Typing tool
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Typing tool
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Complete norovirus genomes
| MK752940 | GII.2 | |
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| GII.P16 |
ORF1: 1..5099
ORF2: 5080..6708
ORF3: 6708..7479
LOCUS MK752940 7479 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.2/LaCrosse0445
nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2)
gene, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK752940
VERSION MK752940.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7479)
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JOURNAL Unpublished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 7479)
AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L.
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..7479
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="LaCrosse0445"
/isolate="Hu/US/2017/GII.P16-GII.2/LaCrosse0445"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="12-Apr-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="QBS47651.1"
/translation="EMASNDATVAVACNNNNDKGKSSGEGLFTNMSSTLKKALGARPK
QPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT
MEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATALIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQRSILRQMYWTRGPN
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="QBS47652.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLNVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6708..>7479
/gene="ORF3"
CDS 6708..>7479
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47653.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANVINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPILTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGES"
ORIGIN
1 tggagatggc gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaaag
61 gaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg
121 gggctaggcc caaacagcct gccccgagag acaaaccaca aaagccccca agaccaccaa
181 ctcccgagtt ggtcaagagg ataccccctc ctccacctaa tggcgaagaa gaagaagaac
241 cagtcattag gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc
301 cccaaccgga cgtggccaac acagcattta gtgttccacc actgagcttg agagaaaaca
361 gggaggccaa ggaaccgcta acaggagcaa tattagagat gtgggatgga gagatatacc
421 actatggcct gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca
481 taagcatggc aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtatacactc
541 cccaatacct catctcccct gaaactctca ggaggctcaa cggagaggca ttcccttaca
601 ccgcctttga caacaactgc tatgcctttt gctgctgggt gttagacctt aatgattcat
661 ggcttagcag gaggatggta caaagaacaa cgggcttctt cagaccttac caagagtgga
721 acagaaaacc cctgcccacc atggatgact ccaaaattaa gaaggtggca aatatattcc
781 tatgttcatt gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac
841 cattaaacat attgaatatc ctggcaacgt gtgactggac ttttgccgga atagtggagt
901 ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta
961 tgatcgctcc cttactcggg gactacgagt tgcaaggacc agaagacctc gccgttgaac
1021 tcgtacctgt ggtgatgggg gggattggct tggtgttggg attcaccaaa gagaaaattg
1081 gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt ggtgcctatg
1141 gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg
1201 agctagccat ggtgagggcc atagaggatg ctgtactaga tcttgaggca atagaaaata
1261 accacatgac gaccctgttg aaagacaaag atagcttagc aacatatatg aaaacattgg
1321 acatggagga ggagaaagcc aggaggttgt ccacaaaatc tgcatcccct gacatagttg
1381 ggacaatcaa cgccctgctg gctcgaatag cagcggccag gtcgttagtc cacagggcca
1441 aggaagagct atctagcagg ataagaccag tagttgttat gatatctggc aaaccaggaa
1501 taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg
1561 atcaaagagt cggactcata ccacgaaacg gtgtggacca ttgggatgca tacaaaggtg
1621 agagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca
1681 tacaagaatt ggctgatacg tgtcccctta ccttaaattg tgacagaatt gaaaacaagg
1741 gaaaagtttt tgacagtgaa gtcataataa ttacaacaaa ccttgccaac ccagccccac
1801 ttgattatgt caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg
1861 caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg
1921 ccttcaagcc ggacttttca cacatcaagc tacagcttgc accccagggc ggctttgaca
1981 agaatggcaa caccccacat gggaaaggag tgatgaagac cctcactacc ggttctctga
2041 ttgcccgtgc atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca
2101 caaccaccac cttcaatttc gaccggaaca gaatcacagc attcagacaa ttggctgcag
2161 aaaacaagta tggattggtg gataccatga aagttggcaa tcaattaaaa ggagtgaaaa
2221 ccatggaaga actcaaacaa gcaatcagga atgtgaccat caagaggtgc cagatcatct
2281 acggtggttc cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg
2341 tcaagaacac ctctgtacag accaacaacg agttggctgg ggccctgcac catctcaaac
2401 atgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa
2461 ttgccggtgc tgcgtttgtc accacgcgca ttgcacgccg catgaacata caagaactct
2521 ggtcgaagcc acaattagat caaaatgaat cagagactaa ggaagaggcc cccaagtcag
