Typing tool
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Typing tool
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Complete norovirus genomes
| PQ273189 | GII.22 | |
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| GII.P25 |
ORF1: 1..4336
ORF2: 4317..5942
ORF3: 5942..6394
LOCUS PQ273189 6394 bp RNA linear VRL 02-JAN-2025
DEFINITION Norovirus GII isolate BMH-22-158 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION PQ273189
VERSION PQ273189.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 6394)
AUTHORS Harlow,J., McLeod,M., Flint,A., Blondin-Brosseau,M., Weedmark,K.
and Nasheri,N.
TITLE Direct Submission
JOURNAL Submitted (30-AUG-2024) Bureau of Microbial Hazards, Health Canada,
251 SIR FREDERICK BANTING, Ottawa, ON K1Y 0M1, Canada
COMMENT ##Assembly-Data-START##
Assembly Method :: Megahit v. 1.2.9
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..6394
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH-22-158"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Canada: Regina, Saskatchewan"
/collection_date="2022"
/note="genotype: GII.22"
gene <1..4336
/gene="ORF1"
CDS <1..4336
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="XFE80667.1"
/translation="LKKVANVFLCALSGLFTRPIKDLIGKLKPLNILNIVTNCDWTFS
GVVEALILLAELFGVFWTPPDISTFVASLLGDYEMQGPEDIAAEVVPVVLGGIGMVLG
FTKEKIGRLLSSAASSLRACKEIGNYGIELVKLVMKWFFPSKQEANEMDMVRAIEDAV
LDFEAIQNNHMTALLKDKNSLAAFLKELDMEEEKARKLSSKSASPDIVGTVNALLARI
AAARSLVHKAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLTGDQRVGLVP
RNGVDHWDAYKGERIVLWDDYGMSNPVADALRLQELADTCPLTLNCDRIENKGKVFDS
DTIIITTNLANPTPLDYVNFEACSRRIDFLVYADSPAVDKVKKDFPGQPDMWKDAFKP
DFSHIKLQLAPQGGFDRNGNTPHGKGVMKTLTTHSLVARATGLLHERLDEFDLQGPDL
PVYNFDQNRVAAFRKLAADNKYGLMETIKVGNKLKGVKTLEQLKDALRDVSIKPCRII
YSSMAYDLDSSGSGRVNIKKVADHKVQTNNELNSALNNLRGARVRYYVKCVQEMVYSL
LQIAGAAFVTSRMTRRLNASNIWAKPERQAEAIGEPPAPPTEDWTIAPANTTQEGKKG
KNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYSIEEYLQDRDRYYEELAIAKA
TEEDFCEEEEIKIRQRIFRPTRKQRREERATLGLVTGSEIRKRNPDDFKPRGKLWADD
DRSVNYNEKLDFEAPPSLWSRIVNFGSGWGFWVSSNLLITSTHVIPPSMTEAFGVPIS
QIQVHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVVTILIKRTTGELMPLAARMGT
HATMKIQGRMLGGQMGMLLTGSNAKNMDLGTTPGDCGCPYVYKRGNDWVVIGVHTAAA
RGGNTVICATQGPDGEATLEGGDNRGTYCGAPILGPGSAPKLSTKTKFWRSSNAPLPP
GTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTAPRGKPPRPAVLDAAKETICSVLEQ
TIEPPQKWSYAQACASLDKTTSSGHPHHMRKNDNWNGESFTGALADQASKANLMFEQG
KHMQPVYTAALKDELVKTSKIYEHIKKRLLWGSDLGTMVRCARAFGGLMDEMKANCVN
LPIRVGMNMNEDGPIIFEKHSKYKYHYDADYSRWDSTQQRHILGAALEIMVRFSAEPE
LAQIVSEDLLAPSVVDVGDFKIVINEGLPSGVPCTSQWNSISHWLITLCAMSEVSGLS
PDVVQANSCFSFYGDDEIVSTDIKLDPMELTNKLKEYGLIPTRPDKTEGPLIVKESIE
GLTFLRRGVCRDPAGWYGKLDQSSIMRQLYWTKGPNHEDPNETMIPHSQRPIQLMSLL
GEAALHGPAFYKKVSKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPE
GVNEDGVE"
mat_peptide <1..241
/gene="ORF1"
/product="p48"
mat_peptide 242..1339
/gene="ORF1"
/product="NTPase"
mat_peptide 1340..1876
