Typing tool
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Typing tool
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Complete norovirus genomes
| MW661265 | GII.3 | |
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| GII.P12 |
ORF1: 4..5103
ORF2: 5084..6730
ORF3: 6730..7494
LOCUS MW661265 7581 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-100 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661265
VERSION MW661265.1
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 7581)
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JOURNAL Unpublished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 7581)
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..7581
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-100"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada: British Columbia"
/collection_date="2019"
/note="Viral RNA extracted from fecal samples;
genotype: GII.3_GII.P12"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QSD58414.1"
/translation="MKMASNDASAAAVANSNNDNAKSSSDGVLSSMAVTFKRALGARH
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPD
EANTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
FAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLCRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCAISSLFTRPIKDIIGK
VRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTIGSLIARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTM
PELKQALKNVAIKSCQIVYGGCTYRLESDGKGDVRVDRVQNATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEEINSKDGC
PKPQDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTSGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGRPPKPSVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLLEELKAHCVTLPVRVGMSMNEDGPIIFERHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 4..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..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..6730
/gene="ORF2"
CDS 5084..6730
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58415.1"
/translation="MKMASNDATPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVLLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTKSTSRASDQADTATPRFFDLSWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESGDFNQNQP
TRFTPVGIGVDDEADFQQWSLPDYSGRYTHNMHLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTVA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
gene 6730..7494
/gene="ORF3"
CDS 6730..7494
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58416.1"
/translation="MAGAFIAGLAGDILTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPSATSTTSMSGGFTSQVVHRTTPNFKMNQAPKPTPSSGSSVRSLSTQVTSLSS
HSSGSSRSSESTVASSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRGRGESNV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgctg ttgctaacag caacaacgac
61 aacgcaaaat cttcaagtga cggagtgctt tctagcatgg ctgtcacttt taaacgagcc
121 ctcggggcgc ggcataaaca gccccccccg agggaaacac cacagaggcc tccacggcca
