Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ273186 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS PQ273186 7547 bp RNA linear VRL 02-JAN-2025
DEFINITION Norovirus GII isolate BMH-22-151 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION PQ273186
VERSION PQ273186.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7547)
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..7547
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="BMH-22-151"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Canada: Regina, Saskatchewan"
/collection_date="2022"
/note="genotype: GII.4 Sydney_2016"
gene <1..5083
/gene="ORF1"
CDS <1..5083
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="XFE80658.1"
/translation="SNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDEPQKPPRPPTPELVKRIPPPPPNGEEEPVIRYEVKGGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEIFKLIMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QTIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVNNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIASAAFVTTRIARRMNIQELWSKPQLDQNESEVKEEAPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAVRMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYL
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTVINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..979
/gene="ORF1"
/product="p48"
mat_peptide 980..2077
/gene="ORF1"
/product="NTPase"
mat_peptide 2078..2608
/gene="ORF1"
/product="p22"
mat_peptide 2609..3007
/gene="ORF1"
/product="VPg"
mat_peptide 3008..3550
/gene="ORF1"
/product="Pro"
mat_peptide 3551..5080
/gene="ORF1"
/product="RdRp"
gene 5064..6686
/gene="ORF2"
CDS 5064..6686
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XFE80659.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQLNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFAGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRIQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6686..7492
/gene="ORF3"
CDS 6686..7492
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XFE80660.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQSMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARVTTYNAGHFSTPQPSGALPGRANLRDAVPARVPSNKSS
NSFTATSVYSNQTISTRLGSTAGPGTSVSSLPSIARTRSWVEDQNRSLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRMRGESRV"
ORIGIN
1 gtctaacgac gcttccgctg ccgttgcttg caacaacaac aacgacaagg aaaaatcttc
61 aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg gggctaggcc
121 caaacagcct gccccgagag acgaaccaca aaagccccca agaccaccaa ctcccgagtt
181 ggtcaagagg ataccccctc ctccacctaa tggcgaagaa gaaccagtca ttaggtatga
241 ggttaagggt ggaatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc
301 caacacagca ttcagtgttc caccactgag tttgagagag aacagggagg ccaaggaacc
361 gctaacaggg gcaatattag agatgtggga cggggagata taccactatg gcctgtacgt
421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagta tggcaagagt
481 ggagttgacg ccgctgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgaaact ctcaggaggc tcaacggaga gacgttccct tacaccgcct tcgacaacaa
601 ctgctacgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta gcaggaggat
661 ggtgcaaaga acgacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc
721 caccatggat gactccaaaa taaagaaggt ggcaaatata ttcctatgtt cattgtccac
781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa
841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga tattacttgc
901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat
1021 gggagggatt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc
1081 agcagcatca acactcaggg cttgcaaaga tctcggtgcc tatggcttag agatattcaa
1141 attgatcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ccatggtgag
1201 agccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca tgacaaccct
1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa
1321 agccagaagg ttgtccacaa aatctgcgtc ccctgacata gttgggacaa tcaacgctct
1381 gctggctcga atagcagcag ccaggtcatt agtccacagg gccaaggaag agctatctag
1441 caggataaga ccagtggttg ttatgatatc tggtaagcca ggaataggca aaactcatct
1501 ggccagggag gtggcaagaa aggtagcatc cactctcaca ggggatcaga gagtcggact
1561 cataccaaga aacggtgtgg accattggga tgcatataaa ggtgagagag tcgtgctgtg
1621 ggacgactat ggcatgagta accccatcca tgatgctctt cgcatacaag aattggctga
1681 cacgtgtcca cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag
1741 tgaagtcata ataatcacaa caaaccttgc caacccagcc ccacttgatt atgttaactt
1801 tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag aagtagaaaa
1861 ggcaaaacgg gattttcctg gtcagccaga tatgtggaag gacgccttca agccggattt
1921 ttcacacatt aagctacagc ttgcacctca gggcggcttt gacaagaatg gtaacacccc
1981 acatgggaag ggggtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg
2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaacca ctaccttcaa
2101 tttcgaccgg aacaggatca cagcattcag acaattggct gcagaaaaca aatatggatt
2161 ggtggatacc atgaaagttg gcaatcagct aaaaggagtg aaaaccatgg aagaactcaa
2221 acaaacaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg gttccacgta
2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaata acacctctgt
2341 acagaccaac aacgagttgg ccggggccct gcaccacctc aagcacgccc gaatcaggta
2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgcta gcgctgcgtt
2461 cgtcaccacg cgtattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt
2521 agatcaaaat gaatcagagg ttaaggaaga ggcccccaag tcagaagatg acgagttcat
2581 catatcttct aaggacatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ccagtaaggg cttgagtgat gaggagtatg acgagtataa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga
2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga
2821 ggagatcaaa atccgccaga gaatttttcg tcccaccagg aaacaaagaa aggaagagag
2881 ggccacatta gggttggtaa caggttcaga aatcaggaaa agaaaccctg atgacttcaa
2941 acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gactacaatg agaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttccg gctggggctt
3061 ctgggtatca ccaagcctgt tcataacatc aactcatgta atccccgcag gcataacaga
3121 agcatttgga gtccccatca aacaaattca aatccacaaa tcaggtgaat tttgccgatt
3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc
3241 tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc
3301 agtcagaatg gggacacacg caaccatgaa aattcaaggc cgtatggttg gcggacagat
3361 gggtatgttg ctcactggat caaatgctaa aggaatggat ttgggaacaa ctcctggtga
3421 ctgtggctgt ccttacctct ataaaagggg caatgactat atagtcattg gggtgcacac
3481 tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca caggggagtg agggtgaggc
3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattt taggccctgg
3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca cgccccttcc
3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccacgcgtta agggtgggcc
3721 ctccttgcag caggtaatga gagaccagtt gaagccattc actgaaccca ggggcaaacc
3781 tccaaggcca agtgtattgg aagcagccaa acaaaccgtt atcaacgttc tcgaacaaac
3841 cctggaccct ccacaaaaat ggacatacgc acaggcgtgt gcctcacttg acaaaaccac
3901 ctccagcggg catccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac
3961 aggtaaattg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat
4021 gacaccagtg tatacagcag cactcaagga cgagttagtc aagactgaga aaatctatgg
4081 aaaggtcaag aagagattgc tctggggctc tgacttgtct accatgatcc ggtgtgctag
4141 atcatttggt gggctcatgg acgagatgaa agcacactgc atatcactcc cagtacgagt
4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatataaata
4261 ccactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tactagcagc
4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga
4381 ggatctactg gcccctagcg tggtagatgt aggagacttt aaaattacaa taaatgaagg
4441 gctcccatct ggcgtgccgt gtacttctca atggaactcc attgcacact ggctgctaac
4501 cctctgtgcc ttgtctgaag tcaccaaact gtcccctgac attatacaag caaattccat
4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaaattgg accctgaaca
4621 gttaaccgcc aagctgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaagg
4681 gcccctgatc atcagtgaag atttgaacgg actcactttc ctccgaagga cggtgactcg
4741 tgacccagct ggctggtttg gaaagctgga ccaaagttca attttgaggc agatgtactg
4801 gactagagga ccaaaccatg aagaccccaa tgagacaatg ataccccatt ctcaaagacc
4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tctacagtag
4921 aattagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag
4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg
5101 ggtccgcagc caacctcgta ccagaggtca acaatgaggt tatggctctg gagcccgttg
5161 ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta
5221 gaaataattt tgtacaagcc cctggtgggg agtttacagt gtcccctaga aacgccccag
5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta tcccatttgg
5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaagatt atatttgcag cagtcccacc aaattttcca actgaaggct
5461 taagtcctag ccaggttact atgttccccc atataatagt agatgttaga caattagaac
5521 ctgtgctgat tcccttacct gatgttagga ataatttcta tcattacaat cagttaaatg
5581 attccactat caagttgata gcaatgttgt atacaccact tagggctaat aatgcaggag
5641 atgatgtctt cacagtttcg tgccgagttc tcacgaggcc atcccccgat tttgatttta
5701 tatttttggt gccacccaca gttgagtcaa gaactaaacc gttttctgtc ccagttttaa
5761 ctgttgagga gatgaccaat tcaagattcc ccatcccttt ggaaaagttg ttcacaggcc
5821 ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg cacaactgat ggcgtgctcc
5881 taggcactac ccagctttct cctgtcaaca tctgcacctt cagaggggat gtcacccaca
5941 tcacaggcag ccgcaactac acaatgaatt tggcttctca aaattggaac aactatgacc
6001 caacagaaga aatcccagcc cctctaggaa ctccagattt tgcagggaag attcaaggca
6061 tgcttaccca aaccacaagg acagacggtt caacacgcgg ccacaaagct acagtgtaca
6121 ctgggagcgc tgactttgct ccaaaactgg gtagaattca atttgaaact gacacagacc
6181 atgactttga agctaatcaa aacacaaagt tcaccccagt cggtgtcatc caagatggta
6241 gcaccaccca ccgaaatgaa ccccagcagt gggtgctccc aagttactca ggcagaaata
6301 ctcacaatgt gcatttggcc cccgctgtag cccccacctt tccgggtgag caactcctct
6361 ttttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc
6421 tcccccagga atgggtgcag tacttctacc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aaacttcaca
6541 aatcaggcta tgttacagtg gcccacactg gccaacatga tttggttatc ccccccaatg
6601 gttactttag gtttgattcc tgggtcaacc agttctacac gcttgccccc atgggaaatg
6661 gaacggggcg taggcgtgca gtataatggc tggagctttc ttcgctggat tggcatctga
6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaatcaaaa
6781 agttgaattt gaaaataaca gaaaattgca acaagcatcc ttccaattta gcagcaatct
6841 gcaacaggct tccttccaac atgataaaga gatgctccaa gcacaaattg aggccaccaa
6901 aaagctacaa caggaaatga tgaaagttaa gcagtcaatg ctcctagagg gtgggttctc
6961 tgagacagat gcagcccgtg gggcaattaa cgcccccatg acaaaagctt tggactggag
7021 cgggacaagg tactgggctc cagatgctag ggttacaaca tacaatgcag gccacttttc
7081 cacccctcaa ccatcggggg cactgccagg aagagctaat cttagggatg ctgtccctgc
7141 tcgggtaccc tccaacaaat cttctaactc ttttactgcc acctctgtgt attcaaatca
7201 aactatttca acgagacttg gttctacagc tggtcctgga accagtgtct caagcctccc
7261 gtcaattgca aggactagga gttgggttga ggatcaaaac aggagtttgt cacctttcat
7321 gaggggggcc cacaacatat catttgtcac tccaccatct agcagatcct ctagtcaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcct ctcttcgctc acattcgtat gcgaggggag tcacgggtgt aatgtgaaaa
7501 gacaaaactg attattttct ttttcttttc tttagtgtct ttaaaaa
//