Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC726079 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..4970
ORF2: 4951..6579
ORF3: 6579..7346
LOCUS LC726079 7346 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/36F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726079
VERSION LC726079.1
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., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April
2021-March 2022
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7346)
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (23-AUG-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..7346
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/36F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-04"
gene <1..4970
/gene="POL"
CDS <1..4970
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDQ32353.1"
/translation="KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVK
SGISGLPELTTVPQPDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYV
EKGLVLGVHKPPAAISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFD
NNCYAFCCWVLDLNDSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKAANIFLC
SLSTLFTRPIKDLIGKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSA
MIAPLLGDYELQGPEDIAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLG
AYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATY
MKTLDMEEEKARRLSTKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVM
ISGKPGIGKTHLAREVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMS
NPIHDALRIQELADTCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACS
RRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHG
KGVMKTLTTGSLIARASGLLHERMDEFELQGPTITTFNFDRNKITAFRQLAAENKYGL
VDTMKVGNQLKGVKTMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNT
SVQTNNELAGALHHLKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWS
KPQLDQNESETKEEAPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDE
EYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPT
RKQRKEERATLGLVTGSEIRKRNHDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSR
IVSFGSGWGFWVSPSLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRP
DVTGMILEEGAPEGTVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTG
SNAKGMDLGTTPGDCGCPYIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEG
GDDKGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSL
QQVMRDQLKPFTEPRGKPPRPGVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTT
SSGHPHHVRKNEFWNGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKV
YGKIKKRLLWGSDLSTMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHS
RYKYHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFK
ITINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVST
DIKLDPEQLTAKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLD
QSSILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITE
LKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 4951..6579
/gene="VP1"
CDS 4951..6579
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32354.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6579..>7346
/gene="VP2"
CDS 6579..>7346
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32355.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGE"
ORIGIN
1 ccaaacagcc tgccccgaga gacaaaccac aaaagccccc aagaccacca actcccgagt
61 tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa ccagtcatta
121 ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc ccccaaccgg
181 acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac agggaggcca
241 aggagccgct aacgggggca atattagaga tgtgggatgg agagatatac cactatggcc
301 tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc ataagcatgg
361 caagagtgga gctgacgccg ttgtcattgt actggcgtgt ggtgtacact ccccaatatc
421 tcatctcccc tgaaaccctc aggaggctca acggagaggc attcccttac accgcctttg
481 acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca tggcttagta
541 ggaggatggt acaaagaaca acgggcttct tcagacctta ccaagagtgg aacagaaaac
601 ccctgcctac catggatgac tccaaaatta agaaggcagc aaatatattc ctatgttcat
661 tgtccacatt gttcaccaga cccataaaag acctcatagg aaaaatcaaa ccattgaaca
