Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW661259 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MW661259 7593 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-092 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661259
VERSION MW661259.1
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 7593)
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JOURNAL Unpublished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 7593)
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..7593
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-092"
/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="QSD58396.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARS
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEQEPVVRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNEPETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVVTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALDIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
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="QSD58397.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
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="QSD58398.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPSIKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggtccaaaca gcctgccccg agagacgaac cacaaaagcc accaagacca
181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaacaa
241 gaaccagtcg 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 tcaacggaga ggcgtttcct
601 tacaccgcct tcgacaacaa ctgctacgcc ttttgctgct gggtgttaga cctcaatgac
661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag
721 tggaacagaa aaccccttcc taccatggat gactccaaaa taaagaaggt agcaaatata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccattaa atatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattacttgc cgaactcttc ggagttttct ggacaccccc agatgtgtct
961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt
1021 gaactcgtac ctgtggtaat gggagggatt ggcttggtgt tgggattcac caaagagaaa
1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc
1141 tatggcttag agatacttaa attggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca
1321 ctggacatgg aggaggagaa agccagaagg ttatccacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg
1441 gccaaggaag agctatctag caggatgaga ccagtagtcg ttatgatatc tggcaaacca
1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca
1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa
1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt
1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat
1741 aagggaaagg tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc
1801 ccacttgatt atgtcaactt tgaggcttgt tccaggagaa ttgacttcct ggtgtacgct
1861 gaggcaccag aagtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag
1921 gacgctttca agccggactt ttcacacatc aagcttcagc ttgcacctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt
2101 cccacaatca ccacttttaa tttcgaccgg aacagaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggact gatggatacc atgaaagttg gcaatcaact aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatc aggaacgtga ccatcaagag gtgccgaatc
2281 atctacggcg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 agggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct ccaccatctc
2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt agatcaaaat gaaccagaga ctaaggaaga ggcccccaag
2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc
2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat
2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag
2761 gagtaccttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa
2821 gaagacttct gtgaagagga ggagatcaaa attcgtcaga gaattttccg tcccaccagg
2881 aaacaaagaa aggaagagag ggccacatta gggctggtga caggttcaga aatcagaaaa
2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ctgatgacaa cagaagtgtt
3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgtg
3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa
3181 tcaggtgaat tttgccgatt caggttccca aaaccaatta gaccagatgt gacaggaatg
3241 atcttggaag aaggtgcgcc tgaaggcacc gtggtaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc
3361 cgcatggttg gcggacagat gggtatgttg ctcaccggat caaacgctaa aggaatggat
3421 ttgggaacaa ctcctggtga ctgtggctgc ccttacattt ataaaagggg caatgactat
3481 atagtcatcg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactctcgag ggtggagacg 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 acaaaccatt
3841 atcaatgttc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgcccgaaa gaatgaattc
3961 tggaatggtg agaccttcac tggcaaattg gcagaccaag catcaaaagc 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 aatatttgaa
4261 aaacattcca gatataaata ccactatgat gcagactact ctcgttggga ttcaacacaa
4321 cagagggcag tactggcagc agccttggac atcatggtta gattctctgc agaaccacaa
4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt
4441 aaaatcacaa taaatgaggg gctcccatct ggtgtgccat gcacttctca atggaactcc
4501 atcgcacact ggctgctaac cctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accccgaaca gttaaccgcc aaattgaagg agtacggcct gaagccaacc
4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcactttc
4741 ctccgaagga cggtgactcg tgatccagct ggctggtttg gaaaactgga ccaaagttca
4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg
4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctacagtag aatcagcaaa ttggtcataa ctgaactcaa agaaggtggg
4981 atggactttt 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 gcgaaatact atggagcgcg cccctaggcc ctgacctgaa
5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtagttctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc
5461 aaattttcca accgaaggct taagtcctag ccaggtcact atgttccccc atataatagt
5521 agatgttaga caattagaac ctgtgctaat tcccttaccc gatgttagga ataatttcta
5581 tcattacaat cagtcaaatg actccactat taagttgata gcaatgttgt atacaccact
5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt
5821 ggaaaagttg ttcacaggcc ccagcagtgc ctttgttgtt caaccacaaa acggcagatg
5881 cacaactgat ggcgtgctcc taggcactac 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 ccacaaagcc acagtgtata ctgggagcgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccggt
6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc
6301 aagttactca ggcagaaata ctcacaatgt acatttggcc cccgctgtag cccccacctt
6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcatactg gccaacatga
6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc
6841 ttccaattta gcagcaattt gcaacaggct tctttccaac atgataaaga gatgctccaa
6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg
6961 ctcctagagg gtggtttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggctc cagatgctag gattacaaca
7081 tacaatgcag gccacttttc cacccctcaa ccatcgaggg cactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggaccc tccatcaaat cttccaactc 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 tcacgggtat aatgtgaaaa gacaaaattg attattttct ttttcctttt ctttagtgtc
7561 ttttaaaaaa aaaaaaaaaa aaaaaaaaaa aaa
//