Typing tool
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Typing tool
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Complete norovirus genomes
| LC699528 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5084
ORF2: 5065..6687
ORF3: 6687..7493
LOCUS LC699528 7505 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2260/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699528
VERSION LC699528.1
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JOURNAL Unpublished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 7505)
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..7505
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2260/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2020-01"
gene <1..5084
/gene="POL"
CDS <1..5084
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDG75388.1"
/translation="DASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPK
EIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTAF
SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVEL
APLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
IQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNI
LNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPD
IVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAA
SLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNC
DRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQA
LKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRY
YVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEEMANKDGCLKPKDD
EEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIR
KRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITS
THVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATLL
IKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYI
YKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPK
LSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFT
GKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRC
ARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRD
VLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKP
TRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPF
ETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5065..6687
/gene="VP1"
CDS 5065..6687
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75389.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVLALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWINQFYTLAPMGNGAGRRRAL"
gene 6687..7493
/gene="VP2"
CDS 6687..7493
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75390.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa tcttcaagtg
61 acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg cggcctaaac
121 agccgccccc gaaggaaata ccacccagac ccccgcgacc acccacacca gaattggtca
181 aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct tacaacgcca
241 aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa gaaaccaaca
301 cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag gagccactaa
361 ctgggacaat cattgaaatg tgggatggag aaatctacca ttacggcctg tacgtggaac
421 gaggtcttat acttggtgtg cacaagccac cagcagccat cagcctcgct aaggtcgagc
481 tggcaccact ctctttgttc tggagacctg tatacacccc ccagtacctt atctctccag
541 acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac aacaattgct
601 acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg agaatgattc
661 agagaacaac aggcttcttt aggccgtacc aggattggaa caggaaaccc ctccccacta
721 tggatgattc caaattaaag aaggtagcca acatattttt gtgcactttg tcttcactat
781 tcaccaggcc catcaaggac ataataggga agttgaaacc tctcaacatc cttaatattc
841 tggctacatg tgattggact ttcgcaggca tagtggaatc cttaatactc ttggcagaac
901 tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc ttgctaggtg
961 attatgaact gcaaggaccc gaggaccttg cagtggaact ggtcccaata gtgatggggg
1021 ggataggttt ggttctagga tttaccaaag agaagatcgg aaagatgctg tcatcagctg
1081 catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatt ttaaaattgg
1141 tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg gtgagatcca
1201 tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc accctgctca
1261 aagacaaaga cagtttgaca acctacatga gaacccttga ccttgaggag gagaaagcca
1321 gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac tctcttctgg
1381 caagaatcgc tgctgcacgc tccttagtgc atcgggcgaa agaagagctc tccagcaggc
1441 cgagacctgt cgttgtaatg atatcgggaa gaccagggat agggaaaact caccttgcca
1501 gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg ggccttatcc
1561 cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagggtcgtc ctatgggacg
1621 actatggaat gagcaacccc atccatgacg cccttaggtt gcaggagctt gctgacactt
1681 gccccctcac actaaattgt gacagaattg agaacaaagg aaaagtcttt gacagtgacg
1741 ccataattat caccaccaac ctggccaacc cagcaccact ggattatgtc aactttgaag
1801 cgtgctcgag acgcattgat ttcctcgtgt acgcagaagc ccctgaggtg gagaaggcaa
1861 agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct gacttctcac
1921 acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac accccgcatg
1981 gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca tcagggttac
2041 tccatgagag gctagatgaa tatgaattgc aaggcccagc cctcaccact ttcaactttg
2101 accgtaacaa gatacttgct tttagacagc tcgctgctga aaacaagtat gggctgatgg
2161 acacaatgag agttggaaaa cagctcaagg atgtcaagac tatgtcagac ctcaaacagg
2221 cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtggc acctacacac
2281 ttgaggctga tggcaagggc agtgtgaaag ttgacaaagt gcaaagtgcc actgtgcaga
2341 ccaacaatga actagccggt gccctacacc acctaagatg cgctagaatc agatactatg
2401 ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct gcattcgtca
2461 ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaagcca caggtggaag
2521 acatagaaga gatggccaac aaagatggtt gcctaaaacc caaagatgat gaagagtttg
2581 tcgtttcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag tccggccgtg
2641 gcaagaagca cacagccttt tcaagtaaag ggctcagtga tgaggagtat gatgagtaca
2701 agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt caggacagag
