Typing tool
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Typing tool
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Complete norovirus genomes
| KY865307 | GII.2 | |
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| GII.P16 |
ORF1: 3..5102
ORF2: 5083..6711
ORF3: 6711..7490
LOCUS KY865307 7497 bp RNA linear VRL 18-MAY-2017
DEFINITION Norovirus GII strain Hu/USA/2016/GII.P16-GII.2/Nashville 2122
polyprotein, VP1, and VP2 genes, complete cds.
ACCESSION KY865307
VERSION KY865307.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7497)
AUTHORS Cannon,J.L., Barclay,L., Collins,N.R., Wikswo,M.E., Castro,C.J.,
Magana,L.C., Gregoricus,N., Marine,R.L., Chhabra,P. and Vinje,J.
TITLE Genetic and Epidemiologic Trends of Norovirus Outbreaks in the US
Demonstrated Emergence of Novel GII.4 Recombinant Viruses,
2013-2016
JOURNAL J. Clin. Microbiol. (2017) In press
PUBMED 28490488
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7497)
AUTHORS Cannon,J.L., Barclay,L., Collins,N.R., Chhabra,P., Wikswo,M.E.,
Castro,C.J., Magana,L.C., Gregoricus,N., Marine,R.L. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (31-MAR-2017) Viral Gastroenteritis Branch, 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. 8
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7497
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/USA/2016/GII.P16-GII.2/Nashville 2122"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="21-Dec-2016"
/note="genotype: GII.P16-GII.2"
5'UTR 1..2
CDS 3..5102
/note="nonstructural protein; ORF1"
/codon_start=1
/product="polyprotein"
/protein_id="ARR95873.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLNDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQTNSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5083..6711
/note="major capsid protein; ORF2"
/codon_start=1
/product="VP1"
/protein_id="ARR95874.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWLQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
CDS 6711..7490
/note="minor structural protein; ORF3"
/codon_start=1
/product="VP2"
/protein_id="ARR95875.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVPRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
3'UTR 7491..7497
ORIGIN
1 gaatgaagat ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca
61 aagaaaaatc ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc
121 tcggggctag gcccaaacag cctgccccga gagacaaacc acaaaagccc ccaagaccac
181 caactcccga gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagaag
241 aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag
301 tcccccagcc ggacgtggcc aacacagcat ttagtgttcc accactgagc ttgagagaaa
361 acagggaggc caaggaaccg ctaacagggg caatattaga gatgtgggat ggagagatat
421 accactatgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag
481 ccataagcat ggcaagagtg gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca
541 ctccccaata cctcatctcc cctgaaactc tcaggaggct caacggagag gcattccctt
601 acaccgcctt tgacaacaac tgctatgcct tttgctgctg ggtgttagac cttaatgatt
661 catggcttag caggaggatg gtacaaagaa caacgggctt cttcagacct taccaagagt
721 ggaacagaaa acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat
781 tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta
841 aaccattaaa catattgaat atcctggcaa cgtgtgactg gacttttgcc ggaatagtgg
901 agtctctgat attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg
961 ctatgatcgc tcccttactc ggggactacg agttgcaagg accagaagac ctcgccgttg
1021 aactcgtacc tgtggtgatg ggggggattg gcttggtgtt gggattcacc aaagagaaaa
1081 ttggcaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct
1141 atggcttaga gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca
1201 atgagctagc catggtgagg gccatagagg atgctgtact agatcttgag gcaatagaaa