181 cccaccccag aactggtcaa aaagatccct cctcccccac ccaacgggga ggacgagcta
241 gtggtctctt acagcgccaa agatggcgtt tctggcttgc ctgaacttac cactgtccgg
301 caaccggatg aggccaacac ggcgttcagt gttccccctc tcaaccagag ggagaacagg
361 gacgccaagg agccgctgac cggaacaatc ctggaaatgt gggacgggga gatataccat
421 tacggtctgt atgtggagcg aggtcttgta cttggtgtgc acaaaccacc agctgccatc
481 agcttcgcca aggttgaact ggcaccactc tctctatttt ggaggccagt gtacacacca
541 cagtacctca tctctccaga cactcttagg agactgcatg gagagtcgtt cccctataca
601 gcttttgaca acaactgcta tgccttctgt tgttgggtcc tggacctaaa cgactcgtgg
661 ttgtgcagga gaatgattca gagaacaact ggcttcttca gaccttacca agaatggaat
721 aggaaacccc tccccaccat ggatgactct aaattgaaaa aggtagccaa catattcttg
781 tgtgcgatat cctcgctatt cactaggccc atcaaagaca taataggaaa ggtgagaccg
841 ctcaacatcc ttaacatcct ggcctcatgt gattggactt ttgcaggcat agtggaatct
901 ttgatcctct tggcagagct ctttggagtt ttctggacac ccccagatgt gtctgcgatg
961 atcgccccct tactaggtga ctacgagctg caggggcctg aggaccttgc agtggaactc
1021 gtaccagtag tgatgggagg gattggtttg gtgttaggat tcaccaaaga gaagatcgga
1081 aaaatgttgt catctgctgc ttccacctta agagcttgta aagaccttgg tgcatacgga
1141 ctggaaatcc taaagttggt catgaaatgg ttcttcccaa agaaagagga agcaaatgag
1201 ctagctatgg tgaggtccat cgaggatgcg gtgctggacc tcgaagcaat tgagaacaat
1261 cacatgactg ccctcctcaa agacaaagac agtctggcaa cctacatgag gacccttgac
1321 ctcgaggagg agaaagccag gaagctttca accaagtctg cttcacctga catcgtgggc
1381 acaatcaacg ctcttctggc gagaatcgcc gctgcacgtt ccctggtgca tcgggcgaaa
1441 gaggaactct ccagcaggcc aagacctgtt gttgttatga tatcaggtag gccagggata
1501 gggaaaactc accttgcaag ggagctggcc aagaagatcg cagcttcgct cacaggggac
1561 cagcgcgtgg gcctcatccc tcgcaatggc gttgaccatt gggatgcata caagggagaa
1621 agagtcgtcc tatgggacga ttatgggatg agcaatccca tccacgacgc cctcaggtta
1681 caggaacttg ctgacacctg ccccctcacg ctaaactgtg acaggattga gaacaaagga
1741 aaggtctttg acagtgatgc cataatcatc accactaatc tagccaaccc agcaccattg
1801 gactatgtca actttgaagc atgctcgagg cgcattgact tcctcgtgta cgcagaagcc
1861 cctgaggtcg agaaagcaaa gcgtgacttc ccaggtcaac ctgacatgtg gaaggacgca
1921 tttagttctg acttctcgca cataaaactg gcgctggctc cgcaaggtgg tttcgacaag
1981 aacggaaaca ccccacacgg gaaaggcgtt atgaaaactc tcaccattgg ttccctcatc
2041 gcccgagcat cagggctact ccatgagagg ttagatgagt acgagctgca gggcccaact
2101 cccaccacct ttaattttga tcgcaacaag gtgcttgcgt tcagacaact tgctgccgaa
2161 aacaagtacg gattgttgga cacaatgaga gttggaaaac agctcaagga tgttaagacc
2221 atgccagagc tcaaacaggc actcaagaat gtcgcaatca agagttgtca gatagtgtat
2281 ggtggctgca cctacaggct tgagtctgat ggcaagggtg atgtaagagt tgacagagtt
2341 caaaacgcca ctgtacagac caacaatgag cttgccggcg cactacacca tcttagatgc
2401 gccagaatca gatattatgt caagtgtgtt caggaggccc tgtattccat catccaaatt
2461 gctggggccg catttgtcac cacgcgcatt gtcaagcgca tgaacataca agatctctgg
2521 tccaagccac aggtggagga tacagaggaa atcaatagca aggatggatg cccaaaaccc
2581 caggatgatg aagagtttgt tgtctcatcc gatgacatca aaaccgaggg caagaaaggg
