Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW661270 | GII.1 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6691
ORF3: 6691..7464
LOCUS MW661270 7544 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-112 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661270
VERSION MW661270.1
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 7544)
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JOURNAL Unpublished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 7544)
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..7544
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-112"
/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.1_GII.P16"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QSD58429.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGVSGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
TPKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
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..6691
/gene="ORF2"
CDS 5084..6691
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58430.1"
/translation="MRMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT
QLVPSNICALRGRINAQVPDDHHQWNLQVTNANGTPFDPTEDVPAPLGMPDFLANIYG
VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEERDLDLNQPTRFTPVGLYDT
SHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLKGGTSNGAIDCLLPQ
EWVQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6691..7464
/gene="ORF3"
CDS 6691..7464
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58431.1"
/translation="MAGAFVAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRYWAPGATKTTAFSGGFTSSPNTRTVDLPRKTSTTPAPTPISRPNSSASTVSTRSTI
VSGTSGLSSLTRSSFNSQPTSSSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSRAS
SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc cccaagacca
181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaagaa
241 gaaccagtca ttaggtatga ggttaagagt ggggtctctg gcctgcccga gctcacaaca
301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga tggagagata
421 taccactacg gcctatacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggagttgaca ccgctgtcat tgtattggcg tgtggtgtac
541 actccccaat acctcatttc ccctgaaact cttaggaggc tcaacggaga ggcattccct
601 tacaccgcct tcgacaataa ctgctatgcc ttttgctgtt gggtgttgga cctcaatgac
661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag
721 tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt ggcaaacata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccattaa acatattgaa catcctggcg acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct
961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccggaaga cctcgccgtt
1021 gagctcgtac ctgtggtaat gggagggatt ggtttagtgt tgggattcac caaagagaaa
1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc
1141 tatggcttag agatattaaa attggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca
1321 ctggacatgg aggaagagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgctct gctggctcga atagcagcgg ccaggtcatt agttcacagg
1441 gccaaggaag agctatctag caggataaga ccagtagttg 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 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc
1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct
1861 gatgcaccag aagtggaaaa ggcaaaacgg gactttcctg gtcagccaga tatgtggaag
1921 gacgccttca agccggactt ttcacacatc aagctacaac ttgcacctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt
2101 cccacaatca ccaccttcaa tttcgaccgg aacagaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaatcaact aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggatc
2281 atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc
2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt agatcaaaac gaatcagaga ctaaggaaga gactcccaag
2581 ccagaagatg acgagttcat catatcttct aaggatatca aggaggaagg aaagaagggc
2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagtgat
2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag
2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa
2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg
2881 aaacaaagga aggaagagag ggccacatta gggctagtga caggctcaga aatcagaaaa
2941 agaaaccctg atgacttcaa acccaaaggg aagctatggg ccgatgacaa cagaagtgtt
3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aactcatgta
3121 atccccgctg gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa
3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg
3241 atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc
3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa aggaatggat
