Typing tool
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Typing tool
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Complete norovirus genomes
| KY947547 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS KY947547 7554 bp ss-RNA linear VRL 18-MAY-2017
DEFINITION Norovirus GII strain Hu/USA/2014/GII.P4 New Orleans-GII.4
Sydney/Ellsworth 7118 polyprotein, VP1, and VP2 genes, complete
cds.
ACCESSION KY947547
VERSION KY947547.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7554)
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 7554)
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..7554
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/USA/2014/GII.P4 New Orleans-GII.4
Sydney/Ellsworth 7118"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="20-Nov-2014"
/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="ARR95957.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTVFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELRQALKNVSIKKCQIVYSGCTYTLESDGKGNVRVDRVQNAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFIISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYSEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTTSLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5084..6706
/note="major capsid protein; ORF2"
/codon_start=1
/product="VP1"
/protein_id="ARR95958.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQLNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDITHTTGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQFFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6706..7512
/note="minor structural protein; ORF3"
/codon_start=1
/product="VP2"
/protein_id="ARR95959.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDVVPARGSSSKAS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
3'UTR 7513..7554
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgctg ttgctaacag caacaacgac
61 accgcaaaat cttcaagcga cggagtgctt tctagcatgg ctgtcacttt taaacgagcc
121 ctcggggcgc ggcctaaaca gccccccccg agggaaaaac cacaaagacc cccacgacca
181 cctactccag aactggttaa aaatattccc cctcccccac ctaacggaga ggatgaaata
241 gtggtttctt atagtgtcaa agatggtgtc tccggcttgc ctgacctatc caccgtcagg
301 caaccggaag aatctaacac ggccttcagt gtccctccac tcaatcagag ggagaataga
361 gatgctaagg agccacttac tggaacaatc ctggaaatgt gggacggtga aatctaccac
421 tatggcctgt atgtggagcg aggtcttgtg ctaggtgtgc acaaaccacc agctgccatc
481 agcctcgcta aggttgagct agcaccactc tccttgtact ggagacctgt gtacactcct
541 cagtacctca tctccccaga cactcttaag aaactatccg gagaaacgtt cccctacaca
601 gcctttgaca acaactgtta tgccttttgt tgctgggtcc tggacctaaa cgactcgtgg
661 ctaagcagga gaatgatcca gagaacaact ggtttcttca ggccctacca agactggaat
721 aggaaacccc ttcccactat ggatgactcc aaaataaaga aggtggccaa cattttcctg
781 tgtgctctgt cctcgctgtt caccagaccc ataaaagata taatagggaa gataaggcct
841 cttaacatcc tcaacatctt agcctcatgt gattggactt ttgcaggcat agtggagtcc
901 ctgatactct tggcagaact ctttggagtt ttctggacac ccccagatgt gtctgcgatg
961 attgccccct tacttggtga ctacgagcta caagggcctg aggaccttgc agtggagctc
1021 gttcccgtgg tgatgggggg aattggtttg gtgctaggat tcaccaagga gaagattggg
1081 aagatgttgt catctgccgc gtccaccttg agagcttgta aagaccttgg tgcatatggg
1141 ctagagatcc taaagttggt catgaagtgg ttctttccga aaaaggagga ggcaaatgag
1201 ctggccatag tgaggtctat cgaggatgca gtcctagatc tcgaggcaat cgaaaacaat
1261 cacatgacca ccttactcaa agacaaagac agtctggcaa cctatatgag aacacttgac
1321 cttgaggagg agaaagccag gaaactctca accaagtctg cctcacccga catcgtgggc
1381 acaatcaacg ccctcctggc gagaatcgct gccgcacgtt ctctggtgca tcgagcaaag
