Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC699532 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5085
ORF2: 5066..6688
ORF3: 6688..7494
LOCUS LC699532 7544 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2597/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699532
VERSION LC699532.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T.,
Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M.,
Suzuki,J. and Sadamasu,K.
TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney
[P31]
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7544)
AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R.,
Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,
Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (10-MAR-2022) Contact:Yu Yaoita Tokyo Metropolitan
Institute of Public Health, Department of Microbiology;
Hyakunincho3-24-1, Shinjyuku, Tokyo 169-0073, Japan URL
:http://www.tokyo-eiken.go.jp/
FEATURES Location/Qualifiers
source 1..7544
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2597/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2020-02"
gene <1..5085
/gene="POL"
CDS <1..5085
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDG75400.1"
/translation="NDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPP
KEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTA
FSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVE
LAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRR
MIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLN
ILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL
VPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEA
NELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASP
DIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIA
ASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLN
CDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF
PGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH
ERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQ
ALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARIR
YYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKD
DEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEI
RKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFIT
STHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATL
LIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPY
IYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAP
KLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESF
TGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIR
CARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQR
DVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLK
PTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDP
FETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5066..6688
/gene="VP1"
CDS 5066..6688
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75401.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6688..7494
/gene="VP2"
CDS 6688..7494
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75402.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGAVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 aacgacgctt ccgctgccgc tgttgccaac agcaacaacg acatcgcaaa atcttcaagt
61 gacggtgtgt tttctaacat ggctgtcact tttaagcggg ccctcggggc gcggcctaaa
121 cagccgcccc cgaaggaaat accacccaga cccccgcgac cacccacacc agaattggtc
181 aaaaagatcc ctcctccccc acccaacggg gaggatgaac tagtggtctc ttacagcgcc
241 aaagatggcg tttccggact gcctgagctc accactgtca gacaaccgga agaaaccaac
301 acggcgttca gtgtcccccc actcaaccaa agagagagca gggacgccaa ggagccatta
361 actggaacaa tcattgaaat gtgggatgga gaaatctacc attacggcct gtacgtggaa
421 cgaggtctta tacttggtgt gcacaagcca ccagcagcca tcagcctcgc caaggtcgag
481 ctggcaccgc tctctttgtt ctggagacct gtatacaccc cccagtacct catctctcca
541 gacactctta ggagattaca tggagagtca ttcccctaca ctgcatttga caacaattgc
601 tacgcctttt gttgttgggt attagaccta aacgactcat ggctaagcag gagaatgatt
661 cagagaacaa caggcttctt caggccgtac caggattgga acaggaaacc cctccccact
721 atggatgatt ccaaattaaa gaaggtagcc aacatattct tgtgcacttt gtcttcacta
