Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC790053 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5087
ORF2: 5068..6690
ORF3: 6690..7496
LOCUS LC790053 7505 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2022/GII.4Sydney[P31]/
TKY220218 RNA, nearly complete genome.
ACCESSION LC790053
VERSION LC790053.1
KEYWORDS .
SOURCE Norovirus GII.4 Sydney 2012
ORGANISM Norovirus GII.4 Sydney 2012
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE The Detection of Norovirus in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7505)
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; Hyakunincho
3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL
:https://www.tmiph.metro.tokyo.lg.jp/
FEATURES Location/Qualifiers
source 1..7505
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2022/GII.4Sydney[P31]/TKY220218"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2022-05"
gene <1..5087
/gene="POL"
CDS <1..5087
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BEV21173.1"
/translation="NDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPP
KEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTA
FSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVE
LAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRR
MIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLN
ILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL
VPIVMGGIGLVLGFTKEKVGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEA
NELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASP
DIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIA
ASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLN
CDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF
PGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH
ERLDEYELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQ
ALKNIAIKKCQIVYNGGTYTLEADGRGSVKVDKVQSATVQTNNELAGALHHLRCARIR
YYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKD
DEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEI
RKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFIT
STHVIPQGAKEFFGVPVKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATL
LIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPY
IYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAP
KLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPP
RPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESF
TGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIR
CARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQR
DVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLK
PTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDP
FETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5068..6690
/gene="VP1"
CDS 5068..6690
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21174.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVSPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6690..7496
/gene="VP2"
CDS 6690..7496
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21175.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
NSSTATSVHPNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ctaacgacgc ttccgctgcc gctgttgcca acagcaacaa cgacatcgca aaatcttcaa
61 gtgacggtgt gttttctaac atggctgtca cttttaagcg ggccctcggg gcgcggccta
121 aacagccgcc cccgaaggaa ataccaccca gacccccgcg accacccaca ccagaattgg
181 tcaaaaagat ccctcctccc ccacccaacg gggaggatga actagtggtc tcttacagcg
241 ccaaagatgg cgtttccgga ctgcctgagc tcaccactgt cagacaaccg gaagaaacca
301 acacggcgtt cagtgtcccc ccactcaacc aaagggagag cagggacgcc aaggagccac
361 taactggaac aatcattgaa atgtgggatg gagaaatcta ccattacggc ctgtacgtgg
421 aacgaggtct tatacttggt gtgcacaagc caccagcagc aatcagcctc gccaaggtcg
481 agttggcacc gctctctttg ttctggagac ctgtatacac cccccagtac cttatctctc
541 cagacactct taggagatta catggagagt cattccccta cactgcattt gacaacaatt
601 gctacgcctt ttgttgttgg gtattagacc taaacgactc atggctaagc aggagaatga
661 ttcagagaac aacaggcttc ttcaggccgt accaggattg gaacaggaaa cccctcccca
721 ctatggatga ttccaagtta aagaaggtag ccaacatatt cttgtgtact ttgtcttcac
