Typing tool
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Typing tool
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Complete norovirus genomes
| KY947546 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS KY947546 7546 bp ss-RNA linear VRL 18-MAY-2017
DEFINITION Norovirus GII strain Hu/USA/2015/GII.P4 New Orleans-GII.4
Sydney/Titusville 7426 polyprotein, VP1, and VP2 genes, complete
cds.
ACCESSION KY947546
VERSION KY947546.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7546)
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 7546)
AUTHORS Cannon,J.L., Barclay,L., Collins,N.R., Chhabra,P., Wikswo,M.E.,
Castro,C.J., Magana,L.C., Gregoricus,N. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (14-APR-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..7546
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/USA/2015/GII.P4 New Orleans-GII.4
Sydney/Titusville 7426"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="12-Jan-2015"
/note="genotype: GII.P4 New Orleans-GII.4 Sydney"
5'UTR 1..3
CDS 4..5103
/note="nonstructural protein; ORF1"
/codon_start=1
/product="polyprotein"
/protein_id="ARR95954.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEMVVSYSVKDGVSGLPDLSTVKQPE
ESNTAFSVPPLSQRENRDAKEPLTGSILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARIELAPLSLYWRAVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHLTTLLKDKDSLATYMKTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVMMISGRPGIGKTHLAREV
AKRIATSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDKTQSASVQTNNELTGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETTNKDGC
PKPKDDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMYEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEILVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSVAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5084..6706
/note="major capsid protein; ORF2"
/codon_start=1
/product="VP1"
/protein_id="ARR95955.1"
/translation="MKMASSDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRSDGSTRGHKATVYTGSADFAPKLGRVQFETDTDRDFETNQNTKFTPVGVIQDG
TTAHRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6706..7512
/note="minor structural protein; ORF3"
/codon_start=1
/product="VP2"
/protein_id="ARR95956.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPPGALPGRANFRDVVPARGSSSKSS
NSSTVASVYSNQTASTRLGSTAGSGSSVSSLPSTARTRSWVEDQNRSLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTHRQPLFAHIRKRGESRA"
3'UTR 7513..7546
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgctg ttgccaacag caacaacgac
61 accgcaaaat cttcaagtga cggagtgctt tccagcatgg ctgtcacttt taaacgagcc
121 ctcggggcgc ggcctaaaca gccccccccg agggagatac cacaaagacc cccacgacca
181 cctaccccag aattggttaa aaagatcccc ccccctccgc ccaacggaga ggatgaaatg
241 gtggtttctt atagtgtcaa agatggtgtt tccggtttgc ctgacctttc caccgtcaag
301 caaccggaag aatctaacac ggccttcagt gtccccccac tcagtcagag ggagaatagg
361 gacgccaagg agccacttac tggatcaatt ttggaaatgt gggatggaga aatctaccat
421 tatggcctgt atgtggagcg aggtctcgtg ctaggtgtac acaaaccacc agctgccatc
481 agcctcgcta ggattgagct agcaccactc tccttgtact ggagagctgt gtacactcct
541 cagtacctca tctctccaga cactctcaag aaattgcacg gagagacgtt cccctacaca
601 gcctttgaca acaattgtta tgccttctgt tgctgggtcc tggacctaaa cgactcgtgg
661 ctgagcagga gaatgatcca aagaacaact ggtttcttta ggccctacca agactggaat
721 aggaaacccc ttcccactat ggatgactcc aaattaaaga aggtagctaa catattcctg
781 tgtgctctgt cctcgctatt caccaggccc ataaaggata taatagggaa gttaaagcct
841 ctcaatatcc tcaacatctt agcctcatgt gattggacct ttgcaggtat cgtggagtcc
901 ctgatactct tggcagagct ctttggggtt ttctggacac ccccagatgt gtctgcgatg
961 attgccccct tactcggtga ctacgagctg caaggacctg aggaccttgc agtggagctc
