Typing tool
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Typing tool
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Complete norovirus genomes
| MK773585 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 2..5101
ORF2: 5082..6704
ORF3: 6704..7510
LOCUS MK773585 7552 bp RNA linear VRL 14-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/Olmsted0261
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MK773585
VERSION MK773585.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7552)
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JOURNAL Unpublished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 7552)
AUTHORS Barclay,L., Cannon,J.L., Cebelinski,E., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (09-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..7552
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Olmsted0261"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/Olmsted0261"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="20-Nov-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene 2..5101
/gene="ORF1"
CDS 2..5101
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBY34792.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KRPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PGVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRLRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVVRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIVFEKHSRYKYHYDADYSRWD
STQQRAVLASALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 2..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2626
/gene="ORF1"
/product="p22"
mat_peptide 2627..3025
/gene="ORF1"
/product="VPg"
mat_peptide 3026..3568
/gene="ORF1"
/product="Pro"
mat_peptide 3569..5098
/gene="ORF1"
/product="RdRp"
gene 5082..6704
/gene="ORF2"
CDS 5082..6704
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBY34793.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6704..7510
/gene="ORF3"
CDS 6704..7510
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBY34794.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTVTSVYSNQTISTRLGSTAGSGTSVSSPPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 aatgaagatg gcgtctaacg acgctaccgt tgccgttgct tgcaacaaca acaacgacaa
61 ggaaaaatct tcaggtgaag gcttattcac aaatatgtct tccaccttaa agaaagccct
121 cggggctagg cccaaacggc ccgccccgag agacgaacca caaaagcccc caagaccacc
181 aactcccgag ttggtcaaga ggataccccc tcctccacct aatggcgaag aagaagaaga
241 accagtcatt aggtatgagg ttaagagtgg gatctctggc ctgcccgagc tcacaacagt
301 cccccaaccg ggcgtggcca acacagcatt cagtgttcca ccactgagct tgagagaaaa
361 cagggaggcc aaggaaccgc taacaggggc aatattagag atgtgggatg gagagatata
421 ccactatggc ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc
481 cataagcatg gcaagagtgg agctgacgcc gctgtcattg tactggcgtg tggtgtacac
541 tccccaatac ctcatctccc ctgaaactct caggaggctc aacggagagg cgttccctta
601 caccgccttc gacaacaact gctatgcctt ttgctgctgg gtgttagacc tcaatgactc
661 atggcttagc aggaggatgg tgcaaagaac aacgggcttc ttcagacctt accaagagtg
721 gaacagaaaa cccctgccca ccatggatga ctccaaaatt aagaaggtag caaatatatt
781 cctatgttca ttgtccacgt tattcaccag acccataaaa gacctcatag gaaaaattaa
841 accattaaac atattgaaca tcctggcaac gtgtgactgg acgtttgccg gaatagtgga
901 atctctgata ttacttgctg aactcttcgg agttttctgg acacccccag atgtgtctgc
961 tatgatcgct cccttactcg gggaatacga gttgcaaggg ccagaagacc tcgccgttga
1021 actcgtacct gtggtaatgg gagggattgg tttggtgttg ggattcacca aagagaaaat
1081 tggcaaaatg ttgtcctcag cagcatcaac actcagggct tgcaaagatc ttggtgccta
1141 tggcttagag atactcaaat tggtcatgaa gtggttcttc ccaaagaaag aggaggccaa
1201 tgagctagcc atggtgaggg ccatagagga tgccgtacta gatcttgagg caatagaaaa
1261 taaccacatg acaaccctgt tgaaagacaa agacagctta gcaacataca tgaaaacact