/gene="ORF1"
/product="p22"
mat_peptide 1877..2260
/gene="ORF1"
/product="VPg"
mat_peptide 2261..2803
/gene="ORF1"
/product="Pro"
mat_peptide 2804..4333
/gene="ORF1"
/product="RdRp"
gene 4317..5942
/gene="ORF2"
CDS 4317..5942
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XFE80668.1"
/translation="MKMASNDAAPSNDGAAGLVPEINTEVMALEPVAGGAIAAPLTGQ
TNIIDPWIRNNFVQAPNGEFTISPRNSPGEVLLNMELGPELNPFLAHLSRMYNGFAGG
VEVQVLMASNAFTAGKVIFAAVPPHFPVENLSPSQVTMFPHIIIDVRTLEPVLLPLPD
VRNQFFHYNQVNEPRMRLVAMLYTPLRSNGSTEDVFTVSCRVLTRPSPDFDFNYLVPP
TVESRTKPFTLPILTIGEMTNSRFPAPIDMLYTSPNENVIVQPQNGRCTLDGELQGTT
QLVPANVCAFRGKVTSRIVNQSEHQWHMQIDNPNGTLFDPTEDVPAPLGTPDFKANIF
GVISQRNDYNSGDQGPANRAHDAVVPTTADKFTPKLGSVLVGTWENEDIHFQPSKFTP
VGLLEMQGFNQWSLPNYSGALTLNMGLAPAVFPTYPGEQILFFRSFIPLKGGYGDPAI
DCLLPQEWVQHLYQESAPSQTDVALIRYVNPDTGRVLFEGKLHKQGFITIAKSGDGPI
VVPPNGYFRFDSWVNQFYSLAPMGNGNGRRRIQ"
gene 5942..>6394
/gene="ORF3"
CDS 5942..>6394
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XFE80669.1"
/translation="MAGAFIAGLAGDIVTSGVGSLINAGANAINQKVDFENNKYLQSA
SFAHDKEMLKAQIEATKQLQSDMIAIKQSVLSAGGFAPADAARGSINAPMTKVLDWSG
TRYWAPNSTSTTMYSGGFTGQPVHRPTPNFSKSKPVSSAASSSYKSNST"
ORIGIN
1 actcaagaaa gtggccaatg tgtttctgtg cgctctctct gggcttttca ccaggccaat
61 caaggatctc ataggaaaac tgaagccact aaacatactt aacatcgtca ccaattgtga
121 ctggaccttc tctggggtcg tggaggctct catattgctt gcagaactct ttggggtttt
181 ctggacacca ccagacattt ccacctttgt ggcatcactt ttgggcgatt atgagatgca
241 gggccctgag gatatcgcgg cagaggttgt gccagtagta ctcggtggca taggcatggt
301 actcggattc accaaggaga agattggccg gttgctgagc tcagccgcgt cctcgctcag
361 ggcgtgcaag gagatcggca actacggaat agaactggtg aagctagtga tgaagtggtt
421 ctttccttcc aaacaagagg caaatgaaat ggacatggtg agagcaattg aggatgccgt
481 gcttgacttc gaagccatcc agaacaacca catgacagca ttactcaaag acaaaaacag
541 cctggcagcc ttccttaagg agttggacat ggaggaggaa aaggcgagga agctgtcatc
601 aaaatccgcc tctccagaca ttgtcggcac cgtgaacgct ctcctagcta ggattgccgc
661 cgctaggtcc ctagtccata aggctaaaga agaaatgtca tccaggatgc gtcctgttgt
721 catcatgatc tctggccggc ccgggatagg gaagacgcac ctggcccgcg acctggccaa
781 gaagatggcg gcgaccctca caggtgatca gagggtgggt ctcgtgccga ggaacggtgt
841 tgatcattgg gacgcataca aaggagagag aattgtgctt tgggatgact atggaatgag
901 caaccctgtg gccgatgcgc tgcggctcca agagcttgcc gacacgtgcc ccctgacgct
961 caattgtgat aggatagaaa acaaggggaa agtgtttgac agtgacacca tcatcatcac
1021 tactaatctg gccaacccta cccccctaga ttatgttaac tttgaggctt gctctcgccg
1081 gattgacttc cttgtctacg cggactcccc tgctgtggac aaggtgaaga aagacttccc
1141 cggccaacca gacatgtgga aggatgcctt caaaccagac ttttcccaca taaaactcca
1201 attggcaccg caagggggct ttgacaggaa cgggaacacc ccccatggaa agggtgtcat
1261 gaaaacactg accacgcatt cccttgtcgc ccgcgccacg ggcctcttac acgagaggtt
1321 ggatgagttc gatctgcagg gacccgatct gcctgtgtac aattttgacc agaacagagt
1381 ggctgctttc agaaaactgg cagctgacaa caaatatgga cttatggaga ctataaaggt
1441 gggcaacaaa ctgaagggcg tcaagaccct ggaacaactc aaggatgccc taagggatgt