1441 gaggagcttt ccagcagacc aagacctgtg gttctgatga tatcaggcag gccaggaata
1501 gggaagaccc acctcgctag ggaagtggct aagagaatcg cagcctccct tacaggagat
1561 cagcgtgtgg gcctcatccc acgcaatggc gtcgaccatt gggatgcgta caagggggag
1621 agggtcgtcc tatgggacga ctatggaatg agcaacccta ttcacgatgc cctcaggctg
1681 caagaactcg ctgacacttg ccccctcact ctaaactgtg acagaattga aaacaaagga
1741 aaggtctttg acagcgatgt catcattatc accactaatt tggccaaccc agcaccactg
1801 gactatgtca actttgaagc gtgttcgagg cgcatcgact tcctcgtgta tgcagaagcc
1861 cctgaagtcg aaaaggcgaa gcgtgacttc ccaggtcagc ctgacatgtg gaagaacgct
1921 ttcagttctg atttctcaca cataaaacta gcactggccc cgcagggtgg tttcgacaag
1981 aacgggaaca ccccacacgg aaagggcgtc atgaagactc tcaccactgg ctcccttatt
2041 gcccgggcat cagggctact ccatgagagg ttagatgagt ttgaactaca gggcccagct
2101 ctcaccgtct tcaatttcga tcgcaataaa gtgcttgcct ttagacaact tgctgctgaa
2161 aacaaatatg ggttgatgga caccatgaga gttgggaaac agctcaagga tgtcaggacc
2221 atgccagaac ttagacaagc actcaagaat gtctcaatca agaagtgcca aatagtgtac
2281 agtggttgca cctacacact tgaatctgat ggcaagggca atgtgagggt tgacagggtc
2341 caaaacgccg ccgtgcagac caataatgag ctggctggtg ctctgcacca tttgaggtgc
2401 gccaggatta gatactatgt caagtgtgtc caagaggccc tgtactccat cattcaaatt
2461 gctggggctg catttgtcac cacgcgcatc gccaagcgca tgaacataca agacctatgg
2521 tccaagccac aagtggaaaa cacagaggag actaccagca aggacgggtg cccaaaacct
2581 aaagatgatg aggagtttat catttcatcc gacgacatca aaactgaggg caagaaaggg
2641 aagaacaaaa ctggccgcgg caagaagcac acagcgtttt caagcaaagg cctcagtgat
2701 gaagagtacg atgagtacaa gaggatcagg gaggaaagga atggcaagta ctccatagaa
2761 gagtaccttc aggacaggga caagtactat gaggaggtag ccattgccag ggcgactgag
2821 gaagacttct gtgaagagga agaggccaag atccggcaaa ggatttttag gccaacaagg
2881 aaacaacgca aggaggaaag agcttctctc ggtctggtca caggctctga aattaggaaa
2941 agaaacccag atgacttcaa acccaagggg aaattgtggg ctgacgatga caggagtgtg
3001 gactatagtg agaaactcaa ttttgaggcc ccaccaagca tctggtcgag aatagtcaat
3061 tttggttcag gctgggggtt ctgggtctct cccagtctgt tcataacatc aacccatgtc
3121 ataccccagg gtgcaaagga gttctttgga gtccctatca aacaaataca ggtacacaag
3181 tcaggcgagt tctgtcgctt gagattccca aaaccaatca ggactgatgt gacaggcatg
3241 atcttagaag aaggcgcgcc tgagggcacc gtggtcacac tactcatcaa gaggtccact
3301 ggggaactca tgcccctagc agctaggatg gggacccacg cgaccatgaa gattcaaggg
3361 cgcactgttg gaggccagat gggcatgctt ctgacaggat ccaacgccaa gagcatggac
3421 ctgggcacta caccaggtga ttgtggctgc ccctatatct acaagagagg taatgactat
3481 gtggtcattg gagtccacac ggctgccgca cgtgggggaa acactgtcat atgtgccacc
3541 caggggagtg aaggagaagc tacacttgaa ggtggtgaca acaaggggac gtactgtggt
3601 gcaccaatcc taggcccagg gagtgcccca acacttagca ccaagactaa attctggaga
3661 tcgtccacaa catcactccc acctggcacc tatgaaccag cctaccttgg tggcaaggac
3721 cctagagtca agggtggccc ttcgctgcag caagttatga gggaacagtt gaagccattc
3781 acagagccca ggggtaagcc accaaaacca agcgtattag aagctgccaa gaagaccatc
3841 atcaatgttc ttgagcaaac aattgaccca cctgagaaat ggtcgttcgc acaagcttgc
3901 gcgtcccttg acaagaccac ttccagtggt catccgcacc acatgcggaa aaacgactgc
3961 tggaatgggg agtccttcac aggcaagctg gcagaccagg cttccaaggc caacctgatg
4021 tttgaagaag ggaagaacat gaccccagtc tacacagctg cgctcaagga tgagttagtc
4081 aaaactgaca aaatttatgg taagatcaag aagaggcttc tctggggttc ggacttggcg
4141 accatgatcc ggtgtgctcg agcattcgga ggcctaatgg atgaactcaa agcacactgt
4201 gtcacactcc ccattagagt tggcatgaat atgaatgagg atggccccat catcttcgag
4261 aggcattcca ggtacacata tcattatgat gctgattact ctcgatggga ctcaacacaa
