Typing tool
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Typing tool
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Complete norovirus genomes
| MK762563 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5076
ORF2: 5057..6679
ORF3: 6679..7485
LOCUS MK762563 7485 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/CS0194
nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2)
gene, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK762563
VERSION MK762563.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7485)
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JOURNAL Unpublished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 7485)
AUTHORS Barclay,L., Cannon,J.L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (05-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..7485
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CS0194"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/CS0194"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="03-Mar-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..5076
/gene="ORF1"
CDS <1..5076
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91016.1"
/translation="TVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRGE
PQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAF
SVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVEL
TPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
VQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNI
LNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPD
IVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVAS
TLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNC
DRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQA
IRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRY
YVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDE
FIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTH
VIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIK
RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYK
RGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLS
TKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPS
VLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGK
LADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCAR
SFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTR
PDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQMYWTRGPNHEDPNET
MIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..972
/gene="ORF1"
/product="p48"
mat_peptide 973..2070
/gene="ORF1"
/product="NTPase"
mat_peptide 2071..2601
/gene="ORF1"
/product="p22"
mat_peptide 2602..3000
/gene="ORF1"
/product="VPg"
mat_peptide 3001..3543
/gene="ORF1"
/product="Pro"
mat_peptide 3544..5073
/gene="ORF1"
/product="RdRp"
gene 5057..6679
/gene="ORF2"
CDS 5057..6679
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91017.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6679..>7485
/gene="ORF3"
CDS 6679..>7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91018.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTVTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRVR"
ORIGIN
1 accgttgccg ttgcttgcaa caacaacaac gacaaggaaa aatcttcagg tgaaggctta
61 ttcacaaata tgtcttccac cttaaagaaa gccctcgggg ctaggcccaa acagcctgcc
121 ccgagaggcg aaccacaaaa gcccccaaga ccaccaactc ccgagttggt caagaggata
181 ccccctcctc cacctaatgg cgaagaagaa gaagaaccag tcattaggta tgaggttaag
241 agtgggatct ctggcctgcc cgagctcaca acagtccccc aaccggacgt ggccaacaca
301 gcattcagtg ttccaccact gagcttgaga gaaaacaggg aggccaagga accgttaaca
361 ggggcaatat tagagatgtg ggatggagag atataccact atggcctgta cgtggagaaa
421 ggcttagtgt tgggtgtgca caaaccacct gcagccataa gcatggcaag agtggagctg
481 acgccgctgt cattgtactg gcgtgtggtg tacactcccc aatacctcat ctcccctgaa
541 actctcagga ggctcaacgg agaggcgttc ccttacaccg cctttgacaa caactgctat
601 gccttttgct gctgggtgtt agacctcaat gactcatggc ttagcaggag gatggtgcaa
661 agaacaacgg gcttcttcag accttaccaa gagtggaaca gaaaacccct gcctaccatg
721 gatgactcca aaattaagaa ggtagcaaat atattcctat gttcattgtc cacattattc