1501 gagcatcaag ccctgcagga taatctacag ttcaatggct tatgacctcg actcgagtgg
1561 gtcagggaga gtcaacatca agaaagttgc agatcacaaa gtccaaacca acaacgaact
1621 caactccgcg ctcaacaact tgcgtggtgc cagagtgaga tactatgtca aatgtgtcca
1681 agagatggtg tactccctcc tccagatcgc tggcgcggcc ttcgtcacct caagaatgac
1741 acggaggcta aacgccagta acatctgggc taagccagaa agacaggcag aagccattgg
1801 ggagccccca gcccccccga ctgaggattg gactatagcc ccagccaata caacacagga
1861 aggtaaaaag ggcaagaaca agagtggcag gggcaagaaa cacactgcct tctccagcaa
1921 agggctaagt gatgaggagt acgatgagta caaaaggatc agggaagaaa ggcaggggaa
1981 atattccata gaagagtacc tccaagatag agaccggtac tatgaggaat tggccatagc
2041 caaagcaaca gaagaggact tctgtgagga ggaagagatc aaaatcagac aacggatctt
2101 ccgtccgacc agaaagcaac gcagggaaga gagggcaact ctaggactgg tcacaggtag
2161 tgaaatcagg aaaagaaacc cggatgactt caaaccgaga gggaaactgt gggccgatga
2221 cgaccgcagc gtgaattaca atgagaaact ggactttgaa gcccccccta gcctctggtc
2281 ccgaatagtc aacttcggat caggctgggg tttctgggtg tcatctaacc tgctaatcac
2341 atcaacacac gtcatccccc cgagcatgac tgaggctttt ggcgtgccaa taagtcagat
2401 acaagtgcac aggagtggag agttctgcaa aatgaggttc cctaaagcca taagacctga
2461 tgtttcgggc atgatcctcg aagaaggagc ccccgaagga acggtggtga ccatactgat
2521 caagaggacc accggtgagc tcatgccgtt ggctgcccgg atgggcaccc acgccaccat
2581 gaaaatacaa gggagaatgc taggaggcca gatgggaatg ctcctcacgg ggtccaacgc
2641 caagaacatg gacctcggca ccacccctgg agactgtggc tgcccctacg tgtacaagag
2701 aggcaatgat tgggtggtca taggagtgca caccgcagcc gccagaggtg gcaacaccgt
2761 gatctgtgcc acccaggggc cggatggcga ggctacactc gagggagggg acaaccgcgg
2821 gacctactgt ggcgcgccaa tacttggacc agggagcgcg ccaaaactca gcaccaaaac
2881 caagttctgg agatcatcca atgccccact cccgcccggc acctatgagc ccgcctactt
2941 aggaggaaag gacccaaggg tcaagggggg cccgtcatta caacaagtca tgagggatca
3001 gctcaagcct ttcaccgccc cccggggaaa accaccacgg ccagcggtcc tggacgccgc
3061 taaagagacc atctgtagcg tgcttgagca gaccattgag ccaccccaaa agtggtctta
3121 cgctcaggct tgtgcttcat tggacaagac aacatcaagt ggccaccctc accatatgag
3181 gaagaatgac aactggaatg gagagtcctt cactggtgcg ctggctgatc aagcctccaa
3241 ggcgaacctc atgtttgaac aaggaaaaca catgcaaccc gtgtacactg ccgccctcaa
3301 agatgagctc gtcaagacca gcaagatcta cgaacacatc aaaaagaggc tgctatgggg
3361 ctcagacctg ggcacaatgg ttcgctgtgc tagggccttt ggtggactca tggatgaaat
3421 gaaggcaaac tgtgtgaatt taccaatcag agttggcatg aatatgaatg aagatggacc
3481 catcatcttt gaaaaacatt caaagtacaa atatcattat gatgctgact attccaggtg
3541 ggattcaacc cagcagaggc acatcttggg ggctgccctt gaaataatgg tcaggttctc
3601 agctgaaccc gaattggcac aaatagtatc tgaggacctc ttggccccca gcgtggtgga
3661 cgttggtgac ttcaagattg tcataaatga gggcttaccc tctggggtgc cgtgcacatc
3721 acaatggaac tcaatttctc attggctgat aacattatgt gccatgtcag aagtctcagg
3781 actgtcaccg gatgtggtgc aggcaaattc ctgcttctct ttctatgggg atgatgagat
3841 agtcagcacc gacatcaagc tggaccctat ggagctgacc aacaagctaa aagagtatgg
3901 gctgattcca acaagaccag acaaaacaga aggccccctt atagtcaaag agagcattga
