Typing tool
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Typing tool
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Complete norovirus genomes
| LC646339 | GI.6 | |
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| GI.P11 |
ORF1: 1..5355
ORF2: 5339..6961
ORF3: 6961..7590
LOCUS LC646339 7590 bp RNA linear VRL 02-SEP-2021
DEFINITION Norovirus GI.6 Hu/GI.6[P11]/1232F/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC646339
VERSION LC646339.1
KEYWORDS .
SOURCE Norovirus GI.6
ORGANISM Norovirus GI.6
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JOURNAL Unpublished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 7590)
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..7590
/organism="Norovirus GI.6"
/mol_type="genomic RNA"
/strain="Hu/GI.6[P11]/1232F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:647520"
/country="Japan:Tokyo"
/collection_date="2021-01"
gene <1..5355
/gene="POL"
CDS <1..5355
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDA36050.1"
/translation="SKDVVATNVASNNNANNTSATSRFLSRFKGLGGGASPPNPIKIK
STEMALGLIGKTAQEAVGASDLPPKQQRDRPPRTQEEVQYGMGWTERPVDQNVKSWEE
LDTSIKEEILDSHKEWFDAGGLGPCTMPSTCEQAKDDSPPGEQVRWSVRDGVNLGVNR
LTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTVGVHS
PQAAFSVARVTIQPIAAWWRVCYMPQPKHRLSYDQLRELENEPWPYAAITNNCFEFCC
QVMNLEDTWLQRRLITSGRFHHPSQSWSQQTPEFQQDSKLELVRDAILAAVNGLVSQP
FKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASLLPDF
HLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLEIFSL
LKKYFFGGDQTERTLKGIETAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEEEKAR
KLSAKNADPHVISSTNALISRIAMARSALAKAQAEMTSRMRPVVIMMCGPPGIGKTKA
AEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNKLQAI
ADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAP
EVEQIRRVSPGDTSALKDCFKSDFSHLRMELAPQGGFDNQGNTPFGKGVMKPTTINRL
LIQAVALTMERQDEFRLQGKMYDFDDDRVSAFTTMARDNGLGILSMASLGKKLRGVTS
MDGLKNALKGYKIGACTIKWQAKVYSLETDGNSVNIREEKNVLTQQQQSVCAASIALT
RLRAARAVAYASCIQSAITSILQIAASALVVNRAVKRMFGTRTAALSLEGPPKEHKCR
VHQAKAAGKGPIGHDDMVDKYGLCETEEDEEAVHTEIPSATMEGKNKGKNKKGRGRKN
NYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGE
TEMEIRHRVFYKSKSKKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDEREVDY
NERINFEAPPTLWSRVTKFGSGWGFWVSPTVFITTTHVIPTSAKEFFGEPLASIAIHR
AGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRI
QGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKSGNTV
VCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVYEPAY
LGGRDPRVSGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMDTPVP
WSYSDACQSLDKTTSSGFPHHKKKNDDWNGTAFIRELGEQAAHANNMYEQAKSMKPMY
TAALKDELVKPEKVYQKVKKRLLWGADLGTVIRAARAFGPFCDAIKSHTIKLPIKVGM
NSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELASVVAQ
DLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDVIQSM
SYFSFYGDDEIVSTDIEFDPAKLTQVLKEYGLKPTRPDKSEGPIIVRKSVDGLVFLRR
TISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKIQLISLLGEASLHG
EKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV
"
gene 5339..6961
/gene="VP1"
CDS 5339..6961
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDA36051.1"
/translation="MMMASKDAPTSPDGASGAGQLVPEANTAEQISMDPVAGASTAVA
TAGQVNMIDPWIFNNFVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLSQMYNG
WVGNMRVRILLAGNAFTAGKIIICCVPPGFDARILTIAQATLFPHLIADVRTLEPVEL
PLEDVRNVLFHNSSQPQPTMRLVAMLYTPLRTGGGSGGTDAFVVAGRVLTCPAPDFSF
LFLVPPSVEQKTRVFSVPNIPLKDLSNSRVPVPVQGMFMSPDVNQSVQFQNGRCQIDG
QLQGTTPVSLSQLCKIRGKTSSNARVLNLSEVDGTPFIPLESPAPVGFPDLGGCDWHV
NFTFQAQNQDPSQSVTFATNDASFVPYLGSISPHNGGDFHAGDIIGSLGWISAPSDNS
QLNVWTIPKYGSSLPDVTHLAPAVFPPGFGEVILYFYSTFPGSGQSSQLQVPCLLPQE
FITHFCNEQAPIAGEAALLHYVDPDTGRNLGEFKLYPDGFMTCVPNSVSSGPQTLPIN
GVFVFVSWVSRFYQLKPVGTASAARRLGLRRI"
gene 6961..7590
/gene="VP2"
CDS 6961..7590
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDA36052.1"
/translation="MAQAVIGAIAASAAGSILGAGIQAGAEAGLQAQRYQQDLQLQQN
SFKHDKEMLGYQVQASNALLAKNLNTRYALLQAGGLSSADAARAVAGAPVTRIVDWNG
TRIAAPTSSTTTLRSGGFMAVPIPLSSKTKQPVMSGQDNPNYAASSISRTASWVQSQN
SMRSVSPFHSDALRTVWVTPPGSSSTSSVQSSFYGVFNTDRLPLFANRR"
ORIGIN
1 tcgaaagacg tcgttgcgac taatgttgca agcaacaaca acgctaacaa cactagtgct
61 acatctcgat ttttgtcgag atttaagggt ttaggtggcg gcgcgagccc ccctaacccc
121 ataaagatca aaagcacaga aatggccttg ggtttgattg gcaagacagc ccaagaggca
181 gtaggtgcca gtgacctacc gcccaaacaa caaagagatc ggccccccag aacccaggag
241 gaagttcagt acggtatggg gtggactgaa aggcccgtgg accagaatgt taagtcatgg
301 gaggaacttg acacctccat caaggaagag attttggaca gccacaaaga atggttcgat
361 gccggtggtt tgggcccgtg caccatgccc tcaacttgtg aacaggccaa agatgatagc
421 ccacctggtg agcaagtcag atggtcagtg cgtgatggag ttaaccttgg agtgaaccgt
481 ctcacgacag tgagtggccc cgagtggaac ctctgccctc taccccccat tgacctaagg
541 aatatggaac cagccagtga acccaccatt ggagacatga tagagtttta tgaaggccac
601 atctatcact actccatata cattgggcaa ggaaagacag ttggtgttca ttccccacag
661 gcagcattct cagtggctag agtaaccatc caacctatag ctgcttggtg gagggtttgt
721 tatatgcccc agcccaaaca tagactgagt tatgaccaac ttagggaatt ggaaaatgaa
781 ccctggccat atgcagctat taccaacaat tgttttgagt tttgttgtca agtcatgaat
841 cttgaggaca catggttgca gaggcggcta ataacatcag gtagattcca ccatccttcc
901 cagtcttggt cacaacagac cccagaattt cagcaggaca gtaaattgga gctggttagg
961 gatgctatat tggctgcagt aaatggcctt gtttcacaac ccttcaagaa tttcttgggc