2581 aagatgacga gttcatcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa
2641 acaaaactgg ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg
2701 agtatgacga gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt
2761 atcttcaaga cagagacagg tactatgagg agctcgccat tgccaaggcc acggaagaag
2821 acttctgtga agaggaggag atcaaaatcc gtcagagaat tttccgtccc accaggaaac
2881 aaagaaagga agagagggcc acattagggc tagtaacagg ttcagaaatc agaaaaagaa
2941 accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacagg agtgttgact
3001 acaatgagaa actggacttt gaggcccccc caagcatatg gtctaggatt gtgagctttg
3061 gttctggctg gggcttctgg gtgtcaccaa gccttttcat aacatcaact catgtaatcc
3121 ccgcaggcat aacagaggca tttggagtcc ccatcaaaca aattcagatc cacaaatcag
3181 gtgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca ggaatgattt
3241 tggaagaagg tgcgcctgag ggcaccgtgg caactgcgct catcaaacgc cccaccggag
3301 agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt caaggccgca
3361 tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga atggatttgg
3421 gaacaactcc tggtgactgt ggctgtcctt acatctataa aaggggcaat gactatatag
3481 tcattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg
3541 gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac
3601 ccattttagg ccctggaggt gcaccaaaat tgagcaccaa aaccaaattt tggagatcat
3661 cgaacacgcc ccttccacca gggacatatg agcctgccta cctcggtggc cgtgatccgc
3721 gtgttaaggg tgggccttcc ctgcagcagg taatgagaga ccagttgaag ccattcactg
3781 aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa accatcatca
3841 atgttctcga acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgcct
3901 cacttgacaa aaccacctcc agcgggtatc cccatcacgt ccgaaagaat gaattctgga
3961 atggtgagac cttcactggt aaactggcag accaagcatc aaaagcaaac ctaatgtttg
4021 aggaagggaa acacatgaca ccagtgtaca cagcagcact caaggacgag ttagtcaaga
4081 ctgagaagat 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 ctgctggccc ctagtgtagt agatgtagga gactttaaaa
4441 ttacaataaa tgaagggctc ccttctggtg tgccatgcac ttctcaatgg aactccatcg
4501 cgcactggct gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta
4561 tacaggcaaa ttccatgttc tcattttacg gtgatgacga gattgtcagc accgacataa
4621 aattggaccc tgaacaatta accgccaaat tgaaggagta cggcctgaaa ccaacccgcc
4681 cagacaaaac cgagggaccc ctgattatca gtgaagattt gaacggtctc actttcctcc
4741 gaaggacggt gactcgtgac ccagctggct ggtttggaaa actggaccaa agatcaattt
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 aaattttgtc caggccccca atggtgaatt tacagtctct
5281 ccccgaaatg cccctggtga agtgctattg aatctagagt tgggtccaga attaaatcct
5341 tatctggcac atttagcaag aatgtacaat gggtatgccg gtgggatgga ggtgcaggtc
5401 atgttggctg ggaacgcgtt cacagccggc aagttggtct tcgccgccgt gcctcctcac
5461 ttcccggttg aaaaccttag cccacagcaa atcaccatgt tccctcatgt gatcatagat
5521 gtgagaacct tggaacctgt tttattacca ctccctgatg ttaggaataa tttcttccat
5581 tataatcaga aagatgatcc caagatgagg attgtggcta tgctttatac ccccctcagg
5641 tctaatggtt caggtgatga tgtgttcaca gtctcctgta gagtgttgac tagaccttcc
5701 cctgactttg acttcacata cctggtgcca ccaacagtgg agtctaaaac aaagccattc
5761 accctcccaa tcctcacact tggggaacta tccaattcta ggttcccagt gtccatagac
5821 cagatgtaca ccagccctaa tgaagttata tcagtgcagt gtcaaaatgg taggtgcaca
5881 ctggacgggg agctccaagg aacaacacaa ctacaagtca gtggcatttg tgctttcaaa
5941 ggtgaagtga ccgcccactt gcatgacaat gatcacctgt ataatgttac catcacaaac
6001 ttgaatgggt ccccttttga tccctccgag gacatccctg cccctctggg tgtgcctgac
6061 ttccagggaa gggtttttgg tatcatctct caaagagaca aacacaatag tcctgggcat
6121 aatgaaccag caaacagggg acacgacgct gtggtcccta cttacacagc acagtacact
6181 ccaaaactgg gacaaattca aattggcaca tggcagactg acgaccttaa tgtcaaccaa
6241 ccagtcaaat tcaccccagt tggactcaat gacactgaac attttaatca atgggtggtc
6301 cctaggtatg ctggtgccct aaacctcaat acaaaccttg ccccttctgt tgctccagta
6361 tttccaggag agcgcctgct cttcttcaga tcatacatcc ccctcaaggg cggttatgga
6421 aacccagcca ttgattgcct actaccacaa gagtgggtgc aacacttcta tcaggaagca
6481 gccccttcaa tgagtgaggt ggccctcgtc agatacatca acccggacac tggtcgggca
6541 ctgtttgagg ccaagctcca cagagctggt ttcatgacag tctcgagcaa caccagtgcc
6601 ccggtggttg tgcctgccaa cggatacttc agatttgatt cttgggtgaa ccaattctat
6661 tctctcgccc ccatgggaac tgggaatggg cgcagaaggg ttcaataatg gctggagctt
6721 ttgtagctgg tcttgcaggg gacgtgctca gcaatgggct tagttcatta atcaatgcag
6781 gtgctaatgt aataaatcag agggcagaat ttgattttaa tcagaaattg cagcaaaatt
6841 cttttaatca tgataaggag atgttgcagg 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 cagcacaccc aaaaccggcc ttcgagtggc tcctctgtgt
7141 cttccttcgc cactcagtct tcaaggccaa ttttgaccac aaccactggt tcctcacatg
7201 gcacagcctc atcaaactca actcgcagca caagcctctc ccaatcaacg gtctccagag
7261 ctacatctag gactggtgag tgggttagag atcaaaatag aaatttggaa ccctacatgc
7321 acggtgcctt acagacagcc tttgtcaccc caccttccag cagggcatct gacgggacag
7381 tctcaaccgt cccgaaaggt gttttggact cctggacacc tgcgtttaac acccgcaggc
7441 agccgctttt tgcacacctc cgtaagaggg gggagtcac
//