3961 gggcttgacc ttccttagga ggggcgtgtg tcgggaccca gctggctggt atggaaaact
4021 tgaccagtct tcaatcatga gacagttgta ctggaccaag ggacccaacc atgaagaccc
4081 taatgagaca atgatcccac actcccagag acccatacaa ctgatgtcac tgctggggga
4141 ggcggcactg cacgggccag ctttttacaa gaaagtcagc aaactggtga tcactgagct
4201 caaggaaggt gggatggact tttatgtgcc aaggcaggag cctatgttca ggtggatgag
4261 attctctgac ctcagcactt gggagggcga tcgcaatctt gctcccgagg gtgtgaatga
4321 agatggcgtc gaatgacgcc gctccatcta atgatggcgc tgccggcctc gttccagaga
4381 tcaacacaga ggtcatggca cttgaaccag ttgctggagg agctatcgcg gcccctctca
4441 ctggacaaac aaacataatt gatccctgga ttagaaataa ttttgtgcag gccccaaatg
4501 gagagtttac catatcccct agaaattccc caggagaagt tctgctaaat atggaattag
4561 gacctgaatt aaaccccttc ttggcccatc tctccagaat gtataatggt tttgcaggcg
4621 gtgtggaggt gcaggtgctg atggcatcga acgctttcac cgctggaaaa gtcatcttcg
4681 ccgcagttcc accccatttc ccagtagaga acctaagtcc ctcacaagtt accatgtttc
4741 cacacataat catagatgtt aggaccctag aaccagtctt gctgcccctg cccgatgtga
4801 gaaatcagtt cttccattac aaccaggtga atgagcccag gatgcgcttg gtggccatgc
4861 tctacacgcc cttgagatca aacgggtcca ccgaagacgt cttcacagtg tcttgcaggg
4921 tgttgaccag gccttcaccg gactttgatt tcaattactt ggtgccccca actgtagagt
4981 caagaacaaa acccttcacc ttgcctattc ttacaattgg agaaatgaca aattcacgtt
5041 ttcccgcccc catagacatg ctttatacca gccccaatga aaatgtgata gtgcagccac
5101 agaatggtag gtgcaccctt gatggtgaac tccaagggac gacacaactg gtcccggcaa
5161 atgtgtgtgc cttcaggggc aaagtcactt caaggattgt taaccagtca gaacaccaat
5221 ggcacatgca gattgacaac cccaatggga cactctttga tccgacagag gatgtgcctg
5281 caccacttgg tacccccgat ttcaaagcca acatattcgg tgtcatatct caaaggaatg
5341 attataattc gggtgatcag gggcctgcaa acagagcaca tgatgccgtg gtgcccacca
5401 cagcagacaa attcactcca aaattaggtt cagtactagt gggtacttgg gaaaatgaag
5461 atatacactt ccagccctcc aaattcaccc cagttggcct acttgagatg caaggcttca
5521 atcagtggtc gcttccaaat tattcaggag ccctaaccct caacatgggt ctcgcgccag
5581 cggtcttccc aacctaccct ggtgaacaga tccttttctt caggtctttc atcccactta
5641 aaggtggcta tggtgatcca gccatcgact gccttctccc acaagagtgg gtacagcacc
5701 tttatcagga atctgccccc tcccaaaccg atgttgcttt gattaggtat gtaaaccctg
5761 atacaggacg agtcctgttt gagggaaaat tacacaagca aggattcata accattgcaa
5821 agtcaggaga tggaccaatt gttgtacccc caaatggata tttcaggttt gattcttggg
5881 taaatcagtt ttactcactc gcccccatgg gaaacgggaa tgggcgtaga aggattcagt
5941 aatggctgga gcatttatag caggattggc aggtgacatt gtcacaagtg gggtggggtc
6001 attgattaac gcaggggcta atgctattaa tcaaaaagtt gattttgaaa ataataaata
6061 tcttcaatca gcatcatttg cacatgataa agaaatgctt aaagcacaaa ttgaggccac
6121 taaacaactt caatctgaca tgattgccat caaacagagt gtgttatccg ctggcggatt
6181 cgcacctgcg gatgcggcaa gggggtcaat caatgcaccc atgacaaagg tccttgattg
6241 gagcggcact aggtattggg caccaaattc gacctccacg accatgtatt ctgggggctt
6301 cacagggcaa ccagtccaca ggccgacacc aaatttctca aagagcaaac ccgtgtcaag
6361 tgctgcatca tcatcctaca agtccaactc aaca
//