Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW661249 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5095
ORF2: 5076..6704
ORF3: 6704..7483
LOCUS MW661249 7559 bp RNA linear VRL 28-SEP-2021
DEFINITION Norovirus GII isolate BMH14-054 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW661249
VERSION MW661249.1
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 7559)
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JOURNAL Unpublished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 7559)
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..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH14-054"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada: Ottawa"
/collection_date="2014-01-15"
/note="Viral RNA extracted from fecal samples;
genotype: GII.2_GII.P16"
gene <1..5095
/gene="ORF1"
CDS <1..5095
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QSD58366.1"
/translation="KMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK
QSAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKGGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMVQRTTGFFRPYQEWNRKPLPTVDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLEDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTM
EELKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEVP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHAAMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..991
/gene="ORF1"
/product="p48"
mat_peptide 992..2089
/gene="ORF1"
/product="NTPase"
mat_peptide 2090..2620
/gene="ORF1"
/product="p22"
mat_peptide 2621..3019
/gene="ORF1"
/product="VPg"
mat_peptide 3020..3562
/gene="ORF1"
/product="Pro"
mat_peptide 3563..5092
/gene="ORF1"
/product="RdRp"
gene 5076..6704
/gene="ORF2"
CDS 5076..6704
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QSD58367.1"
/translation="MKMASNDAAPSTDGAAGLVPESNSEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQVQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6704..7483
/gene="ORF3"
CDS 6704..7483
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QSD58368.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA"
ORIGIN
1 gaagatggcg tctaacgacg cttccgctgc cgttgcttgc aacaacaaca acgacaagga
61 aaaatcttca ggtgaaggct tattcacaaa tatgtcttcc accttaaaga aagccctcgg
121 ggcccggccc aaacagtctg ccccgaggga caactcacaa aagcccccaa gaccaccaac
181 tcccgagttg gttaagagga taccccctcc cccacctaat ggtgaagaag aagaaccagt
241 cattaggtat gaggttaagg gtgggatctc tggcctgccc gagctcacaa cagtccccca
301 accagatgtg gccaacacgg cattcagtgt cccaccgctg agcttgagag aaaacaggga
361 ggccaaggaa ccgctgacag gggcaatatt agagatgtgg gatggagaga tataccacta
421 tggcctgtac gtggaaaaag gcttagtgtt gggtgtgcac aaaccacctg cagctataag
481 catggcaaaa gtggagctga cgccgttgtc attgtactgg cgtgtggtct acacccccca
