Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW661268 | GII.1 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 2..5101
ORF2: 5082..6689
ORF3: 6689..7462
LOCUS MW661268 7526 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH19-110 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MW661268
VERSION MW661268.1
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 7526)
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JOURNAL Unpublished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 7526)
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..7526
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH19-110"
/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 2..5101
/gene="ORF1"
CDS 2..5101
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QSD58423.1"
/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 2..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2626
/gene="ORF1"
/product="p22"
mat_peptide 2627..3025
/gene="ORF1"
/product="VPg"
mat_peptide 3026..3568
/gene="ORF1"
/product="Pro"
mat_peptide 3569..5098
/gene="ORF1"
/product="RdRp"
gene 5082..6689
/gene="ORF2"
CDS 5082..6689
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58424.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT
QLVPSNICALRGRINAQVPDDHHQWNLQVTNANGTPFDPTEDVPAPLGMPDFLANIYG
VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEERDLDLNQPTRFTPVGLYDT
SHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLKGGTSNGAIDCLLPQ
EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6689..7462
/gene="ORF3"
CDS 6689..7462
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58425.1"
/translation="MAGAFVAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRYWAPGATKTTAFSGGFTSSPNTRTVDLPRKTSTTPAPTPISRPNSSASTVSTRSTI
VSGTSGLSSLTRSSFNSQPTSSSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSRAS
SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 aatgaagatg gcgtctaacg acgcttccgc tgccgttgct tgcaacaaca acaacgacaa
61 ggaaaaatct tcaggtgaag gcttattcac aaatatgtct tccaccttaa agaaagccct
121 cggggctagg cccaaacagc ctgccccgag agacgaacca caaaagcccc caagaccacc
181 aactcccgag ttggtcaaga ggataccccc tcctccacct aatggcgaag aagaagaaga
241 accagtcatt aggtatgagg ttaagagtgg ggtctctggc ctgcccgagc tcacaacagt
301 cccccaaccg gacgtggcca acacagcatt cagtgttcca ccactgagct tgagagaaaa
361 cagggaggcc aaggaaccgc taacaggggc aatattagag atgtgggatg gagagatata
421 ccactacggc ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc
481 cataagcatg gcaagagtgg agttgacacc gctgtcattg tattggcgtg tggtgtacac
541 tccccaatac ctcatttccc ctgaaactct taggaggctc aacggagagg cattccctta
601 caccgccttc gacaataact gctatgcctt ttgctgttgg gtgttggacc tcaatgactc
661 atggcttagc aggaggatgg tgcaaagaac aacgggcttc ttcagacctt accaagagtg
721 gaacagaaaa cccctgccta ccatggatga ctccaaaatt aagaaggtgg caaacatatt
781 cctatgttca ttgtccacat tattcaccag acccataaaa gacctcatag gaaaaattaa
841 accattaaac atattgaaca tcctggcgac gtgtgactgg acgtttgccg gaatagtgga
901 gtctctgata ttacttgctg aactcttcgg agttttctgg acacccccag atgtgtctgc
961 tatgatcgct cccttactcg gggactacga gttgcaaggg ccggaagacc tcgccgttga
1021 gctcgtacct gtggtaatgg gagggattgg tttagtgttg ggattcacca aagagaaaat
1081 tggcaaaatg ttgtcctcag cagcatcaac actcagggct tgcaaagatc ttggtgccta
1141 tggcttagag atattaaaat tggtcatgaa gtggttcttc ccaaagaaag aggaggccaa
1201 tgagctagcc atggtgaggg ccatagagga tgccgtacta gatcttgagg caatagaaaa
1261 taaccacatg acaaccctgt tgaaagacaa agacagctta gcaacataca tgaaaacact
1321 ggacatggag gaagagaaag ccagaaggtt gtccacaaaa tctgcatccc ctgacatagt
1381 tgggacaatc aacgctctgc tggctcgaat agcagcggcc aggtcattag ttcacagggc