781 tattcaccag acccattaag gacataatag ggaagttgaa acctctcaac atccttaata
841 ttctggctac atgtgattgg accttcgcag gtatagtgga atccttaata ctcttggcag
901 aactctttgg agttttctgg acacccccag atgtgtctgc gatgatcgcc cccttgctag
961 gtgattatga actgcaagga cccgaggacc ttgcagtgga actggtccca atagtgatgg
1021 gggggatagg tttggtgcta ggatttacca aagagaaagt tgggaagatg ctgtcatccg
1081 ctgcgtccac tttaagagct tgtaaagatc ttggtgcata cggactggaa atcttaaaat
1141 tggtcatgaa gtggttcttc ccaaagaaag aggaagcaaa tgaactggct atggtgagat
1201 ccatcgagga tgcagtacta gacctcgagg caattgaaaa caaccatatg accaccctgc
1261 tcaaagacaa agacagcttg acaacctaca tgagaaccct tgaccttgag gaggagaaag
1321 ccagaaaact ctcaaccaaa tctgcttcac ccgatattgt gggcacaatt aactctcttc
1381 tggcaagaat cgctgctgca cgctccctag tgcatcgggc gaaagaagag ctctccagca
1441 ggccgagacc tgtcgttgta atgatatcgg gaagaccagg gatagggaaa actcaccttg
1501 ccagggagct ggccaagaag atcgcggcct ccctcacagg ggaccagcgt gtgggcctta
1561 tcccacgcaa tggtgtcgac cactgggacg catacaaggg cgaaagagtt gtcctatggg
1621 acgactatgg aatgagcaac cccatccatg atgccctcag attgcaggag cttgctgaca
1681 cttgccccct cacgctaaat tgtgacagaa ttgagaacaa gggaaaagtc tttgacagcg
1741 acgccataat tatcaccacc aacctggcca acccagcacc actggattat gtcaactttg
1801 aagcgtgctc gagacgcatt gatttcctcg tgtacgcaga agcccctgag gtggagaagg
1861 cgaagcgcga cttcccaggt caacctgaca tgtggaagaa cgctttcagt cctgacttct
1921 cacacataaa actgtcattg gctccacagg gcggttttga caaaaacggc aacaccccgc
1981 atggaaaagg ggtcatgaag accctcacca ctggctccct catcgcccgg gcatcagggt
2041 tactccatga gaggctagat gaatatgaat tgcaaggctc agccctcacc actttcaact
2101 ttgaccgcaa caagatactt gcctttagac agcttgctgc tgaaaacaag tatgggctga
2161 tggacacaat gagagttggg aaacagctta aggatgtcaa gactatgtca gaccttaaac
2221 aagcactcaa gaacatcgcg atcaagaagt gccagatagt gtacaatggt ggcacctaca
2281 cacttgaggc tgatggcagg ggcagtgtga aagttgacaa agtgcaaagt gccactgtgc
2341 agaccaacaa tgaactagcc ggtgccctac accacctaag atgcgctaga atcaggtact
2401 atgttaagtg cgtccaggag gcactgtatt ccatcatcca aatcgctggg gctgcgttcg
2461 tcaccacgcg catcgctaag cgcatgaata tacagaatct ctggtccaag ccacaggtgg
2521 aagacacaga agagatggcc aacaaagatg gttgcctaaa acccaaagat gatgaagagt
2581 ttgtcgtttc atccgacgac atcaaaactg agggcaagaa agggaagaac aagtccggcc
2641 gtggcaagaa acatacagcc ttttcaagta aagggctcag tgatgaggag tacgatgagt
2701 acaaaagaat cagagaagaa aggaatggta agtactccat agaagagtac cttcaggaca
2761 gagacaggta ctacgaggag gtggccattg ccagggcaac cgaagaggac ttctgtgaag
2821 aagaagaggc caagatccgg cagaggattt tcagaccaac aaggaaacaa cgcaaagaag
2881 agagggcctc tctcggcttg gtcacaggct ctgaaatcag gaagagaaac ccagaagact
2941 tcaaacccaa gggaaagctg tgggctgatg atgacagaag tgttgactac aatgagaaac
3001 tcaactttga ggccccacca agcatctggt cgcggatagt caactttggt tcaggctggg
3061 gcttctgggt ctcccccagt ctgtttataa catcaaccca tgttataccc caaggtgcaa
3121 aagagttttt cggagtccct gtcaagcaaa tccagataca caagtcaggt gaattctgcc
3181 gattgagatt cccaaagcca atcagaaccg atgtgacggg catgattcta gaagaaggtg
3241 cgcccgaggg gaccgtggcc acactgctca tcaagagacc aactggagag ctcatgcccc
3301 tggcagccag aatgggaacc catgcaacca tgaaaattca ggggcgcaca gttggagggc
3361 aaatgggtat gctcctgaca ggatccaacg ccaagagtat ggacctaggc acaacaccag
3421 gcgactgcgg ctgcccctac atctacaaga gggggaatga ctacgtggtc ataggggtcc
3481 acacggccgc tgcccgcgga ggaaacactg tcatatgtgc cacccaggga agtgagggag
3541 aggccacact cgaaggaggt gatagtaaag ggacatactg tggcgcgcca atcttgggcc
3601 cagggagcgc tccgaagctc agcaccaaga ctaagttctg gagatcatcc acaacaccac
3661 tcccacctgg cacctacgaa ccagcctacc tcggtggcaa agaccctaga gtcaaaggtg
3721 gcccttcatt gcaacaagtt atgagggacc agctgaagcc attcacagaa cccagaggca
3781 gaccaccaag accaaatgtg ttggaagctg ccaagaaaac catcatcaat gtccttgagc
3841 aaacaattga tccaccccaa aaatggtcat ttgcgcaagc ttgcgcgtcc cttgacaaaa
3901 ccacctccag cggccacccg caccacatgc ggaaaaacga ctgttggaat ggggagtcct
3961 tcacaggaaa attggctgac caagcctcca aggccaacct aatgtttgaa gagggaaaga
4021 acatgactcc agtctacaca ggtgcactta aagatgagtt ggtaaagacc gataaagttt
4081 atggtaaggt caagaagagg cttctgtggg gttcagatct ggcgaccatg atacggtgcg