4321 cagagagccg tgttggcagc agctctagaa atcatggtta aattctcccc agaaccacac
4381 ctggctcagg tagtcgcgga agaccttctt tctcctagcg tggtggacgt gggcgacttc
4441 acaatatcaa tcaacgaggg tcttccctct ggagtgccct gcacctccca atggaattcc
4501 atcgcccact ggcttctcac tctctgcgcg ctctctgaag tcacaaattt gtccccagac
4561 accatacagg ctaattccct cttctctttt tatggtgatg atgaaattgt tagtacagat
4621 ataaaattgg acccagagaa attaacagca aagctcaggg aatatgggtt gaaaccaacc
4681 cgccctgata aaaccgaagg accccttgtt atctctgaag atttaaatgg cctaactttc
4741 ctgcggagga ctgtgacccg cgacccagct ggttggtttg gaaaattgga gcagagttca
4801 atactcaggc aaatgtactg gactaggggc cccaaccatg gagacccttc tgagacaatg
4861 attccacact cccaaagacc tatacaattg atgtccctac tgggggaggc cgctctccac
4921 ggcccagcat tctacagcaa aatcagcaag ctggtcattg cagagctaaa agagggcggc
4981 atggattttt acgtgcccag acaagagcca atgttcaggt ggatgagatt ctcagatctg
5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt
5161 tatggctctg gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa
5221 tgtcattgac ccctggatta gaaacaactt tgtacaagcc cctggtgggg agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccttaggcc ctgacctaaa
5341 tccctaccta tcccacttgg ccaggatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctt gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc
5461 aaatttccca actgaaggct tgagccctag ccaggtcact atgttccccc atataatagt
5521 agatgttagg caactagaac ctgtgttgat ccctttaccc gatgttagga ataatttcta
5581 tcactacaat caattaaatg attccaccat taagttgata gcaatgttgt acacaccact
5641 tagggctaat aatgctgggg acgatgtctt cacagtttcc tgtcgagtcc tcacgagacc
5701 gtcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccgattttaa ctgttgagga gatgaccaat tcaagattcc ccattccctt
5821 ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa acggcagatg
5881 cacgactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt
5941 cagaggggat atcacccata ccacaggtag ccataactac acaatgaact tggcttccca
6001 aaactggaac agttacgatc caacagaaga aatcccagct cctctaggga ctccagattt
6061 tgtggggaag attcaaggtg tgctcaccca aaccacaagg gcagatggct cgacacgcgg
6121 ccacaaggct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagggttca
6181 atttgaaact gacacaaacc atgattttga agccaaccaa aacacaaagt tcaccccagt
6241 cggcgtcatc caagatggtg gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc
6301 aagttactcg ggcagaaata ctcacaatgt gcacctggcc cccgctgtag cccccacttt
6361 cccgggcgag caacttctct tcttcaggtc cactatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag ttcttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgttaag atttgtaaat ccagacacag gcagggtttt
6541 atttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga
6601 tttggttatc ccccccaatg gttactttag gtttgactcc tgggttaatc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttctcttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgaattt gaaaataaca gaaaattgca acaagcttcc
6841 ttccaattta gcagcaatct gcaacaggct tcttttcaac atgacaaaga gatgctccaa
6901 gcacaaattg aggccacaaa aagattacaa caggagatga tgaaagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg
7021 acaaaagttt tggactggag cgggacaagg tactgggcac ccgatgccag gactacaaca
7081 tataatgcag gccgcttttc caccccccaa ccatcggggg cactgccagg aagggctaat
7141 cttagggatg ttgttcccgc tcggggttcc tctagcaaag cttctaactc ttctactgcc
7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc
7261 accagtgtct cgagcctccc gtcaactgca agaactagga gttgggttga ggaccaaaat
7321 aggaatttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagccc ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggcgt aatgtgaaaa gacaaaattg attatctttc tttttcttta gtgt
//