Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC646332 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5092
ORF2: 5073..6701
ORF3: 6701..7480
LOCUS LC646332 7480 bp RNA linear VRL 05-AUG-2021
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/1192F/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC646332
VERSION LC646332.1
KEYWORDS .
SOURCE Norovirus GII.2
ORGANISM Norovirus GII.2
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
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.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo(April
2020-March 2021)
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7480)
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.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (02-AUG-2021) Contact:Yuu 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..7480
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/1192F/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2020-12"
gene <1..5092
/gene="POL"
CDS <1..5092
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDA36032.1"
/translation="ASNDATAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP
APRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDV
ANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDTFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGSQLKGVKTME
ELKQAIRNVTINRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKH
ARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNELDTKEEAPK
SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRRQRKEERATLGLVTGS
EIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF
ITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5073..6701
/gene="VP1"
CDS 5073..6701
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDA36033.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6701..7480
/gene="VP2"
CDS 6701..7480
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDA36034.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSYVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ggcgtctaac gacgctaccg ctgccgttgc ttgcaacaac aacaacgaca aagaaaaatc
61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag
121 gcccaaacag cctgccccga gagacaaacc acaaaagccc ccaagaccac caactcccga
181 gttggtcaag aggatacccc ctcccccacc taacggcgaa gaagaagaag aaccagtcat
241 taggtatgag gtcaagagtg ggatctctgg cctacccgag cttacaacag tcccccaacc
301 ggacgtggcc aacacagcat tcagtgttcc accactgagc ttgagagaaa acagggaggc
361 caaggagccg ctaacagggg caatattaga gatgtgggat ggagagatat accactacgg
421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat
481 ggcaagagtg gagctgacgc cgttgtcatt gtactggcgt gtggtgtaca ctccccaata
541 tctcatctcc cctgaaaccc tcaggaggct caacggagag gcgttccctt acactgcctt
601 tgacaacaac tgctatgctt tttgctgctg ggtgttagac ctcaatgact catggcttag
661 caggaggatg atacaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa
721 acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat tcctatgttc
781 attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta aaccattgaa
841 catattgaat atcctggcaa cgtgtgactg gacttttgcc ggagtagtgg agtctctgat
901 attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc
961 tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg aacttgtgcc
1021 cgtggtaatg ggggggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat
1081 gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga
1141 gatactcaaa ttggttatga agtggttctt cccaaagaaa gaggaggcca atgagctagc
1201 tatggtgagg gccatagagg atgctgtatt agaccttgag gcaatagaaa ataaccacat
1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga
1321 ggaggagaaa gccaggaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat
1381 caacgcccta ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga
1441 gctatctagt aggataaggc cagtagttgt tatgatatct ggcaagccag gaataggcaa
1501 aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag gagatcaaag
1561 agtcggactc ataccacgaa acggtgtgga ccattgggat gcatataaag gtgagagagt
1621 tgtgttgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc gcatacaaga
1681 attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt
1741 ttttgacagt gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta
1801 tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga
1861 agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg acaccttcaa
1921 gccggacttt tcacacatca agctacagct tgcaccccag ggcggctttg ataagaatgg
1981 caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg
2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggcc ccacaatcac
2101 cacctttaat ttcgaccgaa acagaatcac ggcattcaga caattggctg cagaaaacaa
2161 gtatggattg gtggatacca tgaaagttgg cagtcaatta aaaggagtga aaaccatgga
2221 agaactcaaa caagcaatca ggaatgtgac catcaatagg tgccagatca tctacggtgg
2281 ttccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa
2341 cacctctgta cagaccaata acgagttggc tggggccctg caccatctca aacatgcccg
2401 aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg
2461 cgctgcgttt gtcaccacgc gcatcgcacg ccgcatgaac atacaagaac tctggtcgaa
2521 gccacaacta gatcaaaatg aattagatac taaggaagag gcccccaagt cagaagacga
2581 cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca aaaacaaaac
2641 tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga
2701 cgagtacaag agaataagag aagagagaaa tgggaagtac tctatagagg agtatcttca
2761 agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag aagacttctg
2821 tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga gacaaagaaa
2881 ggaagagagg gccacattag gactagtaac aggttcagaa atcagaaaaa gaaaccctga
