Typing tool
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Typing tool
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Complete norovirus genomes
| MW661260 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MW661260 7599 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-093 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661260
VERSION MW661260.1
DBLINK BioProject: PRJNA396739
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7599)
AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and
Weedmark,K.
TITLE Genomic Analysis of Human Noroviruses Using Hybrid
Illumina-Nanopore Data
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7599)
AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and
Weedmark,K.
TITLE Direct Submission
JOURNAL Submitted (23-FEB-2021) Bureau of Microbial Hazards, Health Canada,
251 SIR FREDERICK BANTING, Ottawa ON, Canada
COMMENT ##Assembly-Data-START##
Assembly Method :: Medaka v. v1.1.3; Pilon v. v1.23
Sequencing Technology :: Illumina; Nanopore
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7599
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-093"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Canada: British Columbia"
/collection_date="2019"
/note="Viral RNA extracted from fecal samples;
genotype: GII.4_Sydney_2012_GII.P16"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QSD58399.1"
/translation="MKMASNDASAAVACNNSNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEQEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLIRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTTTTFNFDRNKITAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVTTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTTKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 4..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2628
/gene="ORF1"
/product="p22"
mat_peptide 2629..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6706
/gene="ORF2"
CDS 5084..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58400.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6706..7512
/gene="ORF3"
CDS 6706..7512
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58401.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRVLPGRANLRDAVPARGPSIKSP
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa cagcaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc accaagacca
181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaacaa
241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca
301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga cggagagata
421 taccactatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac
541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacgggga ggcgttccct
601 tacaccgcct tcgacaacaa ctgttacgcc ttttgctgct gggtgttaga cctcaatgac
661 tcatggctta tcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag
721 tggaacagaa aacccctgcc taccatggat gactccaaaa taaagaaggt agcaaatata
781 ttcctatgtt cattgtccac gttattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattacttgc cgaactcttt ggagttttct ggacaccccc agatgtgtct
961 gctatgatcg ctcccttact cggagactac gagttgcaag ggccagaaga cctcgccgtt
1021 gaactcgtac ctgtggtaat gggagggatt ggcttggtgt tgggattcac caaagagaaa
1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc
1141 tatggcttgg agatacttaa attggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca
1321 ctggacttgg aggaggagaa agccagaagg ttgtctacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg
1441 gccaaggaag agctatctag caggataaga ccagtagtcg ttatgatatc tggcaaacca
1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca
1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa
1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgacgctctt
1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat
1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc
1801 ccactcgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct
1861 gaggcaccag aggtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag
1921 gacgctttca agccggactt ttcacacatc aagctacagc ttgctcctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt
2101 cccacaacca ccacttttaa tttcgaccgg aacaaaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggatt gatggatacc atgaaagttg gcaatcaact aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatc aggaacgtaa ccatcaagag gtgccgaatc
2281 atctacggcg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 agggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc
2401 aaacacgccc gtatcaggta ctatgttaaa tgtgtgcaag aagcagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag
2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaaaggc
2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat
2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag
2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacagaa
2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg ccccaccagg
2881 aaacaaagaa aggaagagag ggccacatta gggctggtga caggttcaga aatcagaaaa
2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt
3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgta
3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaatcca gatccacaaa
3181 tcaggtgaat tttgccgatt caggttccca aaaccaatta gaccagatgt gacaggaatg
3241 atcttggaag aaggcgcgcc tgaaggcacc gtgacaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc
3361 cgcatggttg gtggacagat gggtatgttg ctcaccggat caaatgctaa aggaatggac
3421 ttgggaacaa ctcctggtga ctgtggctgc ccttacatct ataaaagggg caatgactat
3481 atagtcattg gggttcacac tgcagcagct cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg
3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctaccttgg tggccgtgat
3721 ccgcgtgtta agggtgggcc ctccttacag caggtaatga gagaccagtt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgttttgg aagcagccaa gcaaaccatt
3841 atcaatgttc tcgaacaaac cctggaccct ccacaaaagt ggacatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgcccgaaa gaatgaattc
3961 tggaatggtg agaccttcac tggcaaattg gcagaccaag catcaaaggc aaacctaatg
4021 tttgaggaag ggaaacacat gacaccagtg tacacagcag cactcaagga cgagctagtc
4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc
4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc
4201 atatcactcc cagtgcgagt tggcatgaat atgaatgaag atggcccaat aatatttgag
4261 aaacattcca gatacaaata ccactatgat gcagactact ctcgttggga ttcaacacaa
4321 cagagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa
4381 ttggcgcaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt
4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactct
4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 atcatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accctgaaca gttaaccacc aagttgaagg agtacggtct gaagccaacc
4681 cgcccagaca agaccgaggg acccctgatc atcagtgagg atttgaacgg actcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca
4801 atcttaaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg
4861 ataccccact ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctacagtag gatcagcaaa ttggtcataa ctgaactcaa agaaggtggg
4981 atggattttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg
5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt
5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa
5341 cccctatcta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc
5461 aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt
5521 agatgttaga caattagaac ctgtgttaat tcccttaccc gatgttagga ataatttcta
5581 tcattacaat cagtcaaatg actccactat taagttgata gcaatgttgt acacaccact
5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccggttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt
5821 ggaaaagttg ttcacaggcc ccagcagtgc ctttgttgtc caaccacaaa acggtagatg
5881 cacaactgat ggcgtgctct taggcaccac ccaactttct cctgtcaaca tctgcacctt
5941 cagaggggat gtcacccaca tcacaggtag tcgcaactat acaatgaatt tggcttctca
6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt
6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg
6121 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccaccca tcgaaacgaa ccccaacagt gggtgctccc
6301 aagttactca ggcagaaata ctcacaatgt acatttggcc cccgctgtag cccccacctt
6361 tccgggtgaa caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga gtgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgc aaacttcaca aatcaggcta tgttacagtg gctcatactg gccaacatga
6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggagctttc
6721 tttgctggat tggcatccga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc
6841 ttccaattta gcagcaattt gcaacaggct tcttttcaac atgataaaga gatgctccag
6901 gcacaaattg aggccaccaa aaagttacaa caggaaatga tgaaagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggctc cagatgctag gattacaaca
7081 tacaatgcag gccacttttc cacccctcaa ccatcgaggg tactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggaccc tccattaaat ctcctaactc ttctactgct
7201 acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc tggttctgga
7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat
7321 aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aatgtgaaaa gacaaaactg attattttct ttttcttttc tttagtgtct
7561 tttaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa
//