541 atacctcatc tcccctgaaa ctctcaggag gctcaacgga gaggcattcc cctacaccgc
601 ctttgacaac aactgctatg ccttttgctg ctgggtatta gacctcaatg actcatggct
661 taacaggagg atggtgcaaa gaacaacagg cttcttcaga ccttaccaag agtggaacag
721 aaaacccctg cctactgtgg atgactcaaa aatcaagaag gtggcaaaca tattcctgtg
781 ttcattgtcc acgttgttca ccagacctat aaaagacctc ataggaaaaa ttaaaccatt
841 aaacatcttg aacatcctgg caacgtgtga ctggacattc gccggaatag tggagtctct
901 gatattactt gctgagctct ttggagtttt ctggacaccc ccagatgtgt ctgctatgat
961 cgctccctta cttgaagact acgagttgca agggccagaa gacctcgccg ttgagctcgt
1021 acctgtggta atgggaggga ttggtttggt gttgggattc accaaagaga aaattggcaa
1081 aatgttgtct tcagcagcat caacgctcag ggcttgcaaa gatcttggtg cctatggctt
1141 agagatactc aaattggtca tgaagtggtt cttcccaaag aaagaagagg ccaatgagct
1201 agccatggtg agagctatag aggatgctgt actggatctt gaggcaatag aaaataatca
1261 catgacaact ctgttgaaag acaaagacag cctagcaacc tacatgaaaa ccctagacat
1321 ggaggaggag aaagccagaa gattgtccac aaaatctgca tcccctgaca tagtcgggac
1381 gatcaacgcc ctgctggctc gaatagcagc ggcaaggtca ctagtacaca gggccaagga
1441 ggagttatct agcaggataa gaccagtagt tgttatgata tctggcaaac cagggatagg
1501 taaaactcat ttggccaggg aagtggcaag aaaggtggca tccactctca caggggatca
1561 aagagtcgga ctcataccga gaaacggtgt ggaccattgg gatgcataca aaggtgagag
1621 agtcgtgctg tgggacgact atggcatgag caaccccatt catgatgctt tgcgcataca
1681 agaattggct gatacgtgtc cccttacctt aaattgcgac agaattgaaa ataagggaaa
1741 agtttttgac agtgaagtta taataattac aacaaacctt gccaatccag ctccacttga
1801 ttatgtcaac tttgaggctt gttccaggag aattgacttc ctggtgtacg ccgaggcacc
1861 agatgtagaa aaggcaaaac gagactttcc tggtcaacca gatatgtgga aggacgcatt
1921 caagtcggac ttttcacata tcaagttgca acttgcacct cagggcggct ttgacaagaa
1981 tggcaacacc ccacatggga aaggagtgat gaagaccctc accaccggtt ccctgattgc
2041 ccgtgcatca ggcttactgc atgagaggat ggacgaattt gaactccaag gccccacagt
2101 taccaccttc aatttcgatc ggaacagaat caccgcattc agacaattgg ctgcagaaaa
2161 caagtatggg ttggtggaca ccatgagagt tggcaatcaa ttaaaagggg tgaaaaccat
2221 ggaagaactc aaacaagcaa tcaagaatgt gatcatcaag aggtgccgga tcatctacgg
2281 tggctccacg tatgaccttg aatctgatgg caagggcaaa gttttggtgg aaaaggtcaa
2341 gaacacctct gtacagacca acaacgagtt ggccggagcc ctgcatcacc tcaaacatgc
2401 ccgaatcagg tactatgtca aatgtgtgca agaagcagtt tactctatca tacaaattgc
2461 cggcgctgcg tttgtcacca cacgcattgc acgccgcatg aacatacaag agctttggtc
2521 gaagccacca ttagaccaaa atgaatcaga ggctaaggaa gaggtcccca agtcagaaga
2581 tgacgagttc atcatatctt ctaaggacat caaggaggaa ggaaagaagg gcaaaaacaa
2641 aactggccgt ggcaagaaac acactgcatt ctctagcaag ggcttgagcg atgaggagta
2701 tgacgagtac aagaggataa gagaagagag aaatgggaag tactctatag aggagtatct
2761 tcaagacaga gacaggtact atgaggaact cgccatcgcc aaggccacgg aagaagactt
2821 ctgtgaggag gaggaggtca aaatccgtca gaggatcttc cgtcccacca ggaaacaaag