1021 gtccccgtag tgatgggtgg aattggtttg gtactaggat tcaccaaaga gaagattggg
1081 aaaatgttgt catctgctgc atccaccttg agagcttgca aagaccttgg tgcatatggg
1141 ctagaaatcc taaagttggt catgaagtgg ttcttcccga aaaaggagga agcaaatgaa
1201 ctggccatag tgagatctat cgaggatgca gtcttggatc tcgaggcaat tgaaaacaac
1261 cacttgacca ccctgctcaa agacaaagac agtctggcaa cctacatgaa aactcttgac
1321 cttgaggagg agaaagccag gaaactttca accaagtctg cctcgcctga cattgtgggc
1381 acaatcaacg cccttctggc gagaatcgcc gccgcacgct ctctggtgca tcgagcgaag
1441 gaggaacttt ccagcagacc aagacctgta gtgatgatga tatcaggcag gccaggaata
1501 gggaagactc accttgctag ggaagtggct aagagaatcg caacctccct tacaggagat
1561 cagcgtgtag gcctcatccc acgcaacggc gtcgaccatt gggatgcata caagggggag
1621 agggtcgtcc tttgggatga ttatggaatg agcaaccccg ttcatgatgc cctcagattg
1681 caggaactcg ctgacacctg ccccctcact ctaaactgtg acaggattga gaacaaagga
1741 aaggtctttg acagcgatgt cattattatc accactaacc tggccaaccc agcaccactg
1801 gactatgtca attttgaagc atgctcgagg cgcatcgact tcctcgtgta cgcagaagcc
1861 cctgaagtcg aaaaggcgaa gcgtgacttc ccaggccagc ctgacatgtg gaagaacgcc
1921 ttcagtcctg atttctcaca tataaaactg acactggccc cacaaggtgg cttcgacaag
1981 aacgggaaca ccccacacgg aaagggtgtc atgaagaccc tcaccactgg ctccctcatt
2041 gcccgggcat ctgggttact ccatgagagg ttagatgagt ttgaactaca aggcccaacc
2101 ctcaccacct tcaatttcga ccgcaataaa gtacttgcct ttagacaact tgctgctgag
2161 aataaatatg ggttgatgga cacaatgagg gttgggaaac agctcaagga tgtcagaacc
2221 atgccagaac tcaaacaagc acttaagaat gtctcaatca agaagtgcca aatagtgtat
2281 agtggttgca cttacatact tgaatctgat ggcaagggta atgtgaaagt tgacaaaacc
2341 cagagcgcct ccgtgcagac caacaatgag ctgactggtg ccctgcatca tttgaggtgc
2401 gccaggatca gatactatgt caagtgtgtc caggaggccc tgtactccat catccaaatt
2461 gctggagccg catttgtcac cacgcgcatc gtcaagcgca tgaacataca agacctgtgg
2521 tccaagccac aagtggaaaa cacagaggag accaccaaca aagacgggtg cccaaaaccc
2581 aaagacgatg aggagttcgt catctcatcc gacgacatca aggctgaggg taagaaaggg
2641 aagaacaaga ctggccgcgg caagaaacac acagccttct caagtaaagg tctcagtgat
2701 gaagagtatg atgagtacaa gaggattagg gaagaaagga atggcaagta ctccatagag
2761 gagtaccttc aggacaggga caaatactat gaggaggtgg ccattgccag ggcgactgag
2821 gaagacttct gtgaagagga ggaagccaag atccggcaaa ggattttcag gccaacaagg
2881 aaacaacgaa aggaggaaag agcttctctc ggcctagtca caggttctga aattaggaaa
2941 agaaacccag atgatttcaa acccaagggg aaactgtggg ctgacgatga cagaagtgtg
3001 gattataacg agaaactcag ttttgaggcc ccaccaagca tctggtcgag gatagtcaat
3061 tttggttcag gttggggatt ttgggtctcc cctagtctgt tcataacatc aacccatgtc
3121 ataccccagg gtgcaaaaga gttctttgga gtccccatca aacaaattca ggtacacaag
3181 tcaggcgagt tctgtcgctt gagattccca aaaccaatca ggactgatgt gacgggcatg
3241 atcttagaag aaggcgcacc tgagggcacc gtagttacat tactcatcaa gaggtccact
3301 ggggaactta tgcccctagc agctaggatg gggacccatg caactatgaa gatccaaggg
3361 cgcactgttg ggggccaaat gggcatgctt ctgacagggt ccaacgccaa aagcatggat
3421 ctgggtacta caccaggtga ttgtggctgt ccctacatct acaagagagg taatgactat
3481 gtggtcattg gagtccacac ggctgccgct cgcggaggaa acactgtcat atgtgctacc
3541 caggggagtg aaggagaggc tacacttgaa ggtggtgacg acaaggggac atactgtggt
3601 gcacccatcc taggcccagg gagtgcccca acacttagca ccaagaccaa attctggaga
3661 tcatccacag caccactccc acccggcacc tatgaacctg cctatcttgg tggcaaggac
3721 cccagagtca agggtggccc ttcactgcag caagttatga gggaacagtt aaagccattc
3781 acagagccca ggggcaaacc accaaaacca agtgtgttgg aagctgccaa gaagaccatc
3841 atcaatgtcc ttgagcaaac aattgatcca cctgagaaat ggtcattcgc acaagcttgt
3901 gcgtcccttg acaagaccac ttccagcggc catccccacc acatgcggaa aaacgactgc
3961 tggaacgggg agtccttcac gggcaagctg gctgaccagg cttccaaggc caacctgatg
4021 tatgaagaag ggaagaatat gaccccagtc tacacagctg cactcaagga tgaattggtt