1441 caaggaagag ctatctagca ggataagacc agtagttgtt atgatatctg gcaaaccagg
1501 aataggcaaa actcatctgg ccagggaggt ggcaagaaag gtggcatcca ctctcacagg
1561 ggatcaaaga gtcggactca taccaagaaa cggtgtggac cattgggatg catacaaagg
1621 tgagagagtc gtgctgtggg acgactatgg catgagtaac cccattcatg atgctcttcg
1681 catacaagaa ttggctgata cgtgtcccct taccttaaat tgtgacagaa ttgaaaataa
1741 gggaaaagtt tttgacagtg aagtcataat aattacaaca aaccttgcca acccagcccc
1801 acttgattat gtcaactttg aggcctgttc caggagaatt gatttcctgg tgtacgctga
1861 tgcaccagaa gtggaaaagg caaaacggga ctttcctggt cagccagata tgtggaagga
1921 cgccttcaag ccggactttt cacacatcaa gctacaactt gcacctcagg gcggctttga
1981 caagaatggc aacaccccac atgggaaagg agtgatgaag accctcacta ccggttctct
2041 gattgcccgt gcatcaggcc tactgcatga gaggatggat gaatttgaac tccaaggtcc
2101 cacaatcacc accttcaatt tcgaccggaa cagaatcaca gcattcagac aattggctgc
2161 agaaaacaag tatggattgg tggataccat gaaagttggc aatcaactaa aaggagtgaa
2221 aaccatggaa gaactcaaac aagcaatcag gaatgtgacc atcaagaggt gccggatcat
2281 ctacggtggc tccacgtatg accttgaatc tgatggcaag ggcaaagttt tggtggaaaa
2341 ggtcaagaac acctctgtac agaccaacaa cgagttggcc ggggccctgc accatctcaa
2401 acacgcccga atcaggtact atgtcaaatg tgtgcaagaa gcagtctatt ccatcataca
2461 aattgccggc gctgcgtttg tcaccacgcg cattgcacgc cgcatgaaca tacaagaact
2521 ctggtcgaag ccacaattag atcaaaacga atcagagact aaggaagaga ctcccaagcc
2581 agaagatgac gagttcatca tatcttctaa ggatatcaag gaggaaggaa agaagggcaa
2641 aaacaaaact ggccgtggca agaaacacac tgcattctcc agcaagggct tgagcgatga
2701 ggagtatgac gagtacaaga ggataagaga agagagaaat gggaagtact ctatagagga
2761 gtatcttcaa gacagagaca ggtactatga ggagctcgcc attgccaagg ccacggaaga
2821 agacttctgt gaagaggagg agatcaaaat ccgtcagaga attttccgtc ccaccaggaa
2881 acaaaggaag gaagagaggg ccacattagg gctagtgaca ggctcagaaa tcagaaaaag
2941 aaaccctgat gacttcaaac ccaaagggaa gctatgggcc gatgacaaca gaagtgttga
3001 ctacaatgag aaactggact ttgaggcccc cccaagcata tggtctagga ttgtgagctt
3061 tggttctggc tggggcttct gggtatcacc aagcctgttc ataacatcaa ctcatgtaat
3121 ccccgctggc ataacagaag catttggagt ccccatcaaa caaattcaga tccacaaatc
3181 aggtgaattt tgccgattca gattcccaaa accaattaga ccagatgtga caggaatgat
3241 cttggaagaa ggtgcgcctg aaggcaccgt ggcaactgtg ctcatcaaac gccccaccgg
3301 agagctcatg cctcttgcag ccagaatggg aacacacgca accatgaaaa ttcaaggccg
3361 catggttggc ggacagatgg gtatgttgct cactggatca aatgctaaag gaatggattt
3421 gggaacaact cctggtgact gtggctgtcc ttacatctat aaaaggggca atgactatat
3481 agtcattggg gtgcacactg cagcagcccg tggtggaaac accgtcatct gtgccacaca
3541 gggaagtgag ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc
3601 acccattcta ggccctgggg gtgcaccaaa attgagcacc aaaaccaaat tttggaggtc
3661 atcgaacacg ccccttccac cagggacata tgagcctgcc tacctcggtg gccgtgatcc
3721 gcgtgttaag ggtgggccct ccttgcagca ggtaatgaga gatcagttga agccattcac
3781 tgaacccagg ggcaaacctc caagaccaag tgtattggaa gcagccaaac aaaccattat
3841 caatgtcctt gaacaaaccc tggaccctcc acaaaaatgg tcatacgcac aggcgtgtgc
3901 ctcacttgac aaaaccacct ccagcgggca tccccatcac gtccgaaaga atgaattctg
3961 gaatggtgag accttcactg gtaaattggc agaccaagca tcaaaagcaa acctaatgtt
4021 tgaggaaggg aaacatatga caccagtgta tacagcagct ctcaaggacg agctagtcaa
4081 gactgagaaa atctatggaa agatcaagaa gagactgctc tggggctctg acttgtccac
4141 catgatccgg tgcgccagat catttggtgg gctcatggac gagatgaagg cacactgcat
4201 aacactccca gtgcgagttg gcatgaatat gaatgaagat ggcccaataa tatttgagaa
4261 acattccaga tacaaatatc actatgatgc agactactct cgttgggatt caacacaaca
4321 gagggcagta ttagcagcag ccttggaaat catggtcaga ttctctgcag aaccacaatt
4381 ggcacaaata gtcgctgagg atctgctggc ccctagtgta gtagatgtag gagactttaa
4441 aatcacaata aatgaagggc tcccatctgg tgtgccgtgc acttcccagt ggaactccat