2881 gaaggaagag agggccacac taggactagt gactggttca gaaatcagaa aaagaaaccc
2941 tgatgacttc aaacctaaag ggaaactgtg ggccgatgac aacagaagtg ttgactacaa
3001 tgagaaactg gactttgagg cccccccaag catatggtct aggattgtga gctttggttc
3061 tggttggggc ttctgggtat caccaagcct gttcataaca tcaactcatg taatccctgc
3121 aggcataaca gaggcatttg gagtccccat caaacaaatc caggtccaca aatcaggtga
3181 attttgccgg ttcagattcc caaaaccaat tagaccagat gtgacaggaa tgatcttgga
3241 agaaggtgcg cctgagggca ccgtggcaac cgtgctcatc aaacgcccta ccggagagct
3301 catgcccctt gcagccagaa tggggacaca cgcagccatg aaaattcagg gccgcatggt
3361 tggcggacag atgggtatgt tgctcactgg ttcaaatgct aaaggaatgg atttgggaac
3421 aactcctggt gattgtggct gtccctacat ctacaaaagg ggcaatgact atatagtcat
3481 tggtgtgcac acagcagcag cccgtggtgg aaacaccgtc atctgtgcca cacagggaag
3541 tgagggtgag gcaactcttg agggtggaga tgacaaagga acatactgtg gggcacccat
3601 tctaggcccc gggggggcac caaaattgag caccaaaacc aaattttgga ggtcatcgaa
3661 cacgcctctt ccaccaggga catatgagcc tgcctacctc ggtggccgcg atccgcgtgt
3721 taagggaggg ccctccttgc agcaggtaat gagagaccag ttgaaaccat tcactgaacc
3781 caggggtaaa cctccaagac caagtgtgtt ggaagcagcc aaacaaacca tcatcaatgt
3841 tctcgaacaa accctggacc ctccacaaaa atggacgtac gcacaggcgt gtgcttcact
3901 tgacaaaacc acctccagcg ggcatcccca ccacgtccga aagaatgaat tctggaatgg
3961 tgagaccttc actggtaaat tggcagacca agcatcaaaa gcaaatctga tgtttgagga
4021 agggaagcac atgacaccag tgtatacagc agcccttaag gacgagctgg tcaagactga
4081 caaagtctat ggaaagatca agaagagatt gctctggggc tctgacttgt ccaccatgat
4141 ccggtgcgcc aggtcctttg gtgggctcat ggatgagatg aaggcacact gcatatcact
4201 cccagtccga gttggcatga acatgaatga agatggtcca ataatatttg agaagcactc
4261 cagatacaag taccactatg atgcagacta ctcccgctgg gattcaacac aacagagggc
4321 agtactagca gcagccttgg aaatcatggt caggttctct gcagagccac aattggcaca
4381 gatagtcgct gaggatctgc tggcccccag tgtggtagat gtgggagact ttaaaatttc
4441 aataaatgaa gggctcccct ctggtgtacc atgcacttct caatggaatt ccatcgcaca
4501 ctggctgcta accctctgtg ccttgtctga agtcaccaaa ctgtcccctg acattgtaca
4561 ggcaaattcc atgttctcat tttacggtga tgacgagatt gtcagcaccg atataaaatt
4621 ggaccctgaa aagttgacca ccaaattgaa ggagtacggc ctgaaaccaa ctcgcccaga
4681 caaaaccgag ggacccctga tcatcagtga ggatttgaac ggactcactt ttctccggag
4741 gacggtgact cgtgacccag ctggctggtt tggaaaattg gaccaaagtt caatattgag
4801 gcagatgtac tggactagag ggccaaatca tgaagacccc aatgagacaa tgatacccca
4861 ctctcaaaga cccatacagc tcatggcact gcttggtgag gcctcccttc acggaccctc
4921 tttctacagc aaaatcagta aattggtcat aactgaactc aaagaaggtg ggatggactt
4981 ttacgtgcca aggcaggaac ccatgttcag gtggatgagg ttctctgact tgagcacgtg
5041 ggagggcgat cgcaatctgg ctcccagttt tgtgaatgaa gatggcgtcg aatgacgccg
5101 ctccatctac tgatggtgca gccggcctcg tgccagaaag taacagtgag gtcatggctc
5161 ttgaacccgt ggctggtgcc gccttggcag ccccggtcac cggtcaaaca aatattatag
