Typing tool
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Typing tool
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Complete norovirus genomes
| MW661248 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5098
ORF2: 5079..6701
ORF3: 6701..7507
LOCUS MW661248 7550 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH13-039 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW661248
VERSION MW661248.1
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 7550)
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JOURNAL Unpublished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 7550)
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..7550
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH13-039"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada: Ottawa"
/collection_date="2013-01-15"
/note="Viral RNA extracted from fecal samples;
genotype: GII.4_Sydney_2012_GII.P31(GII.Pe)"
gene <1..5098
/gene="ORF1"
CDS <1..5098
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QSD58363.1"
/translation="KMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPK
QPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEE
TNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISL
AKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKL
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELA
KKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMS
DLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRC
ARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCL
KPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGP
GSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..988
/gene="ORF1"
/product="p48"
mat_peptide 989..2086
/gene="ORF1"
/product="NTPase"
mat_peptide 2087..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58364.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6701..7507
/gene="ORF3"
CDS 6701..7507
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58365.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSDTDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NFSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gaagatggcg tctaacgacg cttccgctgc cgctgttgcc aacagcaaca acgacatcgc
61 aaaatcttca agtgacggtg tgttttctaa catggctgtc acttttaagc gggccctcgg
121 ggcgcggcct aaacagccgc ccccgaagga aataccaccc agacccccgc gaccacccac
181 accagaattg gtcaaaaaga tccctcctcc cccacccaac ggggaggatg aactagtggt
241 ctcttacagc gccaaagatg gcgtttccgg actgcctgag ctcaccactg tcagacaacc
301 ggaagaaacc aacacggcgt tcagtgtccc cccactcaac caaagggaga gcagggacgc
361 caaggagcca ctgactggaa caatcattga aatgtgggat ggagaaatct accattacgg
421 cctgtacgtg gagcgaggtc ttgtacttgg tgtgcacaag ccaccggcag ccattagcct
481 tgccaaggtc gagctagcac cgctctcttt gttctggaga cctgtataca ccccccagta
541 tctcatctct ccagacactc ttaggagatt acatggagag tcattcccct acactgcatt
601 tgacaacaat tgctacgcct tttgttgttg ggtattagac ctaaacgact catggctaag
661 caggagaatg attcagagaa caacaggttt cttcaggccg taccaggatt ggaacaggaa
721 acccctcccc actatggatg attccaaatt aaagaaggta gccaacatat tcttgtgcac
781 tttgtcttca ctattcacca gacccattaa ggacataata ggaaagttga aacctcttaa
841 catccttaat attctggcta catgtgattg gaccttcgca ggcatagtgg aatccttaat
901 actcttggca gaactctttg gagttttctg gacaccccca gatgtgtctg cgatgatcgc
961 ccccttgcta ggtgattatg aactgcaagg acctgaggac cttgcagtgg aactggtccc
1021 aatagtgatg ggggggatag gtttggtgct aggatttacc aaagagaaaa tcggaaagat
1081 gctatcatcc gctgcatcca ctttaagagc ttgtaaagac cttggtgcat acggactgga
1141 aatcttaaaa ttggtcatga agtggttctt cccaaagaaa gaggaagcaa atgaactggc
1201 tatggtgaga tccatcgagg atgcagtact agacctcgag gcaattgaaa acaaccacat
1261 gaccacccta ctcaaagaca aagacagctt agcaacctac atgagaaccc ttgaccttga
