Typing tool
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Typing tool
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Complete norovirus genomes
| MW661258 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5101
ORF2: 5082..6704
ORF3: 6704..7510
LOCUS MW661258 7513 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-090 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661258
VERSION MW661258.1
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 7513)
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JOURNAL Unpublished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 7513)
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..7513
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-090"
/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 5..5101
/gene="ORF1"
CDS 5..5101
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QSD58393.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQEWNRKPLPTIDDSKIKKVANIFLCSLSTFFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT
MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..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="QSD58394.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
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="QSD58395.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPPNQSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKQGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 gccagtcatt aggtatgagg ttaagagtgg gatctctggc ctgcccgagc tcacaacagt
301 cccccaaccg gacgtggcca acacagcatt cagcgttcca ccactgagcc tgagagaaaa
361 cagggaggcc aaggaaccgc taacaggggc aatattagag atgtgggacg gagagatata
421 ccactatggc ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc
481 cataagcatg gcaagagtgg agctgacgcc gttgtcattg tactggcgtg tggtgtacac
541 tccccaatac ctcatttccc ctgaaactct caggaggctc aacggagagg cgttccctta
601 cactgccttc gacaacaact gctatgcctt ttgctgctgg gtgttagacc tcaatgactc
661 atggcttagc aggaggatgg tgcaaagaac aacgggcttc ttcagacctt accaagagtg
721 gaacagaaaa cccctgccca ccatagatga ctccaaaata aagaaggtag caaatatatt
781 cctatgttca ttgtccacat ttttcaccag acccataaaa gacctcatag gaaaaattaa
841 accattaaac atattgaaca tcctggcaac gtgtgactgg acgtttgccg gaatagtgga
901 gtctctgata ttacttgctg aactcttcgg agttttctgg acacccccag atgtgtctgc
961 tatgatcgct cccttactcg gggactacga gttgcaaggg ccagaagacc tcgccgttga
1021 actcgtacct gtggtaatgg gagggattgg tttggtgttg ggattcacca aagagaaaat
1081 tggcaaaatg ttgtcttcag cagcatcaac actcagggct tgtaaagatc 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 tggcccgaat agcagcagcc aggtcattag tccacagggc
1441 caaggaagag ctatctagca ggataagacc agtagttgtt atgatatctg gcaaaccagg
1501 gataggcaaa acccatctgg ccagggaggt ggcaagaaag gtggcatcca ctctcacagg
1561 ggatcaaaga gtcggactcg taccaagaaa cggtgtggac cattgggatg catacaaagg
1621 tgagagagtc gtgctgtggg acgactatgg catgagtaac cccattcatg atgctcttcg
1681 catacaagaa ttggctgata cgtgtcccct taccttaaat tgtgacagaa ttgaaaataa
1741 gggaaaagtt tttgacagtg aagtcataat aattacaaca aaccttgcca acccagcccc
1801 acttgattat gtcaacttcg aggcctgttc caggagaatt gatttcctgg tgtacgctga
1861 ggcaccagaa gtagaaaagg caaaacggga ttttcctggt cagccagata tgtggaagga
1921 cgccttcaag ccggactttt cacacatcaa gctacagctt gcacctcagg gcggctttga
1981 caagaatggc aacaccccac atgggaaagg ggtgatgaag accctcacta ccggttctct