2641 aaaaacaagt ctggccgtgg caagaagcac acagcattct caagtaaagg tctcagtgat
2701 gaagagtacg atgagtacaa aagaatcaga gaagaaagaa atggcaaata ctccatagag
2761 gaatacctcc aggacagaga caggtattat gaggaagtgg ccatcgccag ggcaaccgaa
2821 gaggacttct gtgaagaaga agaggccaag atccgacaga ggatcttcag gccaacaagg
2881 aaacaacgca aagaggagag agcttctctc ggtttggtca caggttctga aatcaggaag
2941 aggaacccag acgacttcaa gcctaaagga aagctgtggg ctgatgatga caggagtgtt
3001 gactacaatg agaggctcaa ttttgaagcc ccaccaagca tctggtcgag gatagtcaac
3061 tttggttcag gttggggctt ttgggtttcc cccagcctgt tcataacatc aactcatgtc
3121 ataccccagg gcgcacagga gttctttggt gtatccatca aacaaattca gatacacaag
3181 tcaggtgaat tctgccgctt gaggtttcca aagccgatca gaactgatgt gacaggcatg
3241 atcttagaag aaggtgcacc cgaaggaacc gtggccacat tactcatcaa aagaccaact
3301 ggagagctca tgcccctggc agccagaatg ggaacccacg caaccatgaa gatacaaggg
3361 cgcaccgttg gaggccaaat gggcatgctc ctaacaggat ccaacgccaa gagcatggat
3421 ctgggcacca catcaggtga ctgtggttgc ccctacattt acaagagggg gaatgactac
3481 gtggtcattg gggtccacac agccgccgcc cgcggaggaa acactgtcat ttgtgccacc
3541 caggggagcg agggagaagc cacacttgaa ggcggtgata gcaaggggac ctactgcggt
3601 gcaccaatct taggtccagg aagtgcccca aaactcagca ccaagaccaa gttctggagg
3661 tcatccacgg caccactccc acctggtacc tatgaaccag cttacctcgg cggcaaggat
3721 cccagagtca agggtggccc ttcactgcaa caagttatga gggatcaact gaaaccattc
3781 actgagccta ggggtaggcc accaaaacca agtgtgctag aagctgctaa gaaaaccatc
3841 gtcaatgtcc ttgaacagac aattgaccca cctcaaaaat ggtcgtttgc gcaggcatgc
3901 gcatcccttg ataagaccac ttctagcggt catccgcacc acatgcggaa gaacgactgc
3961 tggaacgggg agtccttcac aggaaaattg gcagaccagg cttccaaagc caacctgatg
4021 tttgaggagg gaaagaacat gacaccagtt tacacgggtg cgcttaagga cgagctggtc
4081 aagactgaca agatttatgg taagatcaaa aagaggcttc tctggggttc ggacctggcg
4141 accatgattc ggtgcgctcg agcattcggg ggtctgctgg aggaactcaa agcacactgt
4201 gtcacactac ctgttagggt aggtatgagt atgaatgagg atggccctat catctttgag
4261 agacactcta gatataaata tcattatgat gctgactact ctcggtggga ttcaacacaa
4321 caaagagccg tgttggcagc agccttagaa attatggtca agttttcccc agagccgcac
4381 ctggcccaaa aggttgcaga agaccttctt tctcccagcg tgatggacgt aggtgatttc
4441 aaaatatcaa tcaatgaggg tctcccctcc ggagtgccct gcacctccca atggaattcc
4501 atcgcccact ggctcctcac cctctgtgca ctctccgaag ttacaaacct gtcccctgac
4561 attattcagg ccaactctct cttttctttc tacggtgatg atgaaattgt gagtacagac
4621 ataaaattag acccagaaaa actgacagca aaacttaagg aatacgggtt gaaaccgacc
4681 cgccctgaca agactgaagg gcctcttgtc atttccgaag acctgaatgg cctaaccttc
4741 ctgcggagga ccgtgacccg tgacccagca ggctggtttg gaaagttgga acagagctcg
4801 atactcagac aaatgtactg gactaggggc cccaaccatg aagatccatc tgaaacaatg
4861 ataccacact cccagaggcc catacaattg atgtctttgc tgggtgaggc agcactccac
4921 ggcccagcat tctacagtaa aatcagcaaa ctggtcattg cagagttgaa ggaaggtggc
4981 atggattttt acgtgccaag acaagagcca atgttcagat ggatgagatt ctcggatctg
5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgaa
5101 tgacgccact ccatctaatg atggtgccgc cggcctcgtc ccagagatca acaatgaggc
5161 aatggcgcta gaaccagtgg cgggtgcagc gatagcagca cccctcactg gccagcaaaa
5221 tataattgat ccctggatta tgaataattt tgtgcaagca cctggtggtg agttcacagt
5281 gtctcctagg aattcccctg gtgaagtgct cctcaatttg gaattgggcc cagagataaa
5341 cccctatctg gcccatcttg ctagaatgta taatggttat gcaggtgggt ttgaagtgca
5401 ggtactccta gctggaaatg cgtttacagc aggaaagata atctttgcag ctataccccc
5461 taacttccca attgacaatc taagtgcagc acagatcaca atgtgtccac atgtgattgt
5521 ggatgtcagg cagttggaac cggtcaacct cccgatgcct gacgttcgca ataacttctt
5581 ccactacaac caagggtctg attcgagatt gcgcttggtt gcgatgctgt acacacctct
5641 tagggcaaat aactctgggg atgatgtttt cactgtgtct tgtagggtgt tgactagacc
5701 tagccctgaa ttttcattta acttccttgt gccacccact gtggagtcaa agacaaaacc
5761 ctttaccctc ccaattctga ctatttctga aatgtctaat tctaggtttc cagtgccgat
5821 tgattccctg cacaccagcc caactgagaa tattgttgtc cagtgccaaa atggacgcgt
5881 cactcttgat ggtgagttga tgggcaccac tcagctctta cctagtcaaa tctgtgcttt
5941 caggggcgtg ctcactaaat caacaagcag ggctagtgac caggccgaca cagcaacccc
6001 tagattcttt gatctttctt ggcacataca attggataat ctaaatggga ctccttatga
6061 tcccgcagaa gacataccag gccccctggg gacaccagat ttccggggca aagtcttcgg
6121 cgtggccagc caaagaaacc ccgacagtac aactagagca catgaagcaa aagtggacac
6181 aacagctggt cgcttcaccc caaaactagg ctcattagag atatccactg aatctggtga
6241 ctttaaccaa aatcaaccaa caagattcac cccagttggc attggggttg acgacgaggc
6301 agacttccaa caatggtcct tacccgacta ctctggccgg tacactcaca acatgcactt
6361 agccccagct gttgctccca acttccctgg tgagcagctc cttttctttc gctcacagtt
6421 accatcttct ggtgggcgat ccaatgggat tctagactgc ctggtccccc aagaatgggt
6481 tcagcacttc taccaagaat cagcccccgc ccaaacccag gtggctctgg ttagatatgt
6541 caaccctgac actggtagag tgttgtttga ggcaaagctg cacaaattag gcttcatgac
6601 tgtagctaag aatggtgact ctccaataac tgtcccccca aatggatact ttaggtttga
6661 atcttgggtg aacccatttt atacacttgc ccccatggga actgggaatg ggcgtagaag
6721 agttcaataa tggctggagc ttttatagca ggattagctg gtgatatact cacaaatact
6781 gtagggtctc tagttaatgc aggggctaat gctattaatc aaaaagttga ttttgaaaat
6841 aataaatatt tgcaaaatgc ttccttcaat catgataagg aaatgttaaa tgcacagatt
6901 gaggcaacaa agaggttaca ggctgacatg attgctatca aacagggggt tttgactgct
6961 ggcggctttt cccccactga tgcagctcgc ggggcaatta atgcccccat gacaaaagtc
7021 ctagattgga gtggaacaag gtactgggca ccgagtgcca cctctacaac ctcgatgtcg
7081 ggtggcttca caagccaggt tgtgcacaga accacaccaa attttaaaat gaaccaggcc
7141 cccaaaccca cacccagcag tgggtcttca gtgaggtcac tctcaaccca agtcactagt
7201 ctgagctcac actcgtccgg gtcgtctcga tccagcgagt ctacagttgc tagctcatta
7261 ccatcctcta acaggactag ggactgggtc aatcagcaaa attttaattt ggaaccacac
7321 atgcctggat cacttaggac ggcttttgtc actccaccat ctagtacagc ctctagttca
7381 ggcactgtct cgaccgtgcc caaaaatgtt ttggactcct ggacatctgc gtttaacacg
7441 cgcagacagc cgctattcgc acaccttcgt ggaagggggg agtcaaatgt ttagtgaaaa
7501 gattatttta aatttgattt aaattggatt tgatttggaa tcttttaaaa aaaaaaaaaa
7561 aaaaaaaaaa aaaaaaaaaa a
//