721 tattgaatat cctggcaacg tgtgactgga cttttgccgg aatagtggag tctctgatac
781 tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct atgatcgctc
841 ccttactcgg ggactacgag ttgcaagggc cagaagacat cgccgttgaa ctcgtacctg
901 tggtaatggg ggggattggt ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgt
961 tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat ggcttagaga
1021 tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat gagctagcta
1081 tggtgagggc catagaggat gctgtactag atcttgaggc aatagaaaat aaccacatga
1141 caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg gacatggagg
1201 aggagaaagc caggaggttg tccacaaaat ctgcatcccc tgacatagtt gggacaatca
1261 acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc aaagaagagc
1321 tatctagcag gataagacca gtagttgtta tgatatctgg caaaccagga ataggcaaaa
1381 ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg gatcaaagag
1441 tcggactcat accacgaaac ggtgtggacc attgggatgc atacaaaggt gagagagtcg
1501 tgctgtggga cgactatggc atgagtaacc ctattcatga tgctcttcgc atacaagaat
1561 tggctgatac gtgtcccctt accttaaatt gtgacagaat cgaaaacaag ggaaaagttt
1621 ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca cttgattatg
1681 tcaactttga ggcctgttcc aggaggattg atttcctggt gtatgctgag gcaccagaag
1741 tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac gctttcaagc
1801 cggacttttc acacatcaag ctacagctcg caccccaagg cggctttgac aagaatggca
1861 acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg attgcccgtg
1921 catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc acaatcacca
1981 ccttcaattt cgaccggaac aaaatcacgg cattcagaca attggctgca gaaaacaagt
2041 atggattggt ggataccatg aaagttggca atcaattaaa aggagtgaaa actatggaag
2101 aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccagatcatc tacggtggtt
2161 ccacgtatga ccttgaatct gacggcaagg gcaaagtttt ggtggaaaag gtcaagaaca
2221 cctctgtaca gaccaacaac gagttggctg gggctctgca ccatctcaaa catgcccgaa
2281 tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa attgccggtg
2341 ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc tggtcgaagc
2401 cacaactaga tcaaaatgaa tcagagacta aggaagaggc ccccaagtca gaagatgacg
2461 agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa aacaaaactg
2521 gccgtggcaa gaagcacact gcattctcca gcaagggctt gagcgatgag gagtatgacg
2581 agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag tatcttcaag
2641 acagagacag atactatgag gagctcgcca ttgccaaggc cacggaagaa gacttttgtg
2701 aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa caaagaaagg
2761 aagagagggc cacattaggg ctagtaacag gttcagaaat cagaaaaaga aaccatgatg
2821 acttcaaacc caaagggaag ctgtgggccg atgacaacag gagtgttgac tacaatgaga
2881 aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt ggttctggct
2941 ggggcttctg ggtgtcacca agccttttca taacatcaac tcatgtaatc cccgcaggca
3001 taacagaagc atttggagtt cccatcaaac aaattcagat ccacaaatca ggcgaatttt
3061 gccgatttag attcccaaaa ccaattagac cagatgtgac aggaatgatc ttggaagagg
3121 gtgcgcctga gggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga gagctcatgc
3181 ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc atggttggcg
3241 gacagatggg tatgttgctc actggatcaa atgctaaagg gatggacttg ggaacaactc
3301 ctggtgattg tggctgtcct tacatctata aaaggggcaa tgactatata gccattgggg
3361 tgcacactgc agcagcccgt ggtggaaaca ctgtcatctg tgccacacag ggaagtgagg
3421 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca cccattctag
3481 gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggagatca tcgaacacgc
3541 cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg cgtgttaagg
3601 gtgggccttc cctgcagcag gtaatgagag accagttgaa gccattcact gaacccaggg
3661 gcaaacctcc aagaccaggt gtattggaag cagccaaaca aaccatcatc aatgtcctcg
3721 aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc tcacttgaca
3781 aaaccacttc cagcgggcac ccccatcacg tccgaaagaa tgaattctgg aatggtgaga
3841 ccttcactgg taaactggca gaccaagcat caaaagcaaa cctaatgttt gaggaaggga
3901 aacacatgac accagtgtac acagcagcac tcaaggacga gctagtcaag actgagaaag
3961 tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc atgatccggt
