Typing tool
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Typing tool
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Complete norovirus genomes
| MW661256 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5096
ORF2: 5077..6699
ORF3: 6699..7505
LOCUS MW661256 7561 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH18-085 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW661256
VERSION MW661256.1
DBLINK BioProject: PRJNA396739
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7561)
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JOURNAL Unpublished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 7561)
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..7561
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH18-085"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada: Ottawa"
/collection_date="2018-01-29"
/note="Viral RNA extracted from fecal samples;
genotype: GII.4_Sydney_2012_GII.P16"
gene <1..5096
/gene="ORF1"
CDS <1..5096
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QSD58387.1"
/translation="KMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK
QPAPRNESQKPPRPPTPELVKRVPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..992
/gene="ORF1"
/product="p48"
mat_peptide 993..2090
/gene="ORF1"
/product="NTPase"
mat_peptide 2091..2621
/gene="ORF1"
/product="p22"
mat_peptide 2622..3020
/gene="ORF1"
/product="VPg"
mat_peptide 3021..3563
/gene="ORF1"
/product="Pro"
mat_peptide 3564..5093
/gene="ORF1"
/product="RdRp"
gene 5077..6699
/gene="ORF2"
CDS 5077..6699
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58388.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSANFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6699..7505
/gene="ORF3"
CDS 6699..7505
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58389.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPSNQSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgttgcttg caacaacaac aacgacaagg
61 aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg
121 gggctaggcc caaacagcct gccccgagaa acgaatcaca aaagccccca agaccaccaa
181 ctcccgagtt ggtcaagagg gtaccccctc ctccacctaa tggcgaagaa gaagaaccag
241 tcattaggta tgaggttaag agtgggatct ctggcctgcc cgagctcaca acagtccccc
301 aaccggacgt ggccaacaca gcattcagcg ttccaccact gagcttgaga gaaaacaggg
361 aggccaagga accgctaaca ggggcaatat tagagatgtg ggacggagag atataccact
421 atggcctgta cgtggagaaa ggcttagtgt tgggtgtgca caaaccacct gcagccataa
481 gcatggcaag agtggagctg acgccgttgt cattgtactg gcgtgtggtg tacactcccc
541 aatacctcat ctcccctgaa actctcagga ggctcaacgg agaggcgttc ccttacactg
601 ccttcgacaa caactgctat gccttttgct gctgggtgtt agacctcaat gactcatggc
661 ttagcaggag gatggtgcaa agaacaacgg gcttcttcag accttaccaa gagtggaaca
721 gaaaacccct gcccaccatg gatgactcca aaataaagaa ggtagcaaat atattcctat
781 gttcattgtc cacattattc accagaccca taaaagacct cataggaaaa attaaaccat
841 taaacatatt gaacatcctg gcaacgtgtg actggacgtt tgccggaata gtggagtctc
901 tgatattact tgctgaactc ttcggagttt tctggacacc cccagatgtg tctgctatga
961 tcgctccctt actcggggac tacgagttgc aagggccaga agacctcgcc gttgaactcg
1021 tacctgtggt aatgggaggg attggtttgg tgttgggatt caccaaagag aaaattggca
1081 aaatgttgtc ctcagcagca tcaacactca gggcttgcaa agatcttggt gcctacggct
1141 tagagatact caaattggtc atgaagtggt tcttcccaaa gaaagaggag gccaatgagc
1201 tagccatggt gagggccata gaggatgccg tactagatct tgaggcaata gaaaataacc
1261 acatgacaac cctgttgaaa gacaaagaca gcttagcaac atacatgaaa acactggaca
1321 tggaggagga gaaagccaga aggttgtcca caaaatctgc atcccctgac atagttggga
1381 caatcaacgc cctgctggct cgaatagcag cagccaggtc attagtccac agggccaagg
1441 aagagctatc tagcaggata agaccagtag ttgttatgat atctggcaaa ccaggaatag