781 ttcaccagac ccattaagga cataataggg aagttgaaac ctctcaacat ccttaatatt
841 ctggctacat gtgattggac cttcgcaggc atagtggaat ccttaatact cttggcagaa
901 ctctttggag ttttctggac acccccagat gtgtctgcga tgatcgcccc cttgctaggt
961 gattatgaac tgcaaggacc cgaggacctt gcagtggaac tggtcccaat agtgatgggg
1021 gggataggtt tggtgctagg atttaccaaa gagaaaatcg gaaagatgct gtcatccgct
1081 gcatccactt taagagcttg taaagacctt ggtgcatacg gactggaaat cttaaaattg
1141 gtcatgaagt ggttcttccc aaagaaagag gaagcaaatg aactggctat ggtgagatcc
1201 atcgaggatg cagtactaga cctcgaggca attgaaaaca accacatgac caccctgctc
1261 aaagacaaag acagcttgac aacctacatg agaacccttg accttgagga ggagaaagcc
1321 agaaaactct caaccaaatc tgcttcaccc gatattgtgg gcacaatcaa ctctcttctg
1381 gcaagaatcg ctgctgcacg ctccctagtg catcgggcga aagaagagct ctccagcagg
1441 ccgagacctg tcgttgtaat gatatcggga agaccaggga tagggaaaac tcaccttgcc
1501 agggagctgg ccaagaagat agcggcctcc ctcacagggg accagcgtgt gggccttatc
1561 ccacgcaatg gtgtcgacca ctgggacgca tacaagggcg aaagagttgt cctatgggac
1621 gactatggaa tgagcaaccc catccatgat gccctcaggt tgcaggagct tgctgacact
1681 tgtcccctca cgctaaattg tgacagaatt gagaacaagg gaaaagtctt tgacagtgat
1741 gccataatta tcaccaccaa cctggccaac ccagcaccac tggattatgt caactttgaa
1801 gcgtgctcga gacgcattga tttcctcgtg tacgcagaag cccctgaggt ggagaaggca
1861 aagcgcgact tcccaggtca acctgacatg tggaagaacg ctttcagtcc tgacttctca
1921 cacataaaac tgtcattggc tccacagggt ggttttgaca agaacggcaa caccccgcat
1981 ggaaaagggg tcatgaagac cctcaccact ggctccctca tcgcccgagc atcagggtta
2041 ctccatgaga ggctagatga atatgaattg caaggcccag ccctcaccac tttcaacttt
2101 gaccgcaaca agatacttgc ttttagacag cttgctgctg aaaacaagta tgggctgatg
2161 gacacaatga gagttggaaa acagctcaag gatgtcaaga ctatgtcaga cctcaaacaa
2221 gcacttaaga acatcgcgat caagaagtgc cagatagtgt acaatggtgg cacctacaca
2281 cttgaggctg atggcaaggg caatgtgaaa gttgacaaag tgcaaagtgc cactgtgcag
2341 accaacaatg aactagccgg tgccctacac cacctaagat gcgctagaat cagatactat
2401 gttaagtgcg tccaggaggc actgtattcc atcatccaaa tcgctggggc tgcattcgtc
2461 accacgcgca tcgctaagcg catgaatata cagaatctct ggtccaagcc acaggtggaa
2521 gacacagaag agatggccaa caaagatggt tgcctaaaac ccaaagatga tgaagagttt
2581 gtcgtttcat ccgacgacat caaaactgag ggcaagaaag ggaagaacaa gtccggccgt
2641 ggcaagaagc acacagcctt ttcaagtaaa gggctcagtg atgaggagta cgatgagtac
2701 aaaagaatca gagaagaaag gaatggtaag tactccatag aagagtacct tcaggacaga
2761 gacaggtact acgaggaagt ggccattgcc agggcaaccg aagaggactt ctgtgaagaa
2821 gaagaggcca aaatccggca gaggattttc agaccaacaa ggaaacaacg caaagaagag
2881 agggcctctc tcggcttggt cacaggatct gaaatcagga agagaaaccc agaagacttc
2941 aaacccaagg gaaagctgtg ggctgatgat gacagaagtg ttgactacaa tgagaaactc
3001 aactttgagg ccccaccaag catctggtcg cggatagtca actttggttc aggctggggc
3061 ttctgggtct cccccagtct gtttataaca tcaacccatg tcatacccca aggtgcaaaa
3121 gaattcttcg gagtccctat caagcaaatc cagatacaca agtcaggtga attctgccga
3181 ttgagattcc caaagccaat cagaactgat gtgacgggca tgattctaga agaaggtgcg
3241 cccgagggga ccgtggccac actgctcatc aagagaccaa ctggagagct catgcctctg
3301 gcagccagaa tggggaccca tgcaaccatg aaaattcagg ggcgcacagt tggagggcaa
3361 atgggtatgc tcctgacagg atccaacgcc aagagtatgg acctaggcac aacaccaggc
3421 gactgcggct gcccctacat ctacaagagg gggaatgact atgtggtcat aggggtccat
3481 acggccgctg cccgtggagg aaacactgtc atatgtgcca cccagggaag tgagggagag
3541 gccacacttg aaggaggtga cagtaaaggg acatactgtg gcgcgccaat cttgggccca
3601 gggagcgctc cgaagctcag caccaagact aagttttgga gatcatccac aacaccactc
3661 ccacctggca cctacgaacc agcctacctc ggtggcaaag accctagagt caaaggtggc
3721 ccttcattgc aacaagttat gagggaccag ctgaagccat tcacagaacc cagaggcaaa
3781 ccaccaagac caaatgtgtt ggaagctgcc aagaaaacca tcatcaatgt ccttgagcaa
3841 acaattgatc caccccaaaa atggtcattt gcgcaagctt gcgcatccct tgacaaaacc
3901 acctccagcg gccacccgca ccacatgcgg aaaaacgact gttggaatgg ggagtctttc
3961 acaggaaaat tggctgacca agcctccaag gccaacctaa tgtttgaaga gggaaagaac
4021 atgactccag tctacacagg tgcacttaaa gatgagttgg taaagaccga taaagtttat
4081 ggtaaggtca agaagaggct tctgtggggt tcagatctgg cgaccatgat acggtgcgcc
4141 cgagctttcg gaggcctcat ggatgaactc aaggcacact gtgtcacact ccctgtcaga