4081 aaaactgaca aaatttatgg taagatcaag aagaggcttc tctggggctc ggacttggcg
4141 accatgatcc gctgcgctcg agcgttcgga ggcttaatgg atgaactcaa agcacactgt
4201 gtcacactcc ccattagagt tggtatgaat atgaatgagg atggccccat catcttcgag
4261 aggcattcca ggtacacata tcactatgat gctgattact ctcgatggga ttcaacacaa
4321 cagagagccg tgttggcagc agctctagaa atcttagtca aattctcccc agaaccacat
4381 ttggctcagg tagtcgcgga agacctcctt tctcctagcg tggtggacgt gggcgacttc
4441 acaatatcaa tcaacgaggg ccttccctct ggggtgccct gtacctctca atggaattct
4501 gtcgcccact ggcttctcac actctgcgcg ctctctgaag tcacaaactt gtcccctgac
4561 accatacaag ctaattccct cttctctttt tatggtgatg atgaaattgt tagcacagat
4621 ataaagttgg acccagagaa attgacagca aagctcaggg aatatgggtt gaaaccaacc
4681 cgccctgata aaactgaagg accccttgtc atctctgaag acttgaatgg cctaactttc
4741 ctgcggagaa ctgtgacccg cgacccagct ggttggtttg gaaaactgga gcagagttca
4801 atactcaggc aaatgtactg gactaggggc cccaaccatg gagacccatc tgaaacaatg
4861 attccacact cccaaagacc tatacaactg atgtccctat tgggggaggc cgctctccac
4921 ggcccagcat tctacagcaa aatcagtaaa ttggtcattg cagagctaaa agaaggcggc
4981 atggattttt acgtgcccag acaagagcca atgttcaggt ggatgagatt ctcagacctg
5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca gcaatgaggt
5161 tatggctctg gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa
5221 tataattgac ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt
5281 gtcccctaga aacgctccag gtgagatact atggagcgcg cccttaggcc ctgatttaaa
5341 tccctaccta tcccatttgg ctagaatgta caatggttat gcaggtggct ttgaagtgca
5401 ggtaatcctc gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc
5461 aaattttcca actgaaggct tgagccccag ccaggtcact atgttccccc acataatagt
5521 ggatgttagg caattagaac ctgtgttgat tcccttacct gatgttagga ataattttta
5581 ccattataat caatcaaatg accccactat taagttgata gcaatgttgt atacaccact
5641 tagggctaat aatgctgggg acgatgtctt cacggtttct tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccaatcttaa ctgttgagga gatgaccaat tcaagatttc ccattccttt
5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa atggcagatg
5881 cacgactgat ggcgtgctcc taggtaccac ccagttatct cctgtcaaca tttgcacctt
5941 cagaggggat gtcacccata tcacaggtag ccataactac acaatgaatt tggcttctca
6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagactt
6061 tgtggggaag attcaaggtg tgctcaccca aaccacaagg tcggatggct cgacacgcgg
6121 ccacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacagacc gtgattttga aactaaccaa aatacaaaat tcaccccagt
6241 cggtgtcatc caagatggta ccactgccca ccgaaatgaa cctcaacagt gggtgctccc
6301 aagttattca ggcagaaaca ttcataatgt gcacctggcc cccgctgtag cccccacttt
6361 tccgggtgag caactgctct tcttcaggtc cactatgccc ggatgcagcg ggtatcccaa
6421 catggatttg gactgtctgc ttccccagga atgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgttaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgt aaacttcata aatcaggcta tgttacagtg gctcatactg gccaacatga
6601 tttggttatt ccccccaatg gttactttag atttgattcc tgggttaatc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgaattt gaaaataaca gaaaattgca acaagcttcc
6841 ttccaattta gcagcaatct acaacaagct tcctttcaac atgacaaaga gatgctccaa
6901 gcacaaattg aggccaccaa gaagctacaa caggaaatga tgaaagtcaa gcaggcagtg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca
7081 tacaatgcag gccgcttttc caccccccaa ccaccggggg cactgccagg aagagctaat
7141 tttagggatg ttgtccccgc tcggggttcc tctagtaaat cttctaattc ttctactgtc
7201 gcttctgtgt attcaaatca aactgcttca acgagacttg gttctacagc tggttctggt
7261 tccagtgtct cgagtctccc gtcaactgcg aggactagga gctgggttga ggatcaaaat
7321 aggagtttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaagtttt ggactcctgg
7441 actggtgctt tcaacacgca caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggctt aatgtgaaaa gacaaaattg attatcttta catcac
//