1321 ggaggagaaa gccagaaaac tctcaaccaa atctgcttca cccgatattg tgggcacaat
1381 caactctctt ctggcaagaa tcgctgctgc acgctcccta gtgcatcggg cgaaagaaga
1441 gctctccagc aggccgagac ctgtcgttgt gatgatatcg ggaagaccag ggatagggaa
1501 aactcacctt gccagggagc tggccaagaa gatcgcggcc tccctcacag gggaccagcg
1561 tgtgggtctt atcccacgca atggtgtcga ccactgggac gcatacaagg gcgaaagagt
1621 tgtcctatgg gacgactatg gaatgagcaa ccccatccat gatgccctca ggttgcagga
1681 gcttgctgac acttgccccc ttacgctaaa ttgtgacaga attgagaaca aagggaaagt
1741 ctttgacagt gatgccataa ttatcaccac caatctggcc aacccagcac cactggatta
1801 tgtcaacttt gaagcgtgct cgagacgcat tgacttcctc gtgtacgcag aagcccctga
1861 ggtggagaag gcaaagcgcg acttcccagg tcaacctgac atgtggaaga acgctttcag
1921 tcctgacttc tcacacataa aactgtcatt ggctccacag ggtggttttg acaagaacgg
1981 caacaccccg catggaaaag gggtcatgaa gaccctcacc actggctccc tcatcgcccg
2041 agcatcaggg ttactccatg agaggctaga tgaatatgaa ctgcaaggcc cagccctcac
2101 cactttcaac tttgaccgca acaagatact tgcttttaga cagcttgctg ctgaaaacaa
2161 gtatgggctg atggacacaa tgagagttgg aaaacagctc aaggatgtca agaccatgtc
2221 agacctcaaa caagcactca agaacatcgc gatcaagaag tgccagatag tgtacaatgg
2281 tagcacctac acacttgagg ctgatggcaa gggtagtgtg aaagttgaca aagtgcagag
2341 tgccactgtg cagaccaaca atgaactagc cggtgcccta caccacctaa ggtgcgctag
2401 aatcagatac tatgttaagt gcgtccagga ggcactatat tccatcatcc aaatcgctgg
2461 ggctgcattc gtcaccacgc gcatcgctaa gcgcatgaat atacagaatc tctggtccaa
2521 gccacaggtg gaagacacag aagagatggc caacaaagat ggttgcctaa aacccaaaga
2581 tgatgaagag tttgtcgtct catccgacga catcaaaact gagggcaaga aagggaagaa
2641 caagtccggc cgtggcaaga agcacacagc cttctcaagc aaagggctca gtgatgagga
2701 gtacgatgag tacaagagaa tcagagaaga aaggaatggt aagtactcca tagaagagta
2761 ccttcaggac agagacaggt actacgagga ggtggccatt gccagggcaa ccgaagagga
2821 cttctgtgaa gaagaagagg ccaaaatccg gcagagaatt ttcagaccaa caaggaaaca
2881 acgcaaagaa gagagggcct ctctcggctt ggtcacaggc tctgaaatca ggaagagaaa
2941 cccagaagac ttcaaaccca agggaaagtt gtgggctgat gatgacagaa gtgttgacta
3001 caatgagaaa ctcaactttg aggccccacc aagcatctgg tcgcggatag tcaactttgg
3061 ttcaggctgg ggcttctggg tctcccccag tctgtttata acatcaaccc atgtcatacc
3121 ccaaggtgca aaagagttct tcggagtccc tatcaagcaa atccagatac acaaatcagg
3181 tgaattctgc cggttgagat tcccaaagcc aattagaact gatgtgacgg gcatgattct
3241 agaagaaggt gcgcccgagg ggaccgtggc cacactgctc atcaagagac caactggaga
3301 gctcatgcct ctggcagcca gaatggggac ccatgcaacc atgaaaattc aggggcgcac
3361 agttggaggg caaatgggta tgctcctgac aggatccaac gccaagagta tggacctagg
3421 cacaacacca ggcgactgcg gctgccccta catctacaag agggggaatg actacgtggt
3481 cataggagtc catacggccg ctgcccgtgg aggaaacact gtcatatgtg ccacccaggg
3541 gagtgaggga gaagccacac ttgaaggagg tgacagtaaa gggacatact gtggcgcacc
3601 aatcttgggc ccagggagcg ctccgaagct cagtaccaag actaagtttt ggagatcatc
3661 cacaacacca ctcccacctg gcacctacga accagcctac ctcggtggca gagaccctag
3721 agtcaaaggt ggcccttcat tgcaacaagt tatgagggac cagctgaagc cattcacaga
3781 acccagaggc aaaccaccaa gaccaaatgt gttggaagct gccaagaaaa ccatcatcaa
3841 tgtccttgag caaacaattg atccacccca aaaatggtca tttgcgcaag cttgcgcatc
3901 ccttgacaaa accacctcca gcggccaccc gcaccacatg cggaaaaacg actgttggaa
3961 tggggagtcc ttcacaggaa aattggctga tcaagcctcc aaggccaacc taatgtttga
4021 agagggaaag aacatgactc cagtttacac aggtgcactt aaagatgagt tggtaaagac
4081 cgataaagtt tatggtaagg tcaagaagag gcttctgtgg ggttcagatc tggcgaccat
4141 gatacggtgc gcccgagctt ttggaggcct tatggatgaa ctcaaggcac actgtgtcac
4201 acttcctgtc agagttggta tgaacatgaa tgaggatggc cccatcatct ttgagaagca
4261 ctccagatat agatatcact atgatgctga ttattcccgg tgggactcaa cacaacaaag
4321 ggatgtgcta gcagcagcac tagaaatcat ggttaagttc tctccagaac cacacctggc
4381 ccagatagtt gcagaagacc tcctttcccc tagcgtaatg gatgtaggtg actttcaaat
