ttggccacca tggtgaggtg tgcgcgctcc tttggcggtt tgatggacga actcaaggcc
4141 cactgtgtga cactcccgat aagggttggc atgaatatga atgaagatgg accaatagtc
4201 tttgagaaac attccagata caggtatcac tatgatgcag actactccag gtgggattca
4261 acacagcaga gagacgttct ggccgcggcc atggagatta tggttaaatt ctcagcagaa
4321 ccgcaattag cccaaatagt tgcagaggat ctgttgtcgc ccagcgttgt tgacgtgggc
4381 gacttcaaag tttccatcaa tgaaggatta ccatcgggtg tcccttgcac ctctcagtgg
4441 aactccatcg cacactggct cctcaccttg tgtgcccttt ctgaagttac agacctctct
4501 cctgacattg tgcaagccaa ctccctcttc tccttctatg gtgatgatga aattgtgagt
4561 acagatatca aattagaccc agagaagttg acggggaagt tgagagaata tggtctcaaa
4621 cccacccgtc ctgacaaaac tgagggcccc ttgattatta gcgaggatct gaatggcctg
4681 accttcctga ggagaaccgt cacccgcgac cctgcaggat ggtttggcaa actggaccaa
4741 agctccatac ttaggcaatt gtattggacc aaaggcccta atcatgaaga cccctttgag
4801 tcaatgattc cacattccca gaggcccata caactcatgt cactcttggg tgaagcagca
4861 ctgcatgaac catcatttta cagcaagatc agcaagcttg tgatatctga gttgaaagaa
4921 ggtggaatgg atttttacgt gcccaggcaa gaacctatgt ttaggtggat gagattctcg
4981 gatttgagca cgtgggaggg cgatcgcaat cttgctccca gtcttgtgaa tgaagatggc
5041 gtcgaatgac gccgctccat ctactgatgg tgcagccggc ctcgtgccag aaagtaacaa
5101 tgaggtcatg gctcttgaac ccgtggctgg tgccgccttg gcagccccgg tcaccggtca
5161 aacaaatatt atagaccctt ggattagagc aaattttgtc caggccccca atggtgaatt
5221 tacagtctcc ccccgaaatg cccctggtga agtgctactg aatctagagc tgggtccaga
5281 attaaatcct tatctggcac atttagcaag aatgtacaat gggtatgccg gtgggatgga
5341 ggtgcaggtc atgttggctg ggaacgcgtt cacagccggc aagttggtct tcgccgccgt
5401 gccacctcac ttcccggttg aaaaccttag cccacagcaa atcaccatgt tccctcatgt
5461 gatcatagat gtgagaacct tggaacctgt tttattacca ctccctgatg ttaggaataa
5521 tttcttccat tataatcaga aagatgatcc caagatgaga attgtggcta tgctttatac
5581 ccccctcagg tctaatggtt caggtgatga tgtgtttaca gtctcctgca gagtgttgac
5641 tagaccttcc cctgattttg attttacata cctggtgcca ccaacagtgg agtctaaaac
5701 aaaaccattc accctcccaa tcctcacact tggggaactt tccaattcca ggttcccagt
5761 gtctatagac cagatgtaca ccagccctaa tgaagttata tcagtgcagt gtcaaaatgg
5821 taggtgcaca ttggacgggg agcttcaagg gacaacacaa ctccaagtca gcggcatttg
5881 tgctttcaaa ggtgaagtga ccgcccactt gcatgacaat gatcacctat ataatgttac
5941 catcacaaac ttgaatgggt ccccttttga tccctccgag gatatccccg cccctctggg
6001 tgtgcctgat ttccagggaa gggtctttgg tgtcatctcc caaagagaca aacacaatag
6061 tcccgggcat aatgaaccag caaacagggg acacgacgct gtggtcccta cttacactgc
6121 acagtacact ccaaaactgg gacaaattca aattggcaca tggcagactg acgaccttac
6181 agtcaaccaa ccagtcaaat tcaccccagt tggactcaat gacactgaac attttaacca
6241 atgggtggtt cctaggtatg ctggtgccct aaatctcaac acaaaccttg ccccttctgt
6301 tgctccagta tttccaggag agcgcctgct cttctttaga tcatacattc ccctcaaggg
6361 tggttatgga aacccagcca ttgattgcct actaccacaa gagtgggtgc aacacttcta
6421 tcaggaagca gccccttcaa tgagtgaggt ggcccttgtc agatacatca acccggatac
6481 tggtcgggca ctgtttgagg ccaagcttca cagagctggt ttcatgacgg tctcgagcaa
6541 caccagtgcc ccggtggttg tgcctgccaa cggatacttc agatttgatt cttgggtgaa
6601 tcaattctat tctctcgccc ccatgggaac tgggaatggg cgtagaaggg ttcaataatg
6661 gctggagctt ttgtagctgg tcttgcaggg gacgtgctca gcaatgggct cagttcatta
6721 atcaatgcag gtgctaatgc aataaatcag agggcagaat ttgattttaa ccagaaattg
6781 cagcaaaatt cttttaatca tgacaaggag atgttgcagg ctcagattga agcaactaag
6841 cagctgcagg cagacatgat ggctattaaa caaggggtct tgaccgctgg cggtttttcc
6901 cctgctgatg cagccagagg tgctgtgaac gcgcccatga cacaggcgct ggattggaat
6961 ggcacaagat attgggcacc aagctccatg aggaccacat cttattctgg aaaattcaca
7021 tcaaccgccc cagtgaggca ggccgacttt cagcacaccc aaagccggcc ttcgagtggt
7081 tcttctgtgt cttcctttgc cactcagtct tcaaggccaa ctctgaccac aaccactggt
7141 tcctcacatg gaacagcctc atcaaattca actcgcagca caagcctctc ccaatcaacg
7201 gtctccagag ctacatctag gactggtgag tgggttaggg atcaaaatag aaatttggaa
7261 ccctacatgc atggtgcctt acagacagcc tttgtcaccc caccttccag cagggcgtct
7321 gacgggacag tctcaaccgt cccgaaaggt gttttggact cctggacacc tgcgtttaac
7381 acccgcaggc agccgctttt tgcacacctc cgtaagaggg gggagtcaca agcttagtga
7441 aaag
//