Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC699527 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5089
ORF2: 5070..6692
ORF3: 6692..7498
LOCUS LC699527 7534 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2047/Tokyo/2019/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699527
VERSION LC699527.1
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JOURNAL Unpublished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 7534)
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..7534
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2047/Tokyo/2019/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2019-12"
gene <1..5089
/gene="POL"
CDS <1..5089
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDG75385.1"
/translation="SNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPP
PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK
QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK
DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT
LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED
PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5070..6692
/gene="VP1"
CDS 5070..6692
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75386.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6692..7498
/gene="VP2"
CDS 6692..7498
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75387.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtctaacgac gcttccgctg ccgctgttgc caacagcaac aacgacatcg caaaatcttc
61 aagtgacggt gtgttttcta acatggctgt cacttttaag cgggccctcg gggcgcggcc
121 taaacagccg cccccgaagg aaataccacc cagacccccg cgaccaccca caccagaatt
181 ggtcaaaaag atccctcctc ccccacccaa cggggaggat gaactagtgg tctcttacaa
241 cgccaaagat ggcgtttccg gactgcctga gctcaccact gtcagacaac cggaagaaac
301 caacacggcg ttcagtgtcc ccccactcaa ccaaagggag agcagggacg ccaaggagcc
361 actaactggg acaatcattg aaatgtggga tggagaaatc taccattacg gcctgtacgt
421 ggaacgaggt cttatacttg gtgtgcacaa gccaccagca gccatcagcc tcgctaaggt
481 cgagctggca ccactctctt tgttctggag acctgtatac accccccagt accttatctc
541 tccagatact cttaggagat tacatggaga gtcattcccc tacactgcat ttgacaacaa
601 ttgctacgcc ttttgttgct gggtattaga cctaaacgac tcatggctaa gcaggagaat
661 gattcagaga acaacaggct tctttaggcc gtaccaggat tggaacagga aacccctccc
721 cactatggat gattccaaat taaagaaggt agccaacata tttttgtgca ctttgtcttc
781 actattcacc aggcccatca aggacataat agggaagttg aaacctctca acatccttaa
841 tattctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttaa tactcttggc
901 agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg cccccttgct
961 aggtgattat gaactgcaag gacccgagga ccttgcagtg gaactggtcc caatagtgat
1021 gggggggata ggtttggttc taggatttac caaagagaag atcggaaaga tgctgtcatc
1081 agctgcatcc actttaagag cttgtaaaga ccttggtgca tacggactgg aaatcttaaa
1141 attggtcatg aagtggttct tcccaaagaa agaggaagca aatgaactgg ctatggtgag
1201 atccatcgag gatgcagtac tagacctcga ggcaattgaa aacaaccaca tgaccaccct
1261 gctcaaagac aaagacagct tgacaaccta catgagaacc cttgaccttg aggaggagaa
1321 agccagaaaa ctctcaacca aatctgcttc acccgatatt gtgggcacaa tcaactctct
1381 tctggcaaga atcgctgctg cacgctccct agtgcatcgg gcgaaagaag agctctccag
1441 cagaccgaga cctgtcgttg taatgatatc gggaagacca gggataggga aaactcacct
1501 tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc gtgtgggcct
1561 tatcccacgc aatggtgtcg accattggga cgcatacaag ggcgaaaggg ttgtcctatg
1621 ggacgactat ggaatgagca accccatcca tgatgccctt aggttgcagg agcttgctga
1681 cacttgcccc ctcacgctaa attgtgacag aattgagaac aaaggaaaag tctttgacag