1021 aagctcaagc ctcttaatgt attaaacatc ctatctaact gtgactggac ttttatgggg
1081 gtggtagaga tggttatact acttcttgag ctctttggcg tgttctggaa cccgcccgat
1141 gtgtctaatt ttatagcatc tctcctccct gacttccacc tccaggggcc agaagacctg
1201 gcccgggatt tggtgccagt cattcttggt ggcataggac tagccattgg atttaccaga
1261 gataaagtca ccaaggtcat gaagagtgct gtggatggac tccgggctgc tacacagctg
1321 gggcaatacg ggttggaaat attctcactc ctcaagaagt atttctttgg tggggatcag
1381 accgaacgaa ccctcaaagg cattgaaaca gcagtcatag acatggaggt tttgtcctcc
1441 acatcagtga cacaattggt gagagacaag caggcagcta aagcttacat gaacatcctg
1501 gataatgaag aggaaaaagc tagaaaactc tctgctaaga atgctgaccc ccatgtaata
1561 tcctcaacaa atgccctaat atcacgtata gccatggcgc gatccgccct ggctaaggct
1621 caggctgaga tgaccagccg aatgaggcca gttgtcatca tgatgtgtgg accccctgga
1681 attggtaaaa ctaaagcagc ggagcacttg gcaaagcgcc tagctaatga gatcaggcct
1741 ggcggtaaag tgggactggt accacgtgag gctgtcgacc actgggatgg ctaccatggt
1801 gaggaagtga tgctatggga tgactatggt atgacaaaga tacaagatga ctgcaacaag
1861 ctccaggcta ttgctgactc tgccccactc actctcaatt gtgacaggat tgaaaataaa
1921 ggaatgcagt ttgtgtcaga tgcaatagtc atcaccacca acgctccagg gcctgcccct
1981 gtggactttg tcaatcttgg ccctgtgtgt agacgggttg acttcctggt ctactgttcc
2041 gccccagagg tagagcagat aaggagagtc agccctggag acacgtcggc acttaaagac
2101 tgcttcaagt cagatttctc ccacctgagg atggagttag ctccccaagg ggggtttgac
2161 aaccagggga acacaccatt cggcaagggt gtcatgaaac caacaaccat caacaggctc
2221 ctcatacaag ctgtggctct caccatggag agacaggacg agttccgtct ccaagggaag
2281 atgtatgatt ttgatgatga tagggtgtca gcctttacca ccatggcacg cgataacgga
2341 ttgggcatcc tgagtatggc gagcctaggc aagaagctgc gcggtgtcac atcgatggat
2401 ggcctgaaga atgctttgaa agggtataaa attggtgcgt gcacaatcaa gtggcaggcc
2461 aaggtgtatt cactagagac agatggcaac agtgttaaca tcagggagga gaagaatgtc
2521 ttgactcaac aacagcagtc ggtgtgcgct gcctctattg cactcacccg tctgcgggcc
2581 gcacgcgcgg tggcgtatgc gtcatgcatt caatcagcca taacctccat actacaaatt
2641 gctgcctctg ccctagtggt caacagggcc gtgaaaagga tgtttggcac acgcactgct
2701 gctttgtctc tagagggccc ccccaaagaa cacaaatgca gagtccacca ggctaaagcc
2761 gcaggaaaag ggcccattgg ccatgatgat atggttgata aatatggcct gtgcgagact
2821 gaggaggatg aagaagcagt ccacactgag ataccatctg ccaccatgga aggtaagaac
2881 aaaggaaaga acaagaaagg gcgcggccga aagaacaact acaacgcctt ttcccgtagg
2941 gggctcaatg acgaagagta cgaggagtac aagaaaatac gggaagagaa gggtggtaac
3001 tacagcattc aagagtacct agaggataga caaagatatg aagaggagct tgctgaggtt
3061 caagcaggtg gagatggagg aatcggtgaa actgaaatgg aaatccgcca cagagtattc
3121 tataagtcta agagcaagaa gcaccaccag gaagaacgac gccaactggg gttagttaca
3181 ggttctgaca tccggaaaag aaaaccaatt gactggaccc cccctaagtc agcatgggca