3421 ttgggaacaa ctcctggtga ctgtggctgt ccttacatct ataaaagggg caatgactat
3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacccatac taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg
3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat
3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagatcagtt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa acaaaccatt
3841 atcaatgtcc ttgaacaaac cctggaccct ccacaaaaat ggtcatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc
3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctaatg
4021 tttgaggaag ggaaacatat gacaccagtg tatacagcag ctctcaagga cgagctagtc
4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc
4141 accatgatcc ggtgcgccag atcatttggt gggctcatgg acgagatgaa ggcacactgc
4201 ataacactcc cagtgcgagt tggcatgaat atgaatgaag atggcccaat aatatttgag
4261 aaacattcca gatacaaata tcactatgat gcagactact ctcgttggga ttcaacacaa
4321 cagagggcag tattagcagc agccttggaa atcatggtca gattctctgc agaaccacaa
4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt
4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccgt gcacttccca gtggaactcc
4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccaacc
4681 cgtccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca
4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg
4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctctccac
4921 ggaccctctt tctacagtaa aatcagtaaa ttggtcataa ctgaactcaa agagggtggg
4981 atggattttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg
5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgagga tggcgtcgaa
5101 tgacgccgct ccatctaatg atggtgcagc cggtctcgta ccagaggtca acaacgagac
5161 gatggcactt gagccggtgg ctggggcctc tatagctgcc cctttgaccg gccaaaataa
5221 tgtgatagac ccctggatta gaatgaattt tgtccaagct ccaaatggtg aatttacagt
5281 gtccccccgt aattccccag gtgaagtgtt gttgaatttg gaattaggcc ctgaactaaa
5341 tccattcttg gcacatcttt caagaatgta taatggttat gctggtgggg ttgaagtgca
5401 ggtgctactt gctgggaatg cgttcacagc aggaaaacta gtgttcgcgg caatcccccc
5461 gcatttccct cttgagaatc tgagtcctgg tcaaattaca atgttccctc acgtgattat
5521 tgatgttaga actttagaac ctgttctctt gcctttacca gatgttagga ataatttctt
5581 tcactacaat cagcagcctg agccccgtat gagacttgtg gccatgttgt atactcctct
5641 tagatctaat ggctctggtg atgatgtgtt cacggtctct tgtagggttc tcacccgccc
5701 ctctccagat tttgatttca attatttggt tcccccaact gtggaatcta aaactaaacc
5761 attcaccctg ccaatattga ccattggaga gttgtcaaat tctaggttcc cagtgccaat
5821 agatgaattg tataccagcc ccaatgaagg agtggttgtg caacctcaaa atggcagatc
5881 aacacttgat ggtgaactgc ttggtacaac acaacttgtg ccatcaaaca tctgtgcctt
5941 gcgagggcgc atcaacgccc aagtgccaga cgaccaccat caatggaact tgcaggttac
6001 aaacgcaaat gggactccct tcgaccccac tgaagatgtc cctgcaccat tgggcatgcc
6061 agacttcttg gcaaacatct atggagttac tagccagagg aaccctgaca acacttgccg
6121 tgcccatgat ggggtcttgg caacctggag ccctaaattt acacctaagt tagggtctgt
6181 ggttttgggt acttgggaag aacgagatct tgatctcaac caacccacca gattcacacc
6241 tgttggtttg tatgatacaa gccactttga tcagtggatt ctacccaact attctggaag
6301 attaacctta aacatgaatt tggcgccctc cgttgctccc cttttcccag gtgaacaaat
6361 actcttcttt aggtcccaca ttccacttaa aggaggcact tccaatggtg ccattgactg
6421 tctactccct caggagtggg tccagcattt ctatcaggaa tcagccccgt cacccacaga
6481 tgttgctctg attaggtaca ccaaccctga cacgggtcgt gtcctttttg aggccaaact
6541 acataggcag gggttcatca cagtagcaaa ttctggttct agacctattg ttgtcccccc
6601 taatggttat tttaggtttg attcctgggt taatcagttt tattctctcg cccccatggg
6661 aactgggaat gggcgcagaa gggtgcagta atggctggag cttttgtagc aggtcttgcc
6721 ggtgacatag tcaccaatag cattggttca cttgtaaacg ctggagccaa tgcaataaac
6781 caaaaagtag actttgaaaa caacaaacaa ctacagcagg cctctttcaa ccatgataag
6841 gaaatgttgc aagctcaaat tcaggctaca aaacaattac aggctgacat gattgcgctc
6901 agacaagggg tgttgaccgc aggcggcttc tcccctactg atgcagcaag aggggcggtt
6961 aatgcgccca tgacgcaagt cttggactgg aatgggacta ggtactgggc ccccggagcc
7021 accaaaacaa ctgctttctc cggtgggttc acaagctctc ccaataccag gactgttgat
7081 ttgcctagga aaacatcaac cacaccagcc cccacaccta tatccagacc taattcttct
7141 gcttctactg tttctacccg ctcaacaatt gttagcggga cttctggcct ttcttctttg
7201 actaggagct cttttaattc ccagcccacc tcctcttctt ctcggactag cgaatgggtg
7261 cgtagtcaaa acagggcgct ggagccctac atgaggggag cgctgcaaac tgcttacgtg
7321 acgcctccct ctagtagagc gtctagcaat ggcacagtct caaccgtgcc aaaagaagtt
7381 ttggactcct ggacatctgt gttcaacacc cacagacaac cgcttttcgc tcatctccgt
7441 cggagagggg agtcacaggt ttagtgaaaa gatggttttt ctttcttcca cttttctgaa
7501 atttccatct tttaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaa
//