2041 gattgcccgt gcatcaggcc tgctgcatga gaggatggat gaatttgaac tccaaggtcc
2101 cacaatcacc acctttaatt tcgaccggaa cagaatcaca gcatttagac aattggctgc
2161 agaaaacaag tatggattgg tggataccat gaaagttggc aatcaactaa aaggagtgaa
2221 gaccatggaa gaactcaaac aagcaattag gaatgtgacc atcaagaggt gccggatcat
2281 ctacggtggc tccacgtatg accttgaatc tgatggcaag ggcaaagttt tggtggaaaa
2341 ggtcaagaac acctctgtac agaccaacaa cgagttggcc ggggccctgc accatctcaa
2401 acacgcccga atcaggtact atgtcaaatg tgtgcaagaa gcagtctatt ccatcataca
2461 aattgccggc gctgcgtttg tcaccacgcg cattgcacgc cgcatgaaca tacaagaact
2521 ctggtcgaag ccacaattag atcaaaatga atcagaggct aaggaagagg cccccaagtc
2581 agaagatgac gagttcatca tatcttctaa ggacatcaag gaggaaggaa agaagggcaa
2641 aaacaaaact ggccgtggca agaaacacac tgcattctcc agcaagggct tgagcgatga
2701 ggagtatgac gagtacaaga ggataagaga agagagaaat gggaagtact ctatagagga
2761 gtatctccag gacagagaca ggtactacga ggagctcgcc attgccaagg ccacggaaga
2821 agacttctgt gaagaggagg agatcaaaat ccgtcagaga atttttcgac ccaccaggaa
2881 acagagaaag gaagagaggg ccacattagg gctggtaaca ggttcagaaa tcagaaaaag
2941 aaaccctgat gacttcaaac ccaaagggaa gctgtgggcc gatgacaaca gaagtgttga
3001 ctacaatgag aaactggact ttgaggcccc cccaagcata tggtctagga ttgtaagctt
3061 tggttctggc tggggcttct gggtatcacc aagcctgttc ataacatcaa ctcatgtaat
3121 ccccgcaggc ataacagaag catttggagt ccccatcaaa caaattcaga tccacaaatc
3181 aggtgaattt tgccggttca gattcccaaa accgattaga ccagatgtga caggaatgat
3241 cttggaagag ggtgcgcctg agggcaccgt ggcaactgtg ctcatcaaac gccccaccgg
3301 agagctcatg cctcttgcag ccagaatggg gacacatgca accatgaaaa ttcagggccg
3361 catggttggc gggcagatgg gtatgctgct cactggatca aatgctaaag gaatggattt
3421 gggaacaacc cctggtgact gtggctgtcc ttacatctat aaaaggggca atgactatat
3481 agttattggg gtgcacactg cagcggcccg tggtggaaac accgtcatct gtgccacaca
3541 gggaagtgag ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc
3601 acccatttta ggccctgggg gtgcaccaaa attgagcacc aaaaccaaat tttggaggtc
3661 atcgaacacg ccccttccac cagggacata tgaacctgcc tacctcggtg gccgtgatcc
3721 gcgtgttaaa ggtgggccct ccttgcagca ggtaatgaga gaccagttga agccattcac
3781 tgaacccagg ggcaaacctc caagaccaag tgtattggaa gcagccaaac aaaccattat
3841 caatgttctc gaacaaaccc tggaccctcc acaaaaatgg acatacgcac aggcgtgtgc
3901 ctcacttgac aaaaccacct ccagcgggca tccccatcac gtccgaaaga atgaattctg
3961 gaatggtgag accttcactg gtaaattggc agaccaagca tcaaaagcaa acctaatgtt
4021 tgaggaaggg aaacacatga caccagtgta tacagcagca ctcaaggacg agctagtcaa
4081 gactgagaaa atctatggaa agatcaagaa aaggctgctc tggggctctg acttgtccac
4141 catgatccgg tgcgctaggt catttggtgg gctcatggac gagatgaagg cacactgcat
4201 atcactccca gtacgagttg gcatgaatat gaatgaagat ggcccaataa tatttgagaa
4261 acattccaga tacaaatacc actatgatgc agactactct cgttgggatt caacacaaca
4321 gagggcagta ttagcagcag ccttggaaat catggtcaga ttctctgcag aaccgcaatt
4381 ggcacaaata gtcgctgagg atctactggc ccctagtgta gtagatgtag gagactttaa
4441 aatcacaata aatgaagggc tcccatctgg tgtgccatgc acttctcaat ggaactccat
4501 cgcacactgg ctgctaactc tctgtgcctt gtctgaagtc accaaactgt cccctgacat
4561 tatacaagca aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgacat
4621 aaaattggat cctgaacagt taaccgccaa gttgaaggag tacggcctga aaccaacccg
4681 cccagacaag accgagggac ctctaatcat cagtgaagat ttgaacggac tcactttcct