4201 gttggtatga acatgaatga ggatggcccc atcatcttcg agaagcactc cagatataga
4261 taccactatg atgctgacta ttcccggtgg gactcaacac aacaaaggga tgtgctagca
4321 gcagcactag aaatcatggt taagttctct ccagaaccac acctggccca gatagttgca
4381 gaagacctcc tctcccccag cgtgatggat gtgggtgact ttcaaatatc aataagtgag
4441 ggtctcccct ctggggtgcc ttgtacctcc cagtggaatt ccatcgccca ctggctcctc
4501 actctatgtg cactctctga agtcacggac ctgtcccctg atatcattca ggccaactcc
4561 cttttctcct tctatggtga tgatgagatt gtaagcacag acataaagtt ggacccagag
4621 aggctgacag caaaactcaa ggagtacggg ctgaaaccaa cccgccccga caaaactgaa
4681 ggaccccttg ttatctctga agacctggat ggtctgacat tcctccggag aactgtgacc
4741 cgtgatccag ctggctggtt tggaaaattg gaacaaagtt caattcttag gcaaatgtac
4801 tggaccaggg gtcccaacca tgaagatcca tttgaaacaa tgataccaca ttcccaaaga
4861 cccatacaat tgatgtcctt gctgggcgag gctgcactcc acggcccggc attctacagc
4921 aaagttagca aattagttat tgcagagttg aaggaaggag gcatggattt ttacgtaccc
4981 agacaagagc caatgttcag atggatgaga ttctcagatc tgagcacgtg ggagggcgat
5041 cgcaatctgg ctcccagttt tgtgaatgaa gatggcgtcg agtgacgcca acccatctga
5101 tgggtccgca gccaacctcg tcccagaggt caacaatgag gttatggctc tggagcccgt
5161 tgttggtgcc gccatagcgg cacctgtagc gggccaacaa aatgtaattg acccctggat
5221 tagaaacaat tttgtacaag cccctggtgg agagtttaca gtgtccccta gaaacgctcc
5281 aggtgaaata ctatggagcg cgcccttggg ccctgatcta aatccctact tatctcattt
5341 ggccagaatg tacaatggtt atgcaggtgg ttttgaagtg caggtaattc tcgcggggaa
5401 cgcgttcacc gccgggaagg tcatatttgc agcagtccca ccaaattttc caactgaagg
5461 cttgagcccc agccaggtca ctatgttccc ccatatagta gtagatgtta ggcaactaga
5521 acctgtgttg attcccttac ccgatgttag gaataatttc tatcattaca atcagtcaaa
5581 tgaccccact attaagttga tagcaatgtt gtatacacca cttagggcta ataatgctgg
5641 ggatgatgtc ttcacagttt cttgccgagt tctcacgagg ccatcccccg attttgactt
5701 catatttcta gtgccaccca cagttgagtc aagaactaaa ccattctctg tcccagtttt
5761 gactgttgag gagatgacca attcaagatt ccccattcct ttggaaaagt tgttcacggg
5821 tcccagcagt gcctttgttg tccaaccaca aaacggtagg tgcacgactg atggcgtgct
5881 cctaggcacc acccaactgt ctcctgtcaa catctgcgcc ttcagaggag atgtcaccca
5941 catcacaggt agtcataact acacaatgaa tttggcttct caaaattgga gcaattacga
6001 cccaacagaa gaaattccag cccctctagg gactccagac tttgtgggga agattcaagg
6061 catgcttacc caaaccacaa ggacagatgg ctcaacacgc ggccacaaag ccacagtgta
6121 cactgggagc gccgactttg ctccaaaact gggtagagtt caatttgaaa ctgacacaaa
6181 caatgatttt gaagctaacc aaaacacaaa gttcacccca gttggtgtca tccaagatgg
6241 tggcaccacc caccgaaatg aaccccaaca gtgggtgctc ccaagttact caggcaggaa
6301 cactcctaat gtgcatctgg cccccgctgt agcccccact tttccgggtg agcaactcct
6361 cttcttcaga tccaccatgc ccggatgcag cgggtacccc aacatggatt tggattgtct
6421 gctcccccag gaatgggtgc agtacttcta ccaagaggca gccccagcac aatctgatgt
6481 ggctctgcta agatttgtga atccagacac aggtagggtt ttgtttgaat gtaagcttca
6541 taaatcaggc tatgttacag tggctcacac tggccaacat gatttggtta tcccccccaa
6601 tggttatttt aggtttgatt cctgggtcaa ccagttttac acgcttgccc ccatgggaaa
6661 tggagcgggg cgtagacgtg cactataatg gctggaactt tctttgctgg attggcatct
6721 gatgtccttg gctctggact tggttccctt atcaatgctg gggctggggc catcaaccaa
6781 aaagttgagt ttgaaaataa tagaaaattg caacaagcat ccttccaatt tagcagcaat
6841 ctacaacagg cttcctttca acatgacaaa gagatgctcc aagcacaaat tgaggctacc
6901 aaaaggttac aacaggaaat gatgaaagtt aagcaggcaa tgctcttgga gggtgggttc
6961 tctgagacag atgcagcccg cggggcaatc aacgccccta tgacaaaagc tttggactgg
7021 agcgggacaa ggtactgggc tcctgatgct aggactacaa catacaatgc aggccgcttt
7081 tccacccccc aaccatcggg ggcgctgcca ggaagagcta atcttaggga tgctgtcccc
7141 gctcggggtt cctctagtaa gtcttctaat tcttctactg ctacttctgt gtactcaaat
7201 caaactattt caacgagact tggttctaca gctggttctg gtaccagtgt ctcgagcttc
7261 ccgtcaactg caaggactag gagctgggtt gaggatcaaa gtaggaattt gtcacctttt
7321 atgagggggg cccacaacat atcgtttgtc accccaccat ctagcagatc ctctagccaa
7381 ggcgcagtct caaccgtgcc taaagagatt ttggactcct ggactggcgc tttcaacacg
7441 cgcaggcagc cactcttcgc tcacattcgt aagcgagggg agtcacgggt gtaatgtgaa
7501 aagacaaaat tgatcatctt tcttttcttt agtgtctttt aaaa
//