781 accagaccca taaaagacct cataggaaaa attaaaccat taaacatatt gaacatcctg
841 gcaacgtgtg actggacgtt tgccggaata gtggagtccc tgatattact tgctgaactc
901 ttcggagttt tctggacacc cccagatgtg tctgctatga tcgctccctt actcggggac
961 tacgagttgc aagggccaga agacctcgcc gttgaactcg tacctgtggt aatgggaggg
1021 attggtttgg tgttgggatt caccaaagag aaaattggca aaatgttgtc ctcagcagca
1081 tcaacactca gggcttgcaa agatcttggt gcctatggct tagagatact caaactggtc
1141 atgaagtggt tcttcccaaa gaaagaggag gccaatgagc tagccatggt gagggccata
1201 gaggatgccg tactagatct tgaggcaata gaaaataacc acatgacaac cctgttgaaa
1261 gacaaagaca gcttagcaac atacatgaaa acactggaca tggaggagga gaaagccaga
1321 aggttgtcca caaaatctgc atcccctgac atagttggga caatcaacgc cctgctggct
1381 cgaatagcag cggccaggtc attagtccac agggccaagg aagagctatc tagcaggata
1441 agaccagtag ttgttatgat atctggcaaa ccaggaatag gcaaaactca cctggccagg
1501 gaggtggcaa gaaaggtggc atccactctc acaggggatc aaagagtcgg actcatacca
1561 agaaacggtg tggaccattg ggatgcatac aaaggtgaga gagtcgtgct gtgggacgac
1621 tatggcatga gtaaccccat tcatgatgct cttcgcatac aggaattggc tgatacgtgt
1681 ccccttacct taaattgtga cagaattgag aataagggaa aagtttttga cagtgaagtc
1741 ataataatta caacaaacct tgccaatcca gccccacttg attatgtcaa ctttgaggcc
1801 tgttccagga gaattgattt cctggtgtac gctgaggcac cagaagtaga aaaggcaaaa
1861 cgggactttc ctggtcagcc agatatgtgg aaggacgcct tcaagccgga cttttcacac
1921 atcaagctac agcttgcacc tcagggcggt tttgacaaga atggcaacac cccacatggg
1981 aaaggagtga tgaagaccct cactaccggt tctctgattg cccgtgcatc aggcctactg
2041 cacgagagga tggatgaatt tgaactccaa ggtcccacaa tcaccacctt caatttcgac
2101 cggaacagaa tcacagcatt cagacaattg gctgcagaaa acaagtatgg attggtggat
2161 accatgaaag ttggcaatca actaaaagga gtaaaaacca tggaagaact caaacaagca
2221 atcaggaatg tgaccatcaa gaggtgccag atcatctacg gtggctccac gtatgacctt
2281 gaatctgatg gcaagggcaa agttttggtg gaaaaggtca agaacacctc tgtacagacc
2341 aacaacgagt tggccggggc cctgcaccat ctcaaacacg cccgaatcag gtactatgtc
2401 aaatgtgtgc aagaagcagt ctattccatc atacaaattg ccggcgctgc gtttgtcacc
2461 acgcgcattg cacgccgcat gaacatacaa gaactctggt cgaagccaca attagatcaa
2521 aatgaatcag agactaagga agaggccccc aagtcagaag atgacgagtt catcatatct
2581 tctaaggaca tcaaggagga aggaaagaag ggcaaaaaca aaactggccg tggcaagaaa
2641 cacactgcat tctccagcaa gggcttgagc gatgaggagt atgacgagta caagaggata
2701 agagaagaga gaaatgggaa gtactctata gaggagtatc ttcaagacag agacaggtac
2761 tatgaggagc tcgccattgc caaggccacg gaagaagact tctgtgaaga ggaggagatc
2821 aaaatccgtc agagaatttt ccgtcccacc aggaaacaaa gaaaggaaga gagggccaca
2881 ttagggctag taacaggttc agaaatcaga aaaagaaacc ctgatgactt caaacccaaa
2941 gggaagctgt gggccgatga caatagaagt gttgactaca atgagaaact agactttgag
3001 gcccccccaa gcatatggtc taggattgtg agctttggtt ctggctgggg cttctgggta
3061 tcaccaagcc tgttcataac atcaactcat gtaatccccg caggcataac agaagcattt
3121 ggagtcccca tcaaacaaat tcaggtccac aaatcaggtg aattttgccg attcagattc
3181 ccaaaaccaa ttagaccaga tgtgacagga atgatcttgg aagaaggtgc gcctgaaggc
3241 accgtggcaa ctgtgctcat caaacgcccc accggagagc tcatgcctct tgcagccaga
3301 atgggaacac acgcaaccat gaaaattcaa ggccgcatgg ttggcggaca aatgggtatg
3361 ttgctcactg gatcaaatgc taaaggaatg gatttgggaa caactcctgg tgactgtggc
3421 tgtccttaca tctataaaag gggcaatgac tatatagtca ttggggtgca cactgcagca
3481 gcccgtggcg gaaacaccgt catctgtgcc acacagggaa gtgagggtga ggcaactctt
3541 gagggtggag atgacaaagg aacatactgt ggggcaccca ttctaggccc tgggggtgca
3601 ccaaaattga gcaccaaaac caaattttgg aggtcatcga acacgcctct tccaccaggg
3661 acatatgagc ctgcctacct cggtggccgt gatccgcgtg ttaagggtgg gccctccttg
3721 cagcaggtaa tgagagacca gttgaagcca ttcactgaac ccaggggcaa acctccaaga
3781 ccaagtgtat tggaagcagc caaacaaacc attatcaatg tcctcgaaca aaccctggat
3841 cctccacaaa aatggacata cgcacaggcg tgtgcctcac ttgacaaaac cacctccagc
3901 gggcatcccc atcacgtccg aaagaatgaa ttctggaatg gtgagacctt cactggtaaa
3961 ttggcagacc aagcatcaaa agcaaaccta atgtttgagg aagggaaaca catgacacca
4021 gtgtacacag cagcactcaa ggacgagcta gtcaagactg agaaaatcta tggaaagatc
4081 aagaagagac tgctctgggg ctctgacttg tccaccatga tccggtgcgc taggtcattt