3241 gatgatgagc gtgaagtgga ctacaatgag aggatcaact ttgaggcgcc ccctaccttg
3301 tggagccggg tcacaaagtt tggatctgga tggggcttct gggtcagtcc cacagtcttc
3361 ataaccacaa cgcacgttat accaaccagt gcaaaagagt tctttggtga accccttgcc
3421 agcatagcca tccatagagc cggagaattc actctcttca ggttctctaa gaaaatcagg
3481 cccgatctca cgggtatgat tcttgaggaa ggttgcccag agggtacggt gtgctcagtg
3541 ttaataaaaa gggactccgg tgagctacta ccactggctg tgagaatggg cgcaatagca
3601 tcaatgcgca tacagggtcg ccttgtccat ggccagtctg gtatgttgct cactggggcg
3661 aatgctaaag gcatggacct cggaactatt ccaggggatt gtggagctcc ctatgtctat
3721 aagagagcaa atgactgggt ggtttgtggt gtgcacgccg ctgccactaa atcaggcaac
3781 acagtggtgt gcgccgtcca ggctagtgaa ggggaaacca cacttgaggg gggtgacaaa
3841 ggtcactatg ccggacatga gataatcaag catggatgtg gtccagccct gtcaaccaaa
3901 acaaagttct ggaaatcgtc ccctgagcca ctgccccctg gagtctatga acctgcatac
3961 ctcggtggtc gggatccaag agtgagtggt ggcccctcgc tccagcaggt attacgggat
4021 cagttaaaac catttgctga gccacgtggg cgtatgccgg aaccaggtct cctggaggcc
4081 gcagttgaga ctgtgacctc atcactggag caggttatgg ataccccagt gccgtggagt
4141 tacagcgatg catgtcaatc cctagataaa accactagct ctggttttcc ccatcacaag
4201 aagaagaatg atgattggaa cggcaccgcc ttcattagag agttgggaga gcaggcagcg
4261 cacgccaata acatgtacga acaagctaag agcatgaagc ccatgtacac ggcggcgctt
4321 aaggacgaat tagtgaaacc agaaaaagtg taccaaaaag tgaagaagcg cttgctttgg
4381 ggagcagatc taggaacagt gatccgggcc gcacgggcct ttggcccatt ctgtgatgcc
4441 ataaagtccc acacaattaa attacctatc aaagttggaa tgaattcaat tgaggatggg
4501 ccattaattt atgcagagca ttcaaaatat aaatatcact ttgatgcaga ctatacggct
4561 tgggactcaa cacaaaatag gcaaattatg actgaatcat tctcaatcat gtgtcggcta
4621 actgcttctc cagaattggc ctcagtggtg gcacaagatc ttcttgcacc ctcagaaatg
4681 gacgttggcg actacgtcat aagagtgaag gaaggcctcc catctggctt cccatgcaca
4741 tcacaggtca atagcataaa ccattggttg ataacattgt gcgccctctc tgaggtgact
4801 ggcctgtcac cagatgttat ccagtccatg tcatactttt ctttttatgg tgatgatgaa
4861 atagtttcca ctgacataga atttgaccca gcaaagctga cacaagtcct taaagagtat
4921 ggcctcaaac ccacccgccc tgacaagagt gaaggtccaa taattgtgag gaagagtgtg
4981 gatggcctgg tcttcctacg tcgcaccatt tcccgcgatg ccgcggggtt ccaggggcga
5041 ctggaccgag cgtccattga aaggcagatc tactggacca gagggcccaa tcactcagac
5101 ccctttgaaa ccttggtgcc ccaccagcaa agaaaaatcc agctgatatc actgttaggt
5161 gaggcctcat tgcatggtga aaaattctac aggaagatct caagcaaagt catccaagag
5221 attaagacag ggggccttga aatgtatgtg ccagggtggc aagccatgtt ccgctggatg
5281 cggtttcacg accttggctt gtggacagga gatcgcaatc tcctgcccga attcgtaaat
5341 gatgatggcg tctaaggacg ccccaacatc ccctgatggc gccagtggcg ccggccagct