1261 ataaccacat gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacat
1321 tggacatgga ggaggagaaa gccaggaggt tgtccacaaa atctgcatcc cctgacatag
1381 ttgggacaat caacgccctg ctggctcgaa tagcagcggc caggtcgtta gtccacaggg
1441 ccaaggaaga gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag
1501 gaataggcaa aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag
1561 gggatcaaag agtcggactc ataccacgaa acggtgtgga ccattgggat gcatacaaag
1621 gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc
1681 gcatacaaga attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata
1741 agggaaaagt ttttgacagt gaagtcataa taattacaac aaaccttgcc aacccagccc
1801 cacttgatta tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg
1861 aggcaccaga agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg
1921 acgccttcaa gccggacttt tcacacatca agctacagct tgcaccccag ggcggctttg
1981 acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc
2041 tgattgcccg tgcatcaggc ctactgcatg agaggatgga tgaatttgag ctccaaggtc
2101 ccacaaccac caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg
2161 cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaatta aaaggagtga
2221 aaaccatgga agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca
2281 tctacggtgg ttccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa
2341 aggtcaagaa cacctctgta cagaccaaca acgagttggc tggggccctg caccatctca
2401 aacatgcccg aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat tctatcatac
2461 aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac
2521 tctggtcgaa gccacaatta gatcaaaatg aatcagagac taaggaagag gcccccaagt
2581 cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca
2641 aaaacaaaac tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgaacgatg
2701 aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg
2761 agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag
2821 aagacttctg tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga
2881 aacaaagaaa ggaagagagg gccacattag gactagtaac aggttcagaa atcagaaaaa
2941 gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgatgacaac aggagtgttg
3001 actacaatga gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct
3061 ttggttctgg ctggggcttc tgggtgtcac caagcctttt cataacatca actcatgtaa
3121 tccccgcagg cataacagag gcatttggag tccccatcaa acaaattcag atccacaaat
3181 caggtgaatt ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga
3241 ttttggaaga aggtgcgcct gagggcaccg tggcaactgt gctcatcaaa cgccccaccg
3301 gagagctcat gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc
3361 gcatggttgg cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt
3421 tgggaacaac tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactata
3481 tagtcattgg ggtgcacact gcagcagccc gtggtggaaa caccgtcatc tgtgccacac
3541 agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaacg tactgtgggg
3601 cacccattct aggccctgga ggtgcaccaa aattgagcac caaaaccaag ttttggagat
3661 catcgaacac gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc
3721 cgcgtgttaa gggtgggcct tccctgcagc aggtaatgag agaccagttg aagccattca
3781 ctgaacccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatca
3841 tcaatgttct cgaacaaacc ctggaccctc cacaaaaatg gacatacgca caggcgtgtg
3901 cctcacttga caaaaccacc tccagcgggt atccccatca cgtccgaaag aatgaattct
3961 ggaatggtga gaccttcact ggtaaactgg cagaccaagc atcaaaagca aacctaatgt
4021 ttgaggaagg gaaacacatg acaccagtgt acacagcagc actcaaggac gagctagtca
4081 agactgagaa aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca
4141 ccatgatccg gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca
4201 tatcactccc agtccgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga
4261 aacattccag atacaaatat cactatgatg cagactactc tcgttgggat tcaacacaac
4321 agagggcagt actagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat
4381 tggcacaaat agtcgctgag gatctgttgg cccctagtgt agtagatgta ggagacttta
4441 aaattacaat aaatgaaggg ctcccttctg gtgtgccatg cacttctcaa tggaactcca
4501 tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca
4561 ttatacagac aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca
4621 taaaattgga ccctgaacaa ttaaccgcca aattgaagga gtacggcctg aaaccaaccc
4681 gcccagacaa aaccgaggga cccctgatta tcagtgaaga tttgaacggt ctcactttcc
4741 tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcga
4801 ttttgaggca gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga
4861 taccccattc tcaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg
4921 gaccctcttt ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga
4981 tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga
5041 gcacgtggga gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgaat
5101 gacgccgctc catctactga tggtgcagcc ggcctcgtgc cagaaagtaa caatgaggtc
5161 atggctcttg aacccgtggc tggtgccgcc ttggcagccc cggtcaccgg tcaaacaaat
5221 attatagacc cttggattag agcaaatttt gtccaggccc ccaatggtga atttacagtc
5281 tctccccgaa atgcccctgg tgaagtgcta ttgaatctag agttgggtcc agaattaaat
5341 ccttatctgg cacatttagc aagaatgtat aatgggtatg ccggtgggat ggaggtgcag
5401 gtcatgttgg ctgggaacgc gttcacagcc ggcaagttgg tcttcgccgc cgtgcctcct
5461 cacttcccgg ttgaaaacct tagcccacag caaatcacca tgttccctca tgtgatcata
5521 gatgtgagaa ccttggaacc tgttttatta ccactccctg atgttaggaa taatttcttc
5581 cattataatc agaaagatga tcccaagatg aggattgtgg ctatgcttta tacccccctc
5641 aggtctaatg gttcaggtga tgatgtgttc acagtctcct gtagagtgtt gactagacct
5701 tcccctgact ttgacttcac atacctggtg ccaccaacag tggagtctaa aacaaagcca
5761 ttcaccctcc caatcctcac acttggggaa ctatccaatt ctaggttccc agtgtccata
5821 gaccagatgt acaccagccc taatgaagtt atatcagtgc agtgtcaaaa tggtaggtgc
5881 acactggacg gggagctcca aggaacaaca caactccaag tcagtggcat ttgtgctttc
5941 aaaggtgaag tgaccgccca cttgcatgac aatgatcacc tatataatgt taccatcaca
6001 aacttgaatg ggtccccttt tgatccctcc gaggacatcc ctgcccctct gggtgtgcct
6061 gacttccagg gaagggtttt tggtatcatc tctcaaagag acaaacacaa tagtcctggg
6121 cataatgaac cagcaaacag gggacacgac gctgtggtcc ctacttacac agcacagtac
6181 actccaaaac tgggacaaat tcaaattggc acatggcaga ctgacgatct tacagtcaac
6241 caaccagtca aattcacccc agttggactc aatgacactg aacattttaa tcaatgggtg
6301 gtccctaggt atgctggtgc cctaaacctc aatacaaacc ttgccccttc tgttgctcca
6361 gtatttccag gagagcgtct gctcttcttc agatcataca ttcccctcaa gggcggttat
6421 ggaaacccag ccattgattg cctactacca caagagtggc tgcaacactt ctatcaggaa
6481 gcagcccctt caatgagtga ggtggccctc gtcagataca tcaacccgga cactggtcgg
6541 gcactgtttg aggccaagct ccacagagct ggtttcatga cagtctcgag caacaccagt
6601 gccccggtgg ttgtgcctgc caacggatac ttcagatttg attcttgggt gaaccaattc
6661 tattctctcg cccccatggg aactgggaat gggcgcagaa gggttcaata atggctggag
6721 cttttgtagc tggtcttgca ggggacgtgc tcagcaatgg gcttagttca ttaatcaatg
6781 cgggtgctaa tgcaataaat cagagggcag aatttgattt taatcagaaa ttgcagcaaa
6841 attcttttaa tcatgataag gagatgttgc aggctcagat tcaggcaact aagcagctgc
6901 aggcagacat gatggctata aaacaagggg tcttgaccgc tggcggcttt tcccctgctg
6961 atgcagccag aggtgctgtg aacgcgccca tgacacaggc gctggattgg aatggcacaa
7021 ggtattgggc accaaactcc atgaggacca catcttattc tggaaaattc acatcaaccg
7081 ccccagtgag gcaggctgac ttccagcaca cccaaaaccg gccttcgagt ggctcctctg
7141 tgtcttcctt cgccactcag tcttcaaggc caactttgac cacaaccact ggttcctcac
7201 atggcacagc ctcatcaaat tcaactcgca gcacaagcct ctcccaatca acggtcccca
7261 gagctacatc taggactggt gagtgggtta gagatcaaaa tagaaatttg gaaccctaca
7321 tgcatggtgc cttacagaca gcctttgtca ccccaccttc cagcagggca tctgacggga
7381 cagtctcaac cgtcccgaaa ggtgttttgg actcctggac acctgcgttt aacacccgca
7441 ggcagccgct ttttgcacac ctccgtaaga ggggggagtc acaagcttag tgaaaag
//