2761 acaggtacta cgaggaggtg gccattgcta gggcaaccga agaggacttc tgtgaggagg
2821 aggaggccaa aatccggcag aggattttca gaccaacgag gaaacaacgc aaagaagaga
2881 gggcttctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca gaagacttca
2941 aacccaaggg aaagctgtgg gctgatgacg acagaagtgt tgactacaat gagaaactca
3001 actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca ggctggggct
3061 tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa ggtgcaaagg
3121 agttcttcgg agtccctatc aagcaaatcc agatacacaa gtcaggtgaa ttctgccgat
3181 tgagattccc aaagccaatc agaaccgatg tggcgggcat gattctagaa gaaggtgcgc
3241 ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc atgcctctgg
3301 cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt ggagggcaaa
3361 tgggtatgct cttgacagga tccaacgcca agagtatgga cctaggcaca acaccaggcg
3421 actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata ggggtccata
3481 cggctgctgc ccgtggagga aacactgtca tatgtgccac ccagggaagt gagggagagg
3541 ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc ttgggcccag
3601 ggagcgctcc gaagctcagc accaagacca agttttggag atcatccaca acaccactcc
3661 cacctggcac ctacgaacca gcctacctcg gtggcaaaga ccctagagtc aaaggtggcc
3721 cttcattgca acaagttatg agggaccagc tgaagccatt cacagaaccc agaggcaaac
3781 caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc cttgagcaaa
3841 caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt gacaaaacca
3901 cctccagcgg ccacccgcac cacatgcgga aaaacgactg ttggaatggg gagtccttca
3961 caggaaagtt ggctgaccaa gcctccaagg ccaacctaat gtttgaagag ggaaagaaca
4021 tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat aaagtttatg
4081 gtaaggtcaa gaagaggctt ctatggggtt cagatctggc gaccatgata cggtgcgccc
4141 gagcttttgg aggcctcatg gatgaactca aggcacactg tgttacactc cctgtcagag
4201 ttggtatgaa catgaatgag gatggcccca tcatcttcga gaagcactcc agatatagat
4261 atcattatga tgctgactac tcccggtggg actcaacaca acaaagggat gtgctagcag
4321 cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag atagttgcag
4381 aagacctcct ttcccctagc gtgatggatg tgggtgactt tcaaatatca ataagtgagg
4441 gtctcccctc tggggtgcct tgcacctccc agtggaattc catcgcccac tggctcctca
4501 ctctgtgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag gccaactccc
4561 ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg gacccagaga
4621 ggctaacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac aaaactgaag
4681 gacccctcgt catctctgaa gacctggatg gtctgacatt cctccggaga actgtgaccc
4741 gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattcttagg caaatgtact
4801 ggaccagggg tcccaaccat gaagacccat ttgaaacaat gataccacac tcccaaagac
4861 ccatacaatt gatgtccttg ttgggcgagg ctgcactcca cggcccggca ttctacagca
4921 aaatcagcaa attagtcatt gcagagttga aggaaggtgg catggatttt tacgtaccca
4981 gacaagagcc aatgttcagg tggatgagat tctcagatct gagcacgtgg gagggcgatc
5041 gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgtcaa cccatctgat
5101 gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttttggctct ggagcccgtt
5161 gttggtgccg ccattgcggc acctgtagcg ggccaacaaa atgtaattga cccctggatt
5221 agaaacaatt ttgtacaagc ccctggtgga gagtttacag tatcccctag aaacgctcca
5281 ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctactt gtctcatttg
5341 gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct cgcggggaac
5401 gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaatttccc aactgaaggc
5461 ttgagcccca gccaggttac tatgttcccc catatagtag tagatgttag gcaactagaa
5521 cctgtgttga ttcccttacc cgatgttagg aataatttct atcattataa tcaatcaaat
5581 gatcccacca ttaagttgat agcaatgttg tacacaccac ttagggctaa taatgctggg
5641 gatgatgtct tcacagtctc ttgccgagtt ctcacgagac catcccccga ttttgacttc
5701 atatttctag tgccacccac agttgagtca agaactaaac cattctctgt cccagtctta
5761 actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt gttcacgggt
5821 cccagcagtg cctttgttgt ccaaccacaa aacggtaggt gcacgactga tggcgtgctc
5881 ctaggcacca cccaactgtc tcctgtcaac atctgcacct ttagaggaga tgtcacccat
5941 atcacaggta gtcataacta tacaatgaat ttggcttctc aaaattggag taactacgac
6001 ccaacagaag aaatcccagc ccctctaggg actccagact ttgtggggaa gattcaaggc
6061 atgctcaccc aaaccacaag gacagatggc tcaacacgcg gccacaaagc cacagtgtat
6121 actgggagcg ccgactttgc tccaaaactg ggtagagttc agtttgaaac tgacacaaac
6181 aatgattttg aagctaacca aaacacaaag ttcaccccag ttggtgtcat ccaagatggt
6241 ggcaccaccc atcgaaatga accccaacag tgggtactcc caagttactc aggcaggaac
6301 actcctaatg tgcatctggc ccccgctgtg gcccccactt ttccgggtga gcaactcctt
6361 ttctttagat ccaccatgcc cggatgcagc gggtacccca acatggattt ggattgtctg
6421 ctcccccagg aatgggtgca gtacttctac caggaggcag ccccagcaca atctgatgtg
6481 gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgaatg taagcttcat
6541 aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat cccccccaat
6601 ggttatttta ggtttgattc ctggatcaac cagttttaca cgcttgcccc catgggaaat
6661 ggagcggggc gtagacgtgc actataatgg ctggagcttt ctttgctgga ttggcatctg
6721 atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc atcaaccaaa
6781 aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt agcagcaatc
6841 tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt gaggctacca
6901 aaaggttaca acaggaaatg atgaaagtta agcaggcaat gctcctagag ggtgggttct
6961 ctgagacaga tgcagcccgc ggggcaatca acgcccctat gacaaaagcc ttggactgga
7021 gcgggacaag gtactgggct cctgatgcta ggactacaac atacaatgca ggccgctttt
7081 ccacccccca accatcaggg gcgctgccag gaagagctaa ttttagggat gctgtccctg
7141 ctcggggttc ctctagtaag tcttctaatt cttctactgc tacttctgtg tattcaaatc
7201 aaactacttc aacgagactt ggttctacag ctggttctgg taccagtgtc tcaagcttcc
7261 cttcagctgc aaggactagg agctgggttg aggaccaaag taggaatttg tcacctttca
7321 tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcaggtcc tctagccaag
7381 gcacagtctc aaccgtgcct aaagagattt tggactcctg gactggcgct ttcaacacgc
7441 gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggtg taacgtgaaa
7501 agaca
//