5401 ggtaccggag gctaatacag ctgagcaaat ttcaatggac cctgttgcgg gtgcttcaac
5461 agcagtcgcg acagctgggc aagttaacat gattgaccca tggattttca ataactttgt
5521 ccaggcacct caaggagaat ttactatttc ccctaataat acccccggtg atattttgtt
5581 tgatttacaa ctaggacccc accttaaccc gtttctagcc catctctcac agatgtacaa
5641 tggttgggtc ggcaatatgc gtgtgcgcat actgttggcc gggaatgcct tcacagctgg
5701 aaagataatc atttgctgtg tcccccctgg ttttgatgcc agaatactca caatagctca
5761 agcaactctc ttcccacact taattgctga tgtaaggacc cttgagcctg tggagcttcc
5821 tttggaggat gtgcgcaatg ttctcttcca caacagcagc caaccgcagc caacaatgcg
5881 gctggttgct atgttgtaca ctcccctccg cactggtggt ggttccggag gcactgatgc
5941 ctttgtggtg gcgggtaggg tgcttacgtg ccccgccccc gactttagtt ttctgtttct
6001 agtcccccct tccgttgaac aaaagaccag agttttcagt gtccccaata tacccctgaa
6061 ggatctctca aattcccgtg tccctgtgcc agtgcagggt atgtttatgt ccccagatgt
6121 taatcagtca gtccagtttc agaatggacg ctgccaaatt gatggccaac tccaaggcac
6181 cactccagtc tcgctcagcc aactctgcaa gattaggggt aaaacttcta gcaatgctag
6241 ggtgctcaac ttaagtgagg tagatggcac acccttcatc ccacttgaat caccagcgcc
6301 agttggtttt cccgacttgg gaggttgtga ttggcatgta aatttcactt tccaggctca
6361 aaatcaggac ccatctcaaa gtgtaacctt tgcaactaat gatgctagct ttgtccccta
6421 tctaggtagt atctctcctc acaatggggg agattttcat gcaggtgaca tcataggtag
6481 ccttggttgg atttcagccc cgtctgataa ttcacaactt aatgtttgga caattccaaa
6541 gtatggatct agtctcccag atgtcactca tcttgcccct gctgtgttcc ccccaggctt
6601 tggggaggtg attttgtact tctattctac cttcccaggt tctggacaat ccagccaact
6661 tcaagtccca tgcttgttgc ctcaggagtt catcacccac ttttgtaacg aacaggctcc
6721 catcgctggg gaggctgccc tcctccacta cgtggaccct gatacggggc gaaacttggg
6781 ggagtttaaa ctttaccctg atgggtttat gacctgtgtc cccaatagtg ttagtagtgg
6841 ccctcaaacc ctccctatca atggagtctt tgtctttgtt tcatgggtat ctagattcta
6901 tcaactcaag cctgtgggaa cggcctcagc ggctagaagg cttggattgc ggcgcatata
6961 atggcccaag ctgtcatcgg tgccatagcc gcatctgccg ctggtagcat actaggggcg
7021 ggtatacagg ctggtgctga ggctggtctc caggctcaac ggtatcagca ggatctgcag
7081 ttgcaacaaa attctttcaa gcatgataag gaaatgttag gttaccaagt tcaggctagt
7141 aatgctcttt tagctaagaa tcttaacact agatatgctc ttctgcaggc agggggccta
7201 tctagcgctg atgctgctcg ggcagtggct ggtgctcctg tcacccgtat agtggactgg
7261 aatggcacgc gcatcgcagc gcccacttca agcaccacta cactcagatc tggtggtttt
7321 atggctgtcc ctataccatt gtcttcaaag accaagcaac cagtgatgtc tgggcaggat
7381 aatccaaatt atgctgcttc ttctatctct agaactgctt catgggtgca atctcaaaat
7441 tctatgaggt ctgtttctcc ttttcacagt gatgctttga gaaccgtttg ggttacacca
7501 cccggttcat catcaacttc atctgtgcaa tctagtttct atggtgtttt taatacagat
7561 agattgcctc tgttcgcaaa cagaaggtaa
//