5221 acccttggat tagagcaaat tttgtccagg cccccaatgg cgaatttaca gtctctcccc
5281 gtaacgcccc tggtgaagtg ctactaaatc tagagttggg tccagaatta aatccttatc
5341 tggcacattt agcaagaatg tacaacgggt atgccggtgg gatggaggtg caggtcatgt
5401 tggctgggaa cgcgttcaca gccggcaagt tggtcttcgc cgccgtgcca cctcacttcc
5461 cggttgaaaa ccttagtcca cagcaaatca ccatgtttcc tcatgtgatt atagatgtaa
5521 ggaccttgga acctgtttta ttaccacttc ctgatgttag gaataatttc ttccactata
5581 atcagaaaga tgatcctaaa atgagaattg tggctatgct ttataccccc cttaggtcaa
5641 atggttcagg tgatgatgtg ttcacagttt cctgcagggt gttgactaga ccctcccctg
5701 attttgactt cacatatctg gtgccaccaa cagtggaatc taaaacaaaa ccattcaccc
5761 tcccaatcct cacacttggg gaactttcca attctaggtt cccagtgtcc atagaccaga
5821 tgtacaccag ccctaatgaa gtcatatcag tgcagtgtca aaatggtagg tgcacattgg
5881 acggggagct tcaggggaca acacaactcc aagtcagtgg catttgtgct ttcaaggggg
5941 aagtgaccgc ccatttgcat gacaatgatc acctatacaa tgtcaccatc acaaacttga
6001 atgggtcccc ttttgacccc tccgaggacg ttcctgcccc tctgggcgtg cctgatttcc
6061 agggaagggt ctttggtgtc atctcccaaa gagacaaaca taatagccct gggcacaatg
6121 aaccagcaaa caggggacac gacgctgtgg tccctactta cacagcacag tacactccaa
6181 aattgggtca ggttcaaatt ggcacatggc agaccgacga tcttacagtc aaccaaccag
6241 ttaaattcac cccagttgga ctcaatgaca ctgaacattt taatcaatgg gtggtcccca
6301 gatacgctgg tgccctaaac ctcaacacaa accttgcccc ttctgttgct ccagtattcc
6361 caggggagcg cctgcttttc ttcagatcat acgttcccct caagggtggt tatggaaatc
6421 cagccattga ttgcctatta ccacaagagt gggtgcaaca cttctatcag gaggctgccc
6481 catcaatgag tgaggtggcc cttgtcagat acattaaccc ggatactggt cgggcactgt
6541 ttgaggccaa gctccacaga gctggtttca tgacagtctc gagcaacacc agtgccccgg
6601 tggttgtgcc tgccaatggg tacttcagat ttgactcttg ggttaatcaa ttctattctc
6661 tcgcccccat gggaactgga aatgggcgta gaagggttca ataatggctg gagcctttgt
6721 agctggtctt gcaggggacg tgctcagcaa tgggctcagt tcattaatta atgcaggtgc
6781 taatgcaata aatcagaggg cagaatttga ttttaatcag aaattacagc aaaattcttt
6841 caatcatgat aaggagatgt tgcaggccca gatccaggca actaagcagc tgcaggcaga
6901 catgatggct ataaaacagg gggtcctgac agctggcggc ttttcccctg ctgatgcagc
6961 cagaggtgct gtgaacgcgc ccatgacaca ggcgctggat tggaacggca caaggtattg
7021 ggcaccaggc tctatgagga ccacatctta ttctggaaaa tttacatcaa ccgccccagt
7081 gaggcaggcc gacttccagc acacccaaag ccggccttcg agtggttctt ctgtgtcctc
7141 ttttgctact cagtcttcaa ggccaactct gaccacaacc actgggtcct cacatggcac
7201 agcctcatca aattcaactc gcagcacaag cctctcccaa tcaacggtct ctagagctac
7261 atctaggact agtgagtggg tcagagatca aaatagaaat ttggaaccct acatgcatgg
7321 tgccttacag acggcctttg tcaccccacc ttccagcagg gcgtctgacg ggacagtctc
7381 aaccgtccca aaaggtgttt tggactcctg gacacctgcg ttcaacaccc gcaggcagcc
7441 gctctttgca cacctccgta agagggggga gtcacatgcc tagtgaaaag gtgaaaattt
7501 gttaagagta aattgatttt accttttaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa
//