1501 gcaaaactca tctggccagg gaggtggcaa gaaaggtggc atccactctc acaggggatc
1561 aaagagtcgg actcgtacca agaaacggtg tggaccattg ggatgcatac aaaggtgaga
1621 gagtcgtgct gtgggacgac tatggcatga gtaaccccat tcatgatgct cttcgcatac
1681 aagaattggc tgatacgtgt ccccttacct taaattgtga cagaattgaa aataagggaa
1741 aagtttttga cagtgaagtc ataataatta caacaaacct tgccaaccca gccccacttg
1801 attatgtcaa ctttgaggcc tgttccagga gaattgattt cctggtgtac gctgaggcac
1861 cagaagtaga aaaggcaaaa cgggattttc ctggtcagcc agatatgtgg aaggacgcct
1921 tcaagccgga cttttcacac atcaagctac agcttgcacc tcagggcggc tttgacaaga
1981 atggcaacac cccacatggg aaaggggtga tgaagaccct cactaccggt tctctgattg
2041 cccgtgcatc aggcctgctg catgagagga tggatgaatt tgaactccaa ggtcccacaa
2101 tcaccacctt taatttcgac cggaacagaa tcacagcatt cagacaattg gctgcagaaa
2161 acaagtatgg attggtggat accatgaaag ttggcaatca actaaaagga gtgaaaacca
2221 tggaagaact caaacaagca atcaggaatg tgaccatcaa gaggtgccgg atcatctacg
2281 gtggctccac gtatgacctt gaatctgatg gcaagggcaa agttttggtg gaaaaggtca
2341 agaacacctc tgtacagacc aacaacgagt tggccggggc cctgcaccat ctcaaacacg
2401 cccgaatcag gtactatgtc aaatgtgtgc aagaagcagt ctattccatc atacaaattg
2461 ccggcgctgc gtttgtcacc acgcgcattg cacgccgcat gaacatacaa gaactctggt
2521 cgaagccaca attagatcaa aatgaatcag aggctaagga agaggccccc aagtcagaag
2581 atgacgagtt catcatatct tctaaggaca tcaaggagga aggaaagaag ggcaaaaaca
2641 aaactggccg tggcaagaaa cacactgcat tctccagcaa gggcttgagc gatgaggagt
2701 atgacgagta caagaggata agagaagaga gaaatgggaa gtactctata gaggagtatc
2761 ttcaagacag agacaggtac tatgaggagc tcgccattgc caaggccacg gaagaagact
2821 tctgtgaaga ggaggagatc aaaatccgtc agagaatttt ccgtcccacc aggaaacaaa
2881 gaaaggaaga gagggccaca ttaggactgg taacagggtc agaaatcaga aaaagaaacc
2941 ctgatgactt caaacccaaa gggaagctgt gggccgatga caacagaagt gttgactaca
3001 atgagaaact ggattttgag gcccccccaa gcatatggtc taggattgtg agctttggtt
3061 ctggctgggg cttctgggta tcaccaagcc tgttcataac atcaactcat gtaatccccg
3121 caggcataac agaagcattt ggagtcccca tcaaacaaat tcagatccac aaatcaggtg
3181 aattttgccg attcagattc ccaaaaccga ttagaccaga tgtgacagga atgatcttgg
3241 aagagggtgc gcctgaaggc accgtggcaa ctgtgctcat caaacgcccc accggagagc
3301 tcatgcctct tgcagccaga atgggaacac atgcaaccat gaaaattcaa ggccgcatgg
3361 ttggcgggca gatgggtatg ttgctcactg gatcaaatgc taaaggaatg gatttgggaa
3421 caactcctgg tgactgtggc tgtccttaca tctataaaag gggcaatgac tatatagtca
3481 ttggggtgca cactgcagcg gcccgtggtg gaaacaccgt catctgtgcc acacagggaa
3541 gtgagggtga ggcaactctt gagggtggag atgacaaagg aacatactgt ggggcaccca
3601 ttttaggccc tgggggtgca ccaaaattga gtaccaaaac caaattttgg aggtcatcga
3661 acacgcccct tccaccaggg acatatgaac ctgcctacct cggtggccgt gatccgcgtg
3721 ttaagggtgg gccctccttg cagcaggtaa tgagagacca gttgaagcca ttcactgaac
3781 ccaggggcaa acctccaaga ccaagtgtat tggaagcagc caaacaaacc attatcaatg
3841 ttctcgaaca aaccctggac cctccacaaa aatggacata cgcacaggcg tgtgcctcac
3901 ttgacaaaac cacctccagc gggcatcccc atcacgtccg aaagaatgaa ttctggaatg
3961 gtgagacctt cactggtaaa ttggcagacc aagcatcaaa agcaaaccta atgtttgagg
4021 aagggaaaca catgacacca gtgtatacag cagcactcaa ggacgagcta gtcaagactg
4081 agaaaatcta tggaaagatc aagaaaagac tgctctgggg ctctgacttg tccaccatga
4141 tccggtgcgc taggtcattt ggtgggctca tggacgagat gaaggcacac tgcatatcac
4201 tcccagtacg agttggcatg aatatgaatg aagatggccc aataatattt gagaaacatt
4261 ccagatacaa ataccactat gatgcagact actctcgttg ggattcaaca caacagaggg
4321 cagtactagc agcagccttg gaaatcatgg tcagattctc tgcagaacca caattggcac
4381 aaatagtcgc tgaggatcta ctggccccta gtgtagtaga tgtaggagac tttaaaatca
4441 caataaatga agggctccca tctggtgtgc catgcacttc tcaatggaac tccatcgcac