4021 gtgctaggtc atttggcggg cttatggacg agatgaaggc acactgcata tcactcccag
4081 tccgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa cattccagat
4141 acaaatatca ctatgatgca gactactctc gttgggattc aacacaacag agggcagtac
4201 tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg gcacaaatag
4261 tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa attacaataa
4321 atgaagggct cccttctggt gtgccatgca cttctcaatg gaactccatc gcacactggc
4381 tactaactct ttgtgccttg tctgaagtca ccaaactgtc ccctgatatt atacaggcaa
4441 attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata aaattggacc
4501 ctgaacagtt aaccgccaaa ttgaaggagt acggtctaaa accaacccgc ccagacaaaa
4561 ccgagggacc cctgattatc agtgaagatt tgaacggtct cactttcctc cgaaggacgg
4621 tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt ttgaggcaga
4681 tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata ccccattctc
4741 aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga ccctctttct
4801 acagtaaaat cagtaaattg gtcataactg aactcaaaga aggtggaatg gacttttacg
4861 tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc acgtgggagg
4921 gcgatcgcaa tctggctccc aatttcgtga atgaagatgg cgtcgaatga cgccgctcca
4981 tctactgatg gtgcagccgg cctcgtgcca gaaagtaaca atgaggtcat ggctcttgaa
5041 cccgtggctg gtgccgcctt ggcagctccg gtcaccggtc aaacaaatat tatagaccct
5101 tggattagag caaattttgt ccaggccccc aatggtgaat ttacagtctc cccccgaaat
5161 gcccctggtg aagtgctact gaatctagag ctgggtccag aattaaatcc ttatctggca
5221 catttagcaa gaatgtacaa tgggtatgcc ggtgggatgg aggtgcaggt catgttggct
5281 gggaacgcgt tcacagccgg caagttggtc ttcgccgccg tgccacccca tttcccgatt
5341 gaaaacctta gcccacagca aatcaccatg ttccctcatg tgatcataga tgtgagaacc
5401 ctggaacctg ttttattacc actccctgat gttaggaata acttcttcca ttataaccag
5461 aaagatgatc ccaagatgag aattgtggcc atgctttata cccccctcag gtctaatggt
5521 tcaggtgatg atgtgtttac agtctcctgt agagtgttga ctagaccttc ccctgacttt
5581 gacttcacat acctggtgcc accaacagtg gagtctaaaa caaagccatt caccctccca
5641 atcctcacac ttggggaact ttccaattct aggttcccag tgtccataga tcagatgtac
5701 accagcccta atgaaattat atcagtgcag tgtcaaaatg gtaggtgcac actggacggg
5761 gagctccaag ggacaacaca actccaagtc agtggcattt gtgcttttaa aggtgaagtg
5821 accgcccact tgcatgacaa tgatcaccta tataatgtca ccatcacaaa cttgaatggg
5881 tccccttttg atccctccga ggatatccct gcccctctgg gtgtgcctga cttccaggga
5941 agggtttttg gtgtcatctc ccaaagagat aaacacaata gtcctgggca taatgaacca
6001 gcaaacaggg gacacgacgc tgtggtccct acttacacag cacagtacac tccaaaactt
6061 ggacaaattc aaattggcac atggcaaact gacgacctta cagtcaacca accagtcaaa
6121 ttcaccccag ttggactcaa tgacactgaa cactttaacc aatgggtggt ccctaggtat
6181 gctggtgccc taaacctcaa tacaaacctt gccccttctg ttgctccagt atttccagga
6241 gagcgcctgc tcttcttcag atcatacatt cccctcaagg gcggttatgg aaacccagcc
6301 attgattgcc tactaccaca agagtgggtg caacacttct atcaggaagc agccccttca
6361 atgagtgagg tggcccttgt cagatacatc aacccggaca ctggtcgggc actgtttgag
6421 gccaagctcc acagagctgg tttcatgaca gtctcgagca acaccagtgc cccggtggtt
6481 gtgcctgcca acgggtactt cagatttgat tcttgggtga accaatttta ttctctcgcc
6541 cccatgggaa ctgggaatgg gcgtagaagg gttcaataat ggctggagct tttgtagctg
6601 gtcttgcagg ggacgtgctc agcaatgggc ttagttcatt aatcaatgca ggtgctaatg
6661 caataaatca gagggcagaa tttgatttta atcagaagtt gcagcaaaat tcttttaatc
6721 atgataagga gatgttgcag gctcagattc aggcaactaa gcagctgcag gcagacatga
6781 tggctataaa acaaggggtc ttgaccgctg gcggcttttc ccctgctgat gcagccagag
6841 gtgctgtgaa cgcgcccatg acacaggcgc tggattggaa tggcacaagg tattgggcac
6901 caaactccat gaggaccaca tcttattctg gaaaattcac atcaaccgcc ccagtgaggc
6961 aggctgactt tcagcacacc caaagccggc cttcgagtgg ctcctctgtg tcttcctttg
7021 ccactcagtc ttcaaggcca actctgacca caaccactgg ttcctcacat ggcacagcct
7081 catcaaattc aactcgcagc acaagcctct cccaatcaac ggtctccaga gctacatcta
7141 ggactggtga gtgggttaga gatcaaaata gaaatttgga accctacatg catggtgcct
7201 tacagacagc ctttgtcacc ccaccttcca gcagggcatc tgacgggaca gtctcaaccg
7261 tccctaaagg tgttttggac tcctggacac ctgcgtttaa cacccgcagg cagccgcttt
7321 ttgcacacct ccgtaagagg ggggag
//