4501 cgcacactgg ctgctaactc tctgtgcctt gtctgaagtc accaaactgt cccctgacat
4561 tatacaagca aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgacat
4621 aaaattggac cctgaacagt taaccgccaa attgaaggag tacggcctga aaccaacccg
4681 tccagacaag actgagggac ccctgatcat cagtgaagat ttgaacggac tcactttcct
4741 ccgaaggacg gtgactcgtg acccagctgg ctggtttgga aaactggacc aaagctcaat
4801 tttgaggcag atgtactgga ctagaggacc aaatcatgaa gaccccaatg agacaatgat
4861 accccattct caaagaccca tacagctcat ggcactgctt ggtgaagcct ctctccacgg
4921 accctctttc tacagtaaaa tcagtaaatt ggtcataact gaactcaaag agggtgggat
4981 ggatttttac gtgccaaggc aggaacccat gttcaggtgg atgaggtttt ctgacttgag
5041 cacgtgggag ggcgatcgca atctggctcc caattttgtg aatgaagatg gcgtcgaatg
5101 acgccgctcc atctaatgat ggtgcagccg gtctcgtacc agaggtcaac aacgagacga
5161 tggcacttga gccggtggct ggggcctcta tagctgcccc tttgaccggc caaaataatg
5221 tgatagaccc ctggattaga atgaattttg tccaagctcc aaatggtgaa tttacagtgt
5281 ccccccgtaa ttccccaggt gaagtgttgt tgaatttgga attaggccct gaactaaatc
5341 cattcttggc acatctttca agaatgtata atggttatgc tggtggggtt gaagtgcagg
5401 tgctacttgc tgggaatgcg ttcacagcag gaaaactagt gttcgcggca atccccccgc
5461 atttccctct tgagaatctg agtcctggtc aaattacaat gttccctcac gtgattattg
5521 atgttagaac tttagaacct gttctcttgc ctttaccaga tgttaggaat aatttctttc
5581 actacaatca gcagcctgag ccccgtatga gacttgtggc catgttgtat actcctctta
5641 gatctaatgg ctctggtgat gatgtgttca cggtctcttg tagggttctc acccgcccct
5701 ctccagattt tgatttcaat tatttggttc ccccaactgt ggaatctaaa actaaaccat
5761 tcaccctgcc aatattgacc attggagagt tgtcaaattc taggttccca gtgccaatag
5821 atgaattgta taccagcccc aatgaaggag tggttgtgca acctcaaaat ggcagatcaa
5881 cacttgatgg tgaactgctt ggtacaacac aacttgtgcc atcaaacatc tgtgccttgc
5941 gagggcgcat caacgcccaa gtgccagacg accaccatca atggaacttg caggttacaa
6001 acgcaaatgg gactcccttc gaccccactg aagatgtccc tgcaccattg ggcatgccag
6061 acttcttggc aaacatctat ggagttacta gccagaggaa ccctgacaac acttgccgtg
6121 cccatgatgg ggtcttggca acctggagcc ctaaatttac acctaagtta gggtctgtgg
6181 ttttgggtac ttgggaagaa cgagatcttg atctcaacca acccaccaga ttcacacctg
6241 ttggtttgta tgatacaagc cactttgatc agtggattct acccaactat tctggaagat
6301 taaccttaaa catgaatttg gcgccctccg ttgctcccct tttcccaggt gaacaaatac
6361 tcttctttag gtcccacatt ccacttaaag gaggcacttc caatggtgcc attgactgtc
6421 tactccctca ggagtggatc cagcatttct atcaggaatc agccccgtca cccacagatg
6481 ttgctctgat taggtacacc aaccctgaca cgggtcgtgt cctttttgag gccaaactac
6541 ataggcaggg gttcatcaca gtagcaaatt ctggttctag acctattgtt gtccccccta
6601 atggttattt taggtttgat tcctgggtta atcagtttta ttctctcgcc cccatgggaa
6661 ctgggaatgg gcgcagaagg gtgcagtaat ggctggagct tttgtagcag gtcttgccgg
6721 tgacatagtc accaatagca ttggttcact tgtaaacgct ggagccaatg caataaacca
6781 aaaagtagac tttgaaaaca acaaacaact acagcaggcc tctttcaacc atgataagga
6841 aatgttgcaa gctcaaattc aggctacaaa acaattacag gctgacatga ttgcgctcag
6901 acaaggggtg ttgaccgcag gcggcttctc ccctactgat gcagcaagag gggcggttaa
6961 tgcgcccatg acgcaagtct tggactggaa tgggactagg tactgggccc ccggagccac
7021 caaaacaact gctttctccg gtgggttcac aagctctccc aataccagga ctgttgattt
7081 gcctaggaaa acatcaacca caccagcccc cacacctata tccagaccta attcttctgc
7141 ttctactgtt tctacccgct caacaattgt tagcgggact tctggccttt cttctttgac
7201 taggagctct tttaattccc agcccacctc ctcttcttct cggactagcg aatgggtgcg
7261 tagtcaaaac agggcgctgg agccctacat gaggggagcg ctgcaaactg cttacgtgac
7321 gcctccctct agtagagcgt ctagcaatgg cacagtctca accgtgccaa aagaagtttt
7381 ggactcctgg acatctgtgt tcaacaccca cagacaaccg cttttcgctc atctccgtcg
7441 gagaggggag tcacaggttt agtgaaaaga tggtttttct ttcttccact tttctgaaat
7501 ttccatcttt taaaaaaaaa aaaaaa
//