1741 tgacgccata attatcacca ccaacctggc caacccagca ccactggatt atgtcaattt
1801 tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg aggtggagaa
1861 ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca gtcctgactt
1921 ctcacacata aaactgtcat tggctccaca gggtggtttt gacaagaacg gcaacacccc
1981 gcatggaaaa ggggtcatga agaccctcac cactggctcc ctcatcgccc gagcatcagg
2041 gttactccat gagaggctag atgaatatga attgcaaggc ccagccctca ccactttcaa
2101 ctttgaccgc aacaagatac ttgcttttag acagctcgct gctgaaaaca agtatgggct
2161 gatggacaca atgagagttg gaaaacagct caaggatgtc aagactatgt cagacctcaa
2221 acaggcactc aagaacatcg cgatcaagaa gtgccagata gtgtacaatg gtggcaccta
2281 cacacttgag gctgatggca agggcagtgt gaaagttgac aaagtgcaaa gtgccactgt
2341 gcagaccaac aatgaactag ccggtgccct acaccaccta agatgcgcta gaatcagata
2401 ctatgttaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg gggctgcatt
2461 cgtcaccacg cgcatcgcta agcgcatgaa tatacagaat ctctggtcca agccacaggt
2521 ggaagacaca gaagagatgg ccaacaaaga tggttgccta aaacccaaag atgatgaaga
2581 gtttgtcgtt tcatccgacg acatcaaaac tgagggcaag aaagggaaga acaagtccgg
2641 ccgtggcaag aagcacacag ccttttcaag taaagggctc agtgatgagg agtatgatga
2701 gtacaagaga atcagagaag aaaggaatgg taagtactcc atagaagagt accttcagga
2761 cagagacagg tactacgagg aggtggccat tgccagggca accgaagagg acttctgtga
2821 agaggaggag gccaaaatcc ggcagaggat tttcagacca acaaggaaac aacgcaaaga
2881 agagagggct tctctcggct tggtcacagg ctctgaaatc aggaagagaa acccagaaga
2941 cttcaaaccc aagggaaagc tgtgggctga tgacgacaga agtgttgact acaatgagaa
3001 actcaacttt gaggccccac caagcatctg gtcgcggata gtcaactttg gttcaggctg
3061 gggcttctgg gtctccccca gtctgtttat aacatcaacc catgtcatac cccaaggtgc
3121 aaaggagttc ttcggagtcc ctatcaagca aatccagata cacaagtcag gtgaattctg
3181 ccgattgaga ttcccaaagc caatcagaac cgatgtgacg ggcatgattc tagaagaagg
3241 tgcgcccgag gggaccgtgg ccacactgct catcaagaga ccaactggag agctcatgcc
3301 tctggcagcc agaatgggga cccatgcaac catgaaaatt caggggcgca cagttggagg
3361 gcaaatgggt atgctcctga caggatccaa cgccaagagt atggacctag gcacaacacc
3421 aggcgactgc ggctgcccct acatctacaa gagggggaat gactacgtgg tcataggggt
3481 ccatacggct gctgcccgtg gaggaaacac tgtcatatgt gccacccagg gaagtgaggg
3541 agaggccaca cttgaaggag gtgacagtaa agggacatac tgtggcgcac caatcttggg
3601 cccagggagc gctccaaagc tcagcaccaa gaccaagttt tggagatcat ccacaacacc
3661 actcccacct ggcacctacg aaccagccta cctcggtggc agagacccta gagtcaaagg
3721 tggcccttca ttgcaacaag ttatgaggga ccagctgaag ccattcacag aacccagagg
3781 caaaccgcca agaccaaatg tgttggaagc tgccaagaaa accatcatca atgtccttga
3841 gcaaacaatt gatccacccc aaaaatggtc atttgcgcaa gcttgcgcat cccttgacaa
3901 aaccacctcc agcggccacc cgcaccacat gcggaaaaac gactgttgga atggggagtc
3961 cttcacagga aagttggctg accaagcctc caaggccaac ctaatgtttg aagagggaaa
4021 gaacatgact ccagtctaca caggtgcact taaagatgag ttggtaaaga ccgataaagt
4081 ttatggtaag gtcaagaaga ggcttctatg gggttcagat ctggcgacca tgatacggtg
4141 cgcccgagct tttggaggcc tcatggatga actcaaggca cactgtgtca cactccctgt
4201 cagagttggt atgaacatga atgaggatgg ccccatcatc ttcgagaagc actccagata
4261 tagatatcat tatgatgctg actattcccg gtgggactca acacaacaaa gggatgtgct
4321 agcagcagca ctagaaatca tggttaagtt ctctccagaa ccacacctgg cccagatagt
4381 tgcagaagac ctcctttccc ctagcgtgat ggatgtgggt gactttcaaa tatcgataag
4441 tgagggtctc ccctctgggg tgccttgcac ctctcagtgg aattccatcg cccactggct
4501 cctcactctg tgtgcacttt ctgaagtcac ggacctgtcc cctgatatca ttcaggccaa
4561 ctcccttttc tccttctatg gtgatgatga gattgtaagc acagacataa agttggaccc
4621 agagaggcta acagcaaaac tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac
4681 tgaaggaccc ctcgtcatct ctgaagacct ggatggtctg acattcctcc ggagaactgt
4741 gacccgtgat ccagctggct ggtttggaaa attggaacaa agttcaattc ttaggcaaat
4801 gtactggacc aggggtccca accatgaaga cccatttgaa acaatgatac cacactccca
4861 aagacccata caattgatgt ccttgctggg cgaggctgca ctccacggcc cggcattcta
4921 cagcaaaatc agcaaattag tcattgcaga gttgaaggaa ggtggcatgg atttttacgt
4981 acccagacaa gagccaatgt tcaggtggat gagattctca gatctgagca catgggaggg
5041 cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac gtcaacccat
5101 ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg gctctggagc
5161 ccgttgttgg tgccgccatt gcggcacctg tagcgggcca acaaaatgta attgacccct
5221 ggattagaaa caattttgta caagcccctg gtggagagtt tacagtatcc cctagaaacg
5281 ctccaggtga aatactatgg agcgcgccct tgggccctga tctaaatccc tacttgtctc
5341 atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta attctcgcgg
5401 ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt cccaccaaat ttcccaactg
5461 aaggcttgag ccccagtcag gtcactatgt tcccccatat agtagtagat gttaggcaac
5521 tagaacctgt gttgattccc ttacccgatg ttaggaataa tttctatcat tataatcaat
5581 caaatgatcc caccattaag ttgatagcaa tgttgtatac accacttagg gctaataatg
5641 ctggggatga tgtcttcaca gtctcttgcc gagttctcac gagaccatcc cccgattttg
5701 atttcatatt tctagtgcca cccacagttg agtcaagaac taaaccattc tctgtcccag
5761 ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa aagttgttca
5821 cgggtcccag cagtgccttt gttgtccaac cacaaaacgg taggtgcacg actgatggcg
5881 tgctcctagg caccacccaa ctgtctcctg tcaacatctg cacctttaga ggagatgtca
5941 cccatatcac aggtagtcat aattacacaa tgaatttggc ttctcaaaat tggagtaact
6001 acgacccaac agaagaaatc ccagcccctc tagggactcc agactttgtg gggaagattc
6061 aaggcatgct tacccaaacc acaaggacag atggctcaac acgcggccac aaagccacag
6121 tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt gaaactgaca
6181 caaacaatga ttttgaagct aaccaaaaca caaagttcac cccagttggt gtcatccaag
6241 atggtggcac cacccatcga aatgaacccc aacagtgggt actcccaagt tactcaggca
6301 ggaacactcc taatgtgcat ctggcccccg ctgtggcccc cacttttccg ggtgagcaac
6361 tcctcttctt tagatccacc atgcccggat gcagcgggta ccccaacatg gatttggatt
6421 gtctgctccc ccaggaatgg gtgcagtact tctaccagga ggcagcccca gcacaatctg
6481 acgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt gaatgtaagc
6541 ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg gttatccccc
6601 ccaatggtta ttttaggttt gattcctggg ttaaccagtt ttacacgctt gcccccatgg
6661 gaaatggagc ggggcgtaga cgtgcactat aatggctgga gctttctttg ctggattggc
6721 atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg gggccatcaa
6781 ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa gcatccttcc aatttagcag
6841 caatctacaa caggcttcct ttcaacatga caaagagatg ctccaagcac aaattgaggc
6901 taccaaaagg ttacaacagg aaatgatgaa agttaagcag gcaatgctcc tagagggtgg
6961 gttctctgag acagacgcag cccgcggggc aatcaacgcc cctatgacaa aagccttgga
7021 ctggagcggg acaaggtact gggctcctga tgctaggact acaacataca atgcaggccg
7081 cttttccacc ccccaaccat caggggcgct gccaggaaga gctaatttta gggatgctgt
7141 ccctgctcgg ggttcctcta gtaagtcttc taattcttct actgctactt ctgtgtattc
7201 aaatcaaact acttcaacga gacttggttc tacagctggt tctggtacca gtgtctcgag
7261 cttcccgtca actgcaagga ctaggagctg ggttgaggac caaagtagga atttgtcacc
7321 tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccatctagca ggtcctctag
7381 ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg gcgctttcaa
7441 cacgcgcagg cagccactct tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg
7501 tgaaaagaca aaattgatta tctttctttt cttt
//