4441 atcaataagt gagggtctcc cctctggggt accttgtacc tcccagtgga attccatcgc
4501 ccactggctc ctcactctgt gtgcactctc tgaagtcacg gacctgtccc ctgatatcat
4561 tcaggccaac tcccttttct ccttctatgg tgatgatgag attgtaagca cagacataaa
4621 gttggaccca gagaagctga cagcaaaact caaggagtac gggctgaaac caacccgccc
4681 cgacaaaact gaaggacccc ttgttatctc tgaagacctg gatggcctga cattcctccg
4741 gagaactgtg acccgtgatc cagctggctg gtttggaaaa ttggaacaaa gttcaattct
4801 caggcaaatg tactggacca ggggtcccaa ccatgaagat ccatttgaaa caatgatacc
4861 acactcccaa agacccatac aattgatgtc cttgctgggc gaggctgcac tccacggccc
4921 ggcattctat agtaaaatta gcaaattagt cattgcagag ttgaaggaag gtggcatgga
4981 tttttacgtg cccagacaag agccaatgtt cagatggatg agattctcag atctgagcac
5041 gtgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgagtgacg
5101 ccaacccatc tgatgggtcc gcagccaacc tcgtcccaga ggtcaacaat gaggttatgg
5161 ctctggagcc cgttgttggt gccgccattg cggcacctgt agcgggccag caaaatgtaa
5221 ttgacccctg gattagaaat aattttgtac aagcccctgg tggagagttt acagtatccc
5281 ctagaaacgc tccaggtgaa atactatgga gcgcgccctt gggccctgat ctaaatccct
5341 acctatccca tttggccaga atgtacaatg gttatgcagg tggttttgaa gtgcaggtaa
5401 ttctcgcggg gaacgcgttc accgccggga aggtcatatt tgcagcagtc ccaccaaatt
5461 ttccaactga aggcttgagc cccagccagg tcactatgtt cccccatata gtagtagatg
5521 ttaggcaact agaacctgtg ttgattccct tacccgatgt taggaataat ttctatcatt
5581 acaatcaatc aaatgacccc accattaagt tgatagcaat gttgtataca ccacttaggg
5641 ctaataatgc tggggatgat gtcttcacag tttcttgccg agttctcacg agaccatccc
5701 ccgattttga tttcatattt ctagtgccac ccacagttga gtcaagaacc aaaccattct
5761 ctgtcccagt tttaactgtt gaggagatga ccaattcaag attccccatt cctttggaaa
5821 agttgttcac gggtcccagc agtgcctttg ttgtccaacc acaaaacggc aggtgcacga
5881 ctgatggcgt gctcctaggc accacccaac tgtctcctgt caacatctgc accttcagag
5941 gagatgtcac ccatatcaca ggtagtcgta actacacaat gaatttggct tctcaaaatt
6001 ggaacaatta tgacccaaca gaagaaatcc cagcccctct aggaactcca gattttgtgg
6061 ggaagattca aggcgtgctc acccaaacca cgaggacaga tggctcaaca cgtggccaca
6121 aagctacagt gtacactggg agcgccgact ttgctccaaa actgggtaga gttcaatttg
6181 aaactgacac agaccatgat tttgaagcta accaaaacac aaagttcacc ccagttggtg
6241 tcatccaaga tggtagcacc acccaccgaa atgaacccca acagtgggtg ctcccaagtt
6301 actcaggcag aaatactcct aatgtgcatc tggcccctgc tgtagccccc acttttccgg
6361 gtgagcaact tctcttcttc agatccacca tgcccggatg cagcgggtac cccaacatgg
6421 atttggactg tctgctcccc caggaatggg tgcagtactt ctaccaagag gcagccccag
6481 cacaatctga tgtggctctg ctaagatttg tgaatccaga cacaggtagg gttttgtttg
6541 agtgtaagct tcataaatca ggctatgtta cagtggctca cactggccaa catgatttgg
6601 ttatcccccc caatggttat tttaggtttg attcctgggt caaccagttt tacacgcttg
6661 cccccatggg aaatggaacg gggcgtagac gtgcactata atggctggag ctttctttgc
6721 tggactggca tctgatgtcc ttggctccgg acttggttcc ctcatcaatg ctggggctgg
6781 ggccatcaac caaaaagttg agtttgaaaa taacagaaaa ttgcaacaag catccttcca
6841 atttagcagc aatctacaac aggcttcctt tcaacatgac aaagagatgc tccaagcaca
6901 aattgaggcc accaaaaggc tacaacagga aatgatgaaa gttaagcagg caatgctcct
6961 agagggtggg ttctctgaca cagatgcagc ccgcggggca atcaacgccc ccatgacaaa
7021 agctttggac tggagcggga caaggtactg ggctcccgat gctaggacta caacatacaa
7081 tgcaggccgc ttttccaccc ctcaaccatc gggggcactg ccaggaagag ctaatcttag
7141 ggatgctgtc cctgctcggg gttcctccag caagtcttct aatttttcta ctgctacttc
7201 tgtgtattca aatcaaacta cttcaacgag acttggttct acagctggtt ctggtaccag
7261 tgtctcgagc ttcccgtcaa ctgcaaggac taggagctgg gttgaggatc aaagtaggaa
7321 tttgtcacct ttcatgaggg gggcccacaa catatcgttt gtcaccccac catctagcag
7381 atcctctagc caaggcacag tctcaaccgt gcctaaagag gttttggact cctggactgg
7441 tgctttcaac acgcgcaggc agccactctt cgctcacatt cgtaagcgag gggagtcacg
7501 ggcgtaatgt gaaaagacaa aattgattat ctttctttct ctttagtgtc
//