4141 cccgagcttt tggaggcctc atggatgaac tcaaggcaca ctgtgtcacg ctccctgtca
4201 gagttggtat gaacatgaat gaggatggcc ccatcatctt cgagaagcac tccagatata
4261 gatatcacta tgatgctgac tattcccgat gggactcaac acaacaaagg gatgtgctag
4321 cagcagcact agaaatcatg gttaagttct ctccagaacc acacctggcc cagatagttg
4381 cagaagacct cctctcccct agcgtgatgg atgtgggtga ctttcaaata tcaataagtg
4441 agggtctccc ctctggggtg ccttgtacct cccagtggaa ttccatcgcc cactggctcc
4501 tcactctgtg tgcactctct gaagtcacgg acctgtcccc tgatatcatt caggccaact
4561 cccttttctc cttttatggt gatgatgaga ttgtaagcac agacataaag ttggatccag
4621 agaggctgac agcaaaactc aaggagtacg ggctgaaacc aacccgcccc gacaaaactg
4681 aaggacccct tgttatctct gaagacctgg atggtctgac attcctccgg agaactgtga
4741 cccgtgaccc agctggttgg tttggaaaat tggaacaaag ttcaattctt aggcaaatgt
4801 actggaccag gggtcccaac catgaagatc catttgaaac aatgatacca cactcccaaa
4861 gacccataca gttgatgtcc ttgctgggcg aggctgcact ccacggcccg gcattctaca
4921 gcaaaattag caaattagtc attgcagagt tgaaggaagg tggcatggat ttttacgtac
4981 ccagacaaga gccaatgttc agatggatga gattctcaga tctgagcacg tgggagggcg
5041 atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc caacccatct
5101 gatgggtccg cagccaacct cgtcccagag gtcaacaatg aggttatggc tctggagccc
5161 gttgttggtg ccgccattgc ggcacctgta gcgggccagc aaaatgtaat tgacccctgg
5221 attagaaaca attttgtaca agcccctggt ggagagttca cagtgtcccc tagaaacgct
5281 ccaggtgaaa tactatggag cgcgcccttg ggccctgatc taaatcccta cttatctcat
5341 ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat tctcgcgggg
5401 aacgcgttca ccgccgggaa ggtcatattt gcagcagtcc caccaaattt tccaactgaa
5461 ggcttgagcc ccagccaggt cactatgttc ccccatatag tagtagatgt taggcaatta
5521 gaacctgtgt tgattccctt acccgatgtt aggaataatt tctatcatta taatcaatca
5581 aatgacccca ctattaagct gatagcaatg ttgtacacac cacttagggc taataatgct
5641 ggggatgatg tcttcacagt ttcttgccga gttcttacga ggccatcccc cgattttgac
5701 ttcatatttc tagtgccacc cacagttgag tcaagaacta agccattctc tgtcccaatt
5761 ttaactgttg aggagatgac caattcaaga ttccccattc ctctggaaaa gttgttcacg
5821 ggtcccagca gtgcctttgt tgtccaacca caaaacggta ggtgcacgac tgatggcgtg
5881 ctcctaggca ccacccaact gtctcctgtc aacatctgca ccttcagagg agatgtcacc
5941 catatcacag gtagtcacaa ctacacaatg aatttggctt cccaaaattg gagtaattac
6001 gacccaacag aagaaattcc agcccctcta gggactccag actttgtggg gaagattcaa
6061 ggcatgctca cccaaaccac aaggacagat ggctcaacac gcggccacaa agccacagtg
6121 tatactggga gcgccgactt tgccccaaaa ctgggtagag ttcaatttga aactgacaca
6181 aacaatgatt ttgaagctaa ccaaaacaca aagttcaccc cagttggagt catccaagat
6241 ggtggcacca cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta ctcaggcagg
6301 aacactccta atgtgcatct ggcccccgct gtagccccca cttttccggg tgagcaactc
6361 ctcttcttca gatccaccat gcccggatgc agcgggtacc ccaacatgga tttggattgt
6421 ctgctccccc aggaatgggt gcagtacttc taccaagagg cagccccagc acaatctgat
6481 gtggctctgc taaggtttgt gagtccagac acaggtaggg ttttgtttga atgtaagctt
6541 cataaatcag gctatgttac agtggctcac actggccaac atgatttggt tatccccccc
6601 aatggttatt ttaggtttga ctcctgggtc aaccagtttt acacgcttgc ccccatggga
6661 aatggagcgg ggcgtagacg tgcactataa tggctggagc tttctttgct ggattggctt
6721 ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg gccatcaacc
6781 aaaaagttga gtttgaaaat aacagaaaat tgcaacaagc atccttccaa tttagcagca
6841 atctacaaca ggcttccttt caacatgaca aagagatgct ccaagcacaa attgaggcta
6901 ccaaaaggtt acaacaggaa atgatgaaag ttaagcaggc aatgctctta gagggtgggt
6961 tctctgagac agatgcagcc cgcggggcaa tcaacgcccc tatgacaaaa actttggact
7021 ggagcgggac aaggtactgg gctcctgatg ctaggactac aacatacaat gcaggccgct
7081 tttccacccc ccaaccatcg ggggcgctgc caggaagagc taaccttagg gatgctgccc
7141 ccgctcgggg ttcctctagt aagtcttcta attcttctac tgctacttct gtgcacccaa
7201 atcaaactat ttcaacgaga cttggttcta cagctggttc tggtaccagt gtctcgagct
7261 tcccgtcaac tgcaaggact aggagctggg ttgaggatca aagtaggaat ttgtcacctt
7321 tcatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga tcctctagcc
7381 aaggcacagt ctcaaccgtg cctaaagaga ttttggactc ctggactggc gctttcaaca
7441 cgcgcaggca gccactcttc gctcacattc gtaagcgagg ggagtcacgg gtgtaatgtg
7501 aaaag
//