1321 ggacatggag gaggagaaag ccagaaggtt gtccacaaaa tctgcatccc ctgacatagt
1381 tgggacaatc aacgccctgc tggctcgaat agcagcggcc aggtcattag tccacagggc
1441 caaggaagag ctgtctagca ggataagacc agtagttgtt atgatatctg gcaaaccagg
1501 gataggcaaa actcatctgg ccagggaggt ggcaagaaag gtggcatcca ctctcacagg
1561 ggatcaaaga gtcggactca taccaagaaa cggtgtggac cattgggatg catacaaagg
1621 tgagagagtc gtgctgtggg acgactatgg catgagtaac cccattcatg atgctcttcg
1681 catacaagaa ttggctgata cgtgtcccct taccttaaat tgtgacagaa ttgaaaataa
1741 gggaaaagtt tttgacagtg aagtcataat aattacaaca aaccttgcca atccagcccc
1801 acttgattat gtcaactttg aggcctgttc caggagaatt gatttcctgg tgtacgctga
1861 ggcaccagaa gtagaaaagg caaaacggga ctttcctggt cagccagata tgtggaagga
1921 cgccttcaag ccggactttt cacacatcaa gctacagctt gcacctcagg gcggctttga
1981 caagaatggc aacaccccac atgggaaagg agtgatgaag accctcacca ccggttctct
2041 gattgcccgt gcatcaggcc tactgcatga aaggatggat gaatttgaac tccaaggtcc
2101 cacaatcacc accttcaatt tcgaccggaa cagaatcaca gcattcagac aattggctgc
2161 agaaaacaag tatggattgg tggataccat gaaagttggc aatcaactaa agggagtgaa
2221 aaccatggaa gaactcaaac aagcaatcag gaatgtgacc atcaagaggt gccggatcat
2281 ctacggtggc tccacgtacg accttgaatc tgatggcaag ggcaaagttt tggtggaaaa
2341 agtcaagaac acctctgtac agaccaacaa cgagttggcc ggggccctgc accatctcaa
2401 acacgcccga atcaggtact atgtcaaatg tgtgcaagaa gcaatctact ccatcataca
2461 aattgccggc gctgcgtttg tcaccacgcg cattgcacgc cgcatgaaca tacaagaact
2521 ctggtcgaag ccacaattag atcaaaatga atcagagact aaggaagagg cccccaagtc
2581 agaagacgac gagttcatca tatcttctaa ggacatcaag gaggaaggaa agaagggcaa
2641 aaacaaaact ggccgtggca agaaacacac tgcattctcc agcaagggtt tgagcgatga
2701 ggagtatgac gagtacaaga ggataagaga agagagaaat gggaagtact ctatagagga
2761 gtatcttcaa gatagagaca ggtactatga ggagctcgcc attgccaagg ccacagaaga
2821 agacttctgt gaagaggagg agatcaaaat ccgtcagaga attttccgtc ccaccaggaa
2881 acaaagaaag gaagagaggg ccacattagg gctagtaaca ggttcagaaa tcagaaaaag
2941 aaaccctgat gacttcaaac ccaaagggaa gctgtgggcc gatgacaaca gaagtgttga
3001 ctacaatgag aaactggact ttgaggcccc cccaagcata tggtctagga ttgtgagctt
3061 tggttctggc tggggcttct gggtatcacc aagcctgttc ataacatcaa ctcatgtaat
3121 ccccgcaggc ataacagaag cgtttggagt ccccatcaaa caaattcaga tccacaaatc
3181 aggtgaattt tgccgactca gattcccaaa accaattaga ccagatgtga caggaatgat
3241 cttggaagaa ggtgcgcctg aaggcaccgt ggcaactgtg ctcatcaaac gccccaccgg
3301 agagctcatg cctcttgcag ccagaatggg aacacacgca accatgaaaa ttcaaggccg
3361 catggttggc ggacagatgg gtatgttgct cactggatca aatgctaaag gaatggattt
3421 gggaacaact cctggtgact gtggctgccc ttacatctat aaaaggggca atgactacat
3481 agtcattggg gtgcacactg cagcagcccg tggtggaaac accgtcatct gtgccacaca
3541 gggaagtgag ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc
3601 acccattcta ggccctgggg gtgcaccaaa attgagcacc aaaaccaaat tttggaggtc
3661 atcgaacacg ccccttccac cagggacata tgagcctgcc tacctcggtg gccgtgatcc
3721 gcgtgttaag ggtgggccct ccttgcagca ggtagtgaga gaccagttga agccattcac
3781 tgaacccagg ggcaaacctc caagaccaag tgtattggaa gcagccaaac aaaccattat
3841 caatgtcctc gaacaaaccc tggaccctcc acaaaaatgg acatacgcac aggcgtgtgc
3901 ctcacttgac aaaaccacct ccagcgggca tccccatcac gtccgaaaga atgaattctg
3961 gaatggtgag accttcactg gtaaattggc agaccaagca tcaaaagcaa acctaatgtt
4021 tgaggaaggg aaacacatga caccagtgta tacagcagca ctcaaggatg agctagtcaa
4081 gactgagaaa atctatggaa agatcaagaa gagactgctc tggggctctg acttgtccac
4141 catgatccgg tgcgctaggt catttggtgg gctcatggac gagatgaagg cacactgcat
4201 atcactccca gtacgagttg gcatgaatat gaatgaagat ggcccaatag tatttgagaa
4261 acattccaga tacaaatatc actatgatgc agactactct cgttgggatt caacacaaca
4321 gagggcagta ctagcatcag ctttggaaat catggtcaga ttctctgcag aaccacaatt
4381 ggcacaaata gtcgctgagg atctgctggc ccctagtgta gtagatgtag gagactttaa