4741 ccgaaggacg gtgactcgtg acccagctgg ctggtttgga aaactggacc aaagttcaat
4801 tttgaggcag atgtactgga ctagaggacc aaatcatgaa gatcccaatg agacgatgat
4861 accacactct caaagaccca tacagctcat ggcactgctt ggtgaagcct ctcttcacgg
4921 accctctttc tacagtagaa tcagtaaatt ggtcataact gaactcaaag aaggtgggat
4981 ggatttctac gtgccaaggc aggaacccat gttcaggtgg atgaggtttt ctgacttgag
5041 cacgtgggag ggcgatcgca atctggctcc caattttgtg aatgaagatg gcgtcgagtg
5101 acgccaaccc atctgatggg tccgcagcca acctcgtacc agaggttaac aatgaggtta
5161 tggctttgga gcccgttgtt ggtgccgcta ttgcggcacc tgtagcgggc caacaaaatg
5221 taattgaccc ctggattaga aataattttg tacaagcccc tggtggggag tttacagtgt
5281 cccctagaaa cgctccaggt gaaatactat ggagcgcgcc cctaggccct gacctaaacc
5341 cctacctatc ccatttggcc agaatgtaca atggttatgc aggtggtttt gaagtgcagg
5401 taattctcgc ggggaacgcg ttcaccgccg gaaagattat atttgcagca gtcccaccaa
5461 attttccaac tgaaggctta agtcctagcc aagtcactat gttcccccat ataatagtag
5521 atgttagaca attagaacct gtgctgattc ccttacccga tgttaggaat aatttctatc
5581 attataatca gtcaaatgat tccactatta agttgatagc aatgttgtac acaccactta
5641 gggctaataa tgctggagat gatgttttca cggtttcgtg ccgagttctc acgagaccat
5701 cccccgattt tgatttcata tttttagtgc cacccacagt tgagtcaaga actaaaccat
5761 tctctgttcc agttttaact gttgaggaga tgaccaattc aagattcccc atccctttgg
5821 aaaagttgtt cacaggcccc agcagtgcct ttgttgttca accacaaaac ggcaggtgca
5881 caactgatgg cgtgctccta ggcaccaccc aactttctcc tgtcaacatc tgcaccttca
5941 gaggggatgt cacccacatc acaggtagtc gcaactacac aatgaatttg gcttcacaaa
6001 attggaataa ctatgaccca acagaagaaa tcccagcccc tctaggaacc ccagattttg
6061 tggggaagat tcaaggcgtg ctcacccaaa ccacaaggac agatggttca acacgcggcc
6121 acaaagctac agtgtacact gggagcgccg actttgctcc aaaactgggt agagttcaat
6181 ttgaaactga cacagaccat gattttgagg ctaatcaaaa cacaaagttc accccagtcg
6241 gtgtcatcca agatggtagc accacccacc gaaacgaacc ccaacagtgg gtgctcccaa
6301 gttactcagg cagaaatact cacaatgtac atttggcccc cgctgtagcc cccacctttc
6361 cgggtgagca acttctcttc ttcaggtcca ccatgcccgg atgcagcggg taccccaaca
6421 tggatttgga ctgtctgctc ccccaggaat gggtgcagta cttctaccaa gaggcagccc
6481 cagcacaatc tgatgtggct ctgctaagat ttgtgaaccc agacacaggt agggttttgt
6541 ttgaatgcaa gcttcacaaa tcaggctatg ttacagtggc tcacactggc caacacgatt
6601 tggttatccc ccccaatggt tactttagat ttgattcctg ggtcaaccag ttctacacgc
6661 ttgcccccat gggaaatgga acggggcgta gacgtgtagt ataatggctg gagctttctt
6721 tgcaggattg gcatctgacg tccttggctc tggacttggt tcccttatca atgctggagc
6781 tggggccatc aaccaaaaag ttgaatttga aaataacaga aaattacaac aagcatcctt
6841 ccaatttagc agcaatctgc aacaggcttc ctttcaacat gataaagaga tgctccaagc
6901 acaaattgag gccaccaaaa agctacaaca ggaaatgatg aaagtcaagc aggcaatgct
6961 cctagagggt gggttctctg agacagatgc agcccgcggg gcaattaacg cccccatgac
7021 aaaaactttg gactggagcg ggacaaggta ctgggctcca gatgctagga ttacaacata
7081 caatgcaggc cacttttcca cccctcaacc atcgagggca ctgccaggaa gagctaatct
7141 tagggatgct gtccctgctc ggggaccccc caaccaatct tctaactctt ctactgccac
7201 ctctgtgtac tcaaatcaaa ctatttcaac gagacttggt tctacagctg gttctgggac
7261 cagtgtctcg agtctcccgt caactgcaag gactaggagc tgggttgagg atcaaaatag
7321 gaatttgtca cctttcatga ggggggccca caacatatca tttgtcaccc caccatctag
7381 cagatcctcc agccaaggca cagtctcaac cgtgcctaaa gagattttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaagc aaggggagtc
7501 acgggtgtaa tgt
//