4501 actggctgct aactctctgt gccttgtctg aagtcaccaa actgtcccct gacattatac
4561 aagcaaattc catgttctca ttttacggtg atgacgagat tgtcagcacc gacataaaat
4621 tggatcctga acagttaacc gccaagttga aggagtacgg cctgaaacca acccgcccag
4681 acaagaccga gggacctctg atcatcagtg aagatttgaa cggactcact ttcctccgaa
4741 ggacggtgac tcgtgaccca gctggctggt ttggaaaact ggaccaaagt tcaattttga
4801 ggcagatgta ctggactaga ggaccaaatc atgaagatcc caatgagacg atgatacccc
4861 attctcaaag acccatacag ctcatggcac tgcttggtga agcctctctt cacggaccct
4921 ctttctacag tagaatcagt aaattggtca taaccgaact caaagaaggt gggatggact
4981 tttacgtgcc aaggcaggaa cccatgttca ggtggatgag gttttctgac ttgagcacgt
5041 gggagggcga tcgcaatctg gctcccaatt ttgtgaatga agatggcgtc gagtgacgcc
5101 aacccatctg atgggtccgc agccaacctc gtaccagagg tcaacaatga ggttatggct
5161 ttggagcccg ttgttggtgc cgctattgcg gcacctgtag cgggccaaca aaatgtaatt
5221 gacccctgga ttagaaataa ttttgtacaa gcccctggtg gggagtttac agtgtcccct
5281 agaaacgctc caggtgaaat actatggagc gcgcccctag gccctgacct aaatccctac
5341 ctatcccatt tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt
5401 ctcgcgggga acgcgttcac cgccggaaag attatatttg cagcagtccc accaaatttt
5461 ccaactgaag gcttaagtcc tagccaggtc actatgttcc cccatataat agtagatgtt
5521 agacaattag aacctgtgct gattccctta cccgatgtta ggaataattt ctatcattat
5581 aatcagtcaa atgactccac tattaagttg atagcaatgt tgtatacacc actcagggct
5641 aataatgctg gagatgatgt tttcacggtt tcgtgccgag ttctcacgag accatccccc
5701 gattttgatt tcatattttt agtgccaccc acagttgagt caagaactaa accattctct
5761 gtcccagttt tgactgttga ggagatgacc aattcaagat tccccatccc tttggaaaag
5821 ttgttcacag gccccagcag tgcctttgtt gttcaaccac aaaacggcag gtgcacaact
5881 gatggcgtgc tcctaggcac cacccaactt tctcctgtca acatctgcac cttcagaggg
5941 gatgtcaccc acatcacagg tagtcgcaac tacacaatga atttggcttc tcaaaattgg
6001 aataactatg acccaacaga agaaatccca gcccctctag gaactccaga ttttgtgggg
6061 aagattcaag gcatgctcac ccaaaccaca aggacagatg gttcaacacg cggccacaaa
6121 gctacagtgt acactgggag cgctaacttt gctccaaaac tgggtagagt tcaatttgaa
6181 actgacacag accatgattt tgaagctaat caaaacacaa agttcacccc agtcggtgtc
6241 atccaagatg gtagcaccac ccaccgaaac gaaccccaac agtgggtgct cccaagttac
6301 tcaggcagaa atactcacaa tgtacatttg gcccccgctg tagcccccac ctttccgggt
6361 gagcaacttc tctttttcag atccaccatg cccggatgca gcgggtaccc caacatggat
6421 ttggactgtc tgctccccca ggaatgggtg cagtacttct accaagaggc agccccagca
6481 caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag
6541 tgcaagcttc acaaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt
6601 atccccccca atggttactt taggtttgat tcctgggtca accagttcta cacgcttgcc
6661 cccatgggaa atggaacggg gcgtagacgt gtagtataat ggctggagct ttctttgctg
6721 gattggcatc tgatgtcctt ggctctggac ttggttccct tatcaatgct ggggctgggg
6781 ccatcaacca aaaagttgaa tttgaaaata acagaaaatt gcaacaagca tccttccaat
6841 ttagcagcaa tctgcaacag gcttcctttc aacatgataa agagatgctc caagcacaaa
6901 ttgaggccac caaaaagcta caacaggaaa tgatgaaagt taagcaggca atgctcctag
6961 agggtgggtt ctctgagaca gatgcagccc gcggggcaat taacgccccc atgacaaaag
7021 ctttggactg gagcgggaca aggtactggg ctccagatgc taggattaca acatacaatg
7081 caggccactt ttccactcct caaccatcga gggcactgcc aggaagagct aatcttaggg
7141 atgctgtccc tgctcgggga ccctccaacc aatcttctaa ctcttctact gctacctctg
7201 tgtactcaaa tcaaactatt tcaacgagac ttggttctac agctggttct ggaaccagtg
7261 tctcgagcct cccgtcaact gcaaggacta ggagctgggt tgaggatcaa aataggaatt
7321 tgtcaccttt catgaggggg gcccacaaca tatcatttgt caccccacca tctagcagat
7381 cctctagcca aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg
7441 ctttcaacac gcgcaggcag cctctcttcg ctcacattcg taagcgaggg gagtcacggg
7501 tgtaatgtga aaagacaaaa ctgattattt ttctttttct tttctttagt gtcttttaaa
7561 a
//