4441 aatcacaata aatgaagggc tcccatctgg tgtaccatgc acttctcaat ggaactccat
4501 cgcacactgg ctgctaactc tctgtgcctt gtctgaagtc accaaactgt cccctgacat
4561 catacaagca aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgacat
4621 aaaattggac cctgaacagt taaccgccaa gttgaaggag tacggcctga aaccaacccg
4681 cccagacaag accgagggac ccctgatcat cagtgaagat ttgaacggac tcactttcct
4741 ccgaaggacg gtgactcgtg acccagctgg ctggtttgga aaactggacc aaagctcaat
4801 tctgaggcag atgtactgga ctagaggacc aaatcatgaa gaccctaatg agacaatgat
4861 accccattct caaagaccca tacagctcat ggcactgctt ggtgaagcct ctcttcacgg
4921 accctctttc tacagtaaaa tcagtaaatt ggtcataact gaactcaaag aaggtgggat
4981 ggacttttac gtgccaaggc aggaacccat gttcaggtgg atgaggtttt ctgacttgag
5041 cacgtgggag ggcgatcgca atctggctcc caattttgtg aatgaagatg gcgtcgagtg
5101 acgccaaccc atctgatggg tccgcagcca acctcgtacc agaggtcaac aatgaggtta
5161 tggctttgga gcccgttgtt ggtgccgcta ttgcggcacc tgtagcgggc caacaaaatg
5221 taattgaccc ctggattaga aataattttg tacaagcccc tggaggggag tttacagtat
5281 cccctagaaa cgctccaggt gaaatactat ggagcgcgcc cctaggccct gacctaaatc
5341 cctacctatc ccatttggcc agaatgtaca atggttatgc aggtggtttt gaagtgcagg
5401 taattctcgc ggggaacgcg ttcaccgccg ggaagatcat atttgcagca gtcccaccaa
5461 attttccaac tgagggctta agtcctagcc aagtcactat gttcccccat ataatagtag
5521 atgttagaca attagaacct gtgctgattc ccttacccga tgttaggaat aatttctatc
5581 attataatca gtcaaatgac tccactatta agttgatagc aatgttgtat acaccactta
5641 gggctaataa tgctggggat gatgttttca cagtttcgtg ccgagttctc acgagaccat
5701 cccccgattt tgatttcata tttttagtgc cacccacagt tgagtcaaga actaaaccat
5761 tctctgtccc agttttaact gttgaggaga tgaccaattc aagattcccc attcctttgg
5821 aaaagttgtt cacgggcccc agcagtgcct ttgttgtcca accacaaaac ggcaggtgca
5881 caactgatgg cgtgctccta ggcaccactc aactgtctcc tgttaacatc tgcaccttca
5941 gaggggatgt cacccacatc acaggtagtc gcaactacac aatgaatttg gcttctcaaa
6001 attggaataa ttatgaccca acagaagaaa tcccagcccc tctaggaact ccagattttg
6061 tggggaagat tcaaggcatg ctcacccaaa ccacaaggac agatggttca acacgcggcc
6121 acaaagctac agtgtacact gggagcgccg actttgctcc aaaactgggt agagttcaat
6181 ttgaaactga cacagaccat gattttgaag ctaatcaaaa cacaaagttc accccagtcg
6241 gtgtcatcca agacggtagc accacccacc gaaacgaacc ccaacagtgg gtgctcccaa
6301 gttactcagg cagaaatacc cacaatgtac acctggcccc cgctgtagcc cccacctttc
6361 cgggtgagca acttctcttc ttcagatcca ccatgcccgg atgcagcggg taccccaaca
6421 tggatttgga ctgtctgctc ccccaggaat gggtgcagta tttctaccaa gaggcagccc
6481 cagcacaatc tgatgtggct ctgctaagat ttgtaaatcc agacacaggt agggttttgt
6541 ttgagtgcaa gcttcacaaa tcaggctatg ttacagtggc tcacactggc caacatgatt
6601 tggttatccc tcccaatggt tactttaggt ttgattcctg ggtcaaccag ttctacacgc
6661 ttgcccccat gggaaatgga acggggcgta gacgtgtagt ataatggctg gagctttctt
6721 tgctggattg gcatctgatg tccttggctc tggacttggt tccctcatca atgctggggc
6781 tggggccatc aaccaaaaag ttgagtttga aaataacaga aaattgcaac aagcatcctt
6841 ccaatttagc agtaatctgc aacaggcttc ctttcaacat gataaagaga tgctccaagc
6901 acaaattgag gccaccaaaa agctacaaca ggaaatgatg aaagttaagc aggcagtgct
6961 cctagagggt gggttctctg agacagatgc agcccgcggg gcaattaacg cccccatgac
7021 aaaagctttg gattggagcg ggacaaggta ctgggctccc gatgctagga ctacaacata
7081 caatgcaggc cgcttttcca cccctcaacc atcgggggca ctgccaggaa gagctaatct
7141 tagggatgct gtccctgctc ggggaccctc caacaaatct tctaactctt ctactgtcac
7201 ctctgtgtac tcaaatcaaa ctatttcaac gagacttggt tctacagctg gttctggaac
7261 cagtgtctcg agccccccgt caactgcaag gactaggagc tgggttgagg atcaaagtag
7321 gaatttgtca cctttcatga ggggggccca caacatatca tttgtcaccc caccatctag
7381 cagatcctct agccaaggca cagtctcaac cgtgcctaaa gagattttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaagc gaggggagtc
7501 acgggtgtaa tgtgaaaaga caaaactgat tatctttctt tttctttagt gt
//