4141 ggtgggctca tggatgagat gaaggcacac tgcatatcac tcccagtacg agttggcatg
4201 aatatgaatg aagatggccc aataatattt gagaaacatt ccagatacaa ataccactat
4261 gatgcagact actctcgttg ggattcaaca caacagaggg cagtactagc agcagccttg
4321 gaaatcatgg tcagattttc tgcagaacca caattggcac aaatagtcgc tgaggatctg
4381 ctggccccta gtgtagtaga tgtaggagac tttaaaatca caataaatga agggctccca
4441 tctggtgtgc catgcacttc tcaatggaac tccatcgcac actggctgct aactctctgt
4501 gccttgtctg aagtcaccaa actgtcccct gacattatac aagcaaattc catgttctca
4561 ttttacggtg atgacgagat tgttagcacc gacataaaat tggaccctga acagttaacc
4621 gccaaattga aggagtacgg cctgaaacca acccgcccag acaagaccga gggacccctg
4681 atcatcagtg aagatttgaa cggactcact ttcctccgaa ggacggtgac tcgtgaccca
4741 gctggctggt ttggaaaact ggaccaaaac tcaatattga ggcagatgta ctggactaga
4801 ggaccaaatc atgaagaccc caatgagaca atgatacccc attctcaaag acccatacag
4861 ctcatggcac tgcttggtga agcctctctt cacggaccct ctttctacag taaaatcagt
4921 aagttggtca taactgaact caaagaaggt gggatggact tttacgtgcc aaggcaggaa
4981 cccatgttca ggtggatgag gttttctgac ttgagcacgt gggagggcga tcgcaatctg
5041 gctcccaatt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg atgggtccgc
5101 agccaacctc gtaccagagg tcaacaatga ggttatggct ttggagcccg ttgttggtgc
5161 cgctattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaataa
5221 ttttgtacaa gcccctggtg gggagtttac agtatcccct agaaacgctc caggtgaaat
5281 actatggagc gcgcccctag gccctgacct aaatccctac ctatcccatt tggccagaat
5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga acgcgttcac
5401 cgccgggaag atcatatttg cagcagtccc accaaatttt ccaactgaag gcttaagtcc
5461 tagccaggtc actatgttcc cccatataat agtagatgtt agacaattag aacctgtgct
5521 gattccctta cccgatgtca ggaataattt ctatcattac aatcagtcaa atgactccac
5581 tattaagttg atagcaatgt tgtacacacc acttagggct aataatgctg gggatgatgt
5641 tttcacagtt tcgtgccgag ttctcacgag accatccccc gattttgatt tcatattttt
5701 agtgccaccc acagttgagt caagaactaa accattctct gtcccagttt taactgttga
5761 ggagatgacc aattcaagat tccccattcc tttggaaaag ttgttcacgg gccccagcag
5821 tgcctttgtt gttcaaccac aaaacggcag gtgcacaact gatggcgtgc tcctaggcac
5881 cacccaactg tctcctgtca acatctgcac cttcagaggg gatgtcaccc acatcacagg
5941 tagtcgcaac tacacaatga atttggcttc tcaaaattgg aacaactatg acccaacaga
6001 agaaatccca gcccctctag gaactccaga ttttgtgggg aagattcaag gcatgctcac
6061 ccaaaccaca aggacagatg gttcaacacg cggccacaaa gctacagtgt acactgggag
6121 cgccgacttt tctccaaaac taggtagagt tcaatttgaa actgacacag accatgattt
6181 tgaagctaac caaaacacaa agttcacccc agtcggtgtc atccaagatg gtagcaccac
6241 ccaccgaaac gaaccccaac agtgggtgct cccaagttac tcaggcagaa atactcacaa
6301 tgtacacctg gcccccgctg tagcccccac ctttccgggt gagcaacttc tcttcttcag
6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggactgtc tgctccccca
6421 ggaatgggtg cagtacttct accaagaggc agccccagca caatctgatg tggctctgct
6481 aagatttgtg aatccagaca caggtagggt tttgtttgag tgcaagcttc acaaatcagg
6541 ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca atggttactt
6601 taggtttgat tcctgggtca accagttcta cacgcttgcc cccatgggaa atggaacggg
6661 gcgtagacgt gtagtataat ggctggagct ttctttgctg gattggcatc tgatgtcctt
6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag
6781 tttgaaaata acagaaaatt gcaacaagca tccttccaat ttagcagcaa tctgcaacag
6841 gcttcctttc aacatgataa agagatgctc caagcacaaa ttgaggccac caaaaagcta
6901 caacaggaaa tgatgaaagt taagcaggca atgctcctag agggtgggtt ctctgagaca
6961 gatgcagccc gcggggcaat taacgccccc atgacaaaag ctttggactg gagcgggaca
7021 aggtactggg ctcccgatgc taggactaca acatataatg caggccgctt ttccacccct
7081 caaccatcgg gggcactgcc aggaagagct aatcttaggg atgctgtccc tgctcgggga
7141 ccctccaaca aatcttccaa ctcttctact gtcacctctg tgtactcaaa tcaaactatt
7201 tcaacgaggc ttggttctac agctggttct ggaaccagtg tctcgagcct cccgtcaact
7261 gcaaggacta ggagctgggt tgaggatcaa agtaggaatt tgtcaccttt catgaggggg
7321 gcccacaaca tatcatttgt caccccacca tctagcagat cctctagcca aggcacagtc
7381 tcaaccgtgc ctaaagagat tttggactcc tggactggcg ctttcaacac gcgcaggcag
7441 cctctcttcg ctcacattcg taagcgaggg gagtcacggg tgagg
//