2941 tgacttcaaa cccaaaggga agctgtgggc cgatgacaac aggagtgttg actacaatga
3001 gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct ttggctctgg
3061 ctggggcttc tgggtgtcac caagcctttt cataacatca actcatgtaa tccccgcagg
3121 cataacagaa gcatttggag tctccatcaa acaaattcag atccacaaat caggcgaatt
3181 ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga
3241 aggtgcgcct gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat
3301 gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc gcatggttgg
3361 cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggact tgggaacaac
3421 tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactata tagtcattgg
3481 ggtgcacact gcagcagccc gtggtggaaa cactgtcatc tgtgccacac agggaagtga
3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg cacccattct
3601 aggccctggg ggtgcgccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac
3661 gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa
3721 gggtgggcct tccctgcagc aggtgatgag agaccagttg aagccattca ctgaacccag
3781 gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatca tcaatgtcct
3841 cgaacaaacc ctggaccctc cacaaaaatg gacttacgca caggcgtgcg cctcacttga
3901 caaaaccacc tccagtgggc acccccatca cgtccgaaag aatgaattct ggaatggtga
3961 gaccttcact ggtaaactgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg
4021 gaaacacatg acaccagtgt acacagcagc actcaaggac gagctagtca agactgagaa
4081 aatttatgga aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg
4141 gtgcgctagg tcatttggtg ggcttatgga cgagatgaag gcacactgca tatcactccc
4201 agtccgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag
4261 atacaaatat cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt
4321 tctagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaac
4381 agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta aaatcacaat
4441 aaatgaaggg ctcccttctg gtgtgccatg cacttctcaa tggaactcca tcgcacactg
4501 gctgctaact ctctgtgcct tgtctgaagt caccaaacta tcccctgaca ttatacaggc
4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agtaccgaca taaaattgga
4621 ccctgaacag ttaaccgcca aattgaagga gtacggcctg aaaccaaccc gcccagacaa
4681 aactgaggga cccctgatca tcagtgaaga tttgaacggt ctcactttcc tccgaaggac
4741 ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgaggca
4801 gatgtactgg actagaggac caaatcatga ggaccccaat gagacaatga taccccattc
4861 ccaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt
4921 ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga tggactttta
4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga
5041 gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgaat gacgccgctc
5101 catctactga tggtgcagcc ggcctcgtgc cagaaagtaa caatgaggtc atggctcttg
5161 aacccgtggc tggtgccgcc ttggcagccc cggttaccgg tcaaacaaat attatagacc
5221 cttggattag agcaaatttt gtccaggccc ccaatggtga attcacagtc tctccccgaa
5281 atgcccctgg tgaagtgcta ctgaatctag agttgggtcc agaattaaat ccttatctgg
5341 cacatttagc aagaatgtac aatgggtatg ccggtgggat ggaggtgcag gtcatgttgg
5401 ctgggaacgc gttcacagcc ggcaagttgg tcttcgctgc cgtgccaccc cacttcccgg
5461 ttgaaaacct tagcccacag caaatcacca tgttccctca tgtgatcata gatgtgagaa
5521 ccttggaacc tgttttatta ccactccctg atgttaggaa taacttcttc cattataacc
5581 agaaagatga tcccaagatg agaattgtgg ctatgcttta cacccccctc aggtctaatg
5641 gttcaggtga tgatgtgttt acagtctcct gtagggtgtt gactagacct tcccctgact
5701 ttgacttcac atacctggtg ccaccaacag tggagtctaa aacaaaacca ttcaccctcc
5761 caatcctcac acttggggag ctttccaatt ctaggttccc agtatccata gaccagatgt
5821 acaccagccc taatgaaatt atatcagtac agtgtcaaaa tggtaggtgc acattggacg
5881 gggagctcca ggggacaaca caactccaag tcagtggcat ttgtgctttc aaaggtgaag
5941 tgaccgccca cttgcatgac aatgatcacc tatataatgt caccatcaca aacttgaatg
6001 ggtccccttt tgatccctcc gaggatatcc ctgccccttt gggtgtgcct gacttccagg
6061 gaagggtttt tggtatcatc tcccaaagag ataaacacaa tagtcctggg cataatgaac
6121 cagcaaacag gggacatgac gctgtggtcc ctacttacac agcacagtac actccaaaac
6181 ttggacaaat tcaaattggc acatggcaaa ctgacgacct tacagtcaac cagccagtta
6241 aattcacccc agttggactc aatgacactg aacactttaa ccaatgggtg gtccctaggt
6301 atgctggtgc tctaaacctc aatacaaacc ttgccccttc tgttgctcca gtatttccag
6361 gagagcgcct gctcttcttc agatcataca ttcccctcaa gggcggttat ggaaacccag
6421 ccattgattg cctactacca caagagtggg tgcagcactt ctatcaggaa gcagcccctt
6481 caatgagtga ggtggccctc gtcagataca tcaacccgga cactggtcgg gcactgtttg
6541 aggccaagct ccacagagct ggtttcatga cagtctcgag caacaccagt gccccggtgg
6601 ttgtgcctgc caacgggtac ttcagatttg attcttgggt gaaccaattt tactctctcg
6661 cccccatggg aactgggaat gggcgtagaa gggttcaata atggctggag cttttgtagc
6721 tggtcttgca ggggacgtgc tcagcaatgg gcttagttca ttaatcaatg caggtgctaa
6781 tgcaataaat cagagggcag aatttgattt taatcaaaaa ttgcagcaaa attcttttaa
6841 tcatgataag gagatgttgc aggctcagat tcaggcaacc aagcagctgc aggcagacat
6901 gatggctata aaacaagggg tcttgaccgc tggcggcttt tcccctgctg atgcagccag
6961 aggtgctgtg aacgcgccca tgacacaggc gctggattgg aatggcacaa ggtattgggc
7021 accaaactcc atgaggacca catcttattc tggaaaattc acatcaaccg ccccagtgag
7081 gcaggctgac ttccagcaca cccaaagccg gccttcgagt ggctcctatg tgtcttcctt
7141 tgccactcag tcttcaaggc caactctgac cacaaccact ggttcctcac atggcacagc
7201 ctcatcaaat tcaactcgca gcacaagcct ctcccaatca acggtctcca gagctacatc
7261 taggactggt gagtgggtta gagatcaaaa tagaaatttg gaaccctaca tgcatggtgc
7321 cttacagaca gcctttgtca ccccaccttc cagcagggca tctgacggga cagtctcaac
7381 cgtccctaaa ggtgttttgg actcctggac acctgcgttc aacacccgca ggcagccgct
7441 ttttgcacac ctccgtaaga ggggggagtc acaagcttag
//