Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC726077 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS LC726077 7530 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1219F/Tokyo/2022/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726077
VERSION LC726077.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
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JOURNAL Unpublished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 7530)
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..7530
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1219F/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2022-02"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDQ32347.1"
/translation="DASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPK
ETPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAF
SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVEL
APLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
IQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNI
LNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPD
IVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAA
SLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNC
DRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RLDEYELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQA
LKNIAIKKCQIVYNGGTYTLEADGKGSVRVDKVQSATVQTNNELTGALHHLRCARIRY
YVKCVQEALYTIIQITGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDD
EEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIR
KRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITS
THVIPQGVKEFFGVPVKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLL
IKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYI
YKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPK
LSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPR
PNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFT
GKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRC
ARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRD
VLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKP
TRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPF
ETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5064..6686
/gene="VP1"
CDS 5064..6686
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32348.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHHYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6686..7492
/gene="VP2"
CDS 6686..7492
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32349.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTATYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgacgcttcc gctgccgctg ttgccaacag caacaacgac atcgcaaaat cttcaagtga
61 cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc ggcctaaaca
121 gccgcccccg aaggaaacac cacccagacc cccgcgacca cccacaccag agttggtcaa
181 aaagatccct cctcccccac ctaacgggga ggatgaacta gtggtctctt acagcgccaa
241 agatggcgtt tccggactgc ctgagctcac cactgtcaga caaccggaag aaaccaacac
301 ggcgttcagt gtccccccac tcaaccaaag ggagagcagg gacgccaagg agccactaac
361 tggaacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt acgtggaacg
421 aggtcttata cttggtgtgc acaagccacc agcagcgatc agcctcgcca aggtcgagtt
481 ggcaccgctc tctttgttct ggagacctgt atacaccccc cagtacctta tctctccaga
541 cactcttagg agattacatg gagagtcatt cccctacact gcatttgaca acaattgcta
601 cgccttttgt tgttgggtat tagacctaaa cgactcatgg ctaagcagga gaatgattca
661 gagaacaaca ggcttcttca ggccgtacca ggattggaac aggaaacccc tccccactat
721 ggatgattcc aaattaaaga aggtagccaa catattcttg tgcactttgt cttcactatt
781 caccagaccc attaaggaca taatagggaa gttgagacct ctcaacatcc ttaatattct
841 ggctacatgt gattggacct tcgcaggcat agtggaatcc ttaatactct tggcagaact
901 ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct tgctaggtga
961 ttatgaactg caaggacccg aggaccttgc agtggaactg gtcccaatag tgatgggggg
1021 gataggtttg gtgctaggat ttaccaaaga gaaaatcgga aagatgctgt catccgctgc
1081 gtccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct taaaattggt
1141 catgaagtgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg tgagatccat
1201 cgaggatgca gtactagacc tcgaggcaat tgaaaacaac cacatgacca ccctgctcaa
1261 agacaaagac agcttgacaa cctacatgag aacccttgac cttgaggagg agaaagccag
1321 aaaactctca accaaatctg cttcacccga tattgtgggc acaattaact ctcttctggc
1381 aagaatcgct gctgcacgct ccctagtgca tcgggcgaaa gaagagctct ccagcaggcc
1441 gagacctgtc gttgtaatga tatcgggaag accagggata gggaaaactc accttgccag
1501 ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg gccttatccc
1561 acgcaatggt gtcgaccact gggacgcata caagggcgaa agagttgttc tatgggacga
1621 ctatggaatg agcaacccca tccatgatgc cctcagattg caggagcttg ctgatacttg
1681 ccccctcacg ctaaattgtg acagaattga gaacaaggga aaagtctttg acagcgatgc
1741 cataattatc accaccaacc tggccaaccc agcaccactg gattatgtca actttgaagc
1801 gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg agaaggcgaa
1861 gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg acttctcaca
1921 cataaaactg tcattggctc cacaaggcgg ttttgacaag aacggcaaca ccccgcatgg
1981 aaaaggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat cagggttact
2041 ccatgagagg ctagatgaat atgaattgca aggctcagcc ctcaccactt tcaactttga
2101 ccgcaacaag atacttgcct ttagacagct tgctgctgaa aacaagtatg ggctgatgga
2161 cacaatgaga gttggaaaac agcttaagga tgtcaagaca atgtcagacc tcaaacaagc
2221 actcaagaac atcgcgatca agaagtgcca gatagtgtac aatggtggca cctacacact
2281 tgaggctgat ggcaagggca gtgtgagagt tgacaaagtg caaagtgcca ctgtgcagac
2341 caacaatgaa ctaaccggtg ccctacacca cctaaggtgc gctagaatca ggtactatgt
2401 taagtgcgtc caggaggcac tgtataccat catccaaatc actggggctg cgttcgtcac
2461 cacgcgcatc gctaagcgca tgaatataca gaatctctgg tccaagccac aggtggaaga
2521 cacagaagag atggccaaca aagatggttg cctaaaaccc aaagatgatg aagagtttgt
2581 cgtttcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt ccggccgtgg
2641 caagaaacat acagcctttt caagtaaagg gctcagtgat gaggagtacg atgagtacaa
2701 aagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc aggacagaga
2761 caggtactac gaggaggtgg ccattgccag ggcaaccgaa gaggacttct gtgaagaaga
2821 agaggccaaa atccggcaga ggattttcag accaacaagg aaacaacgca aagaagagag
2881 ggcctctctc ggcttggtca caggctctga aatcaggaag agaaacccag aagacttcaa
2941 acccaaggga aagctgtggg ctgatgatga cagaagtgtt gactacaatg agaaactcaa
3001 ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag gctggggctt
3061 ctgggtctcc cccagtctgt ttataacatc aacccatgtt ataccccaag gtgtaaaaga
3121 gtttttcgga gtccctgtca agcaaatcca gatacacaag tcaggtgaat tctgccgatt
3181 gagattccca aagccaatca gaaccgatgt gacgggcatg attctagaag aaggtgcgcc
3241 cgaggggacc gtggccacac tgctcatcaa gagaccaact ggagagctca tgcccctggc
3301 agccagaatg gggacccatg caaccatgaa aattcagggg cgcacagttg gagggcaaat
3361 gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa caccaggcga
3421 ctgcggctgc ccctacatct acaagagggg gaatgactac gtggtcatag gggtccatac
3481 ggccgctgcc cgcggaggaa acactgtcat atgtgccacc cagggaagtg agggagaggc
3541 cacactcgaa ggaggtgata gtaaagggac atactgtggc gcgccaatct tgggcccagg
3601 gagcgctccg aagctcagca ccaagactaa gttttggaga tcatccacaa caccactccc
3661 acctggcacc tacgaaccag cctacctcgg tggcaaagac cctagagtca aaggtggccc
3721 ttcattgcaa caagttatga gggaccagct gaagccattc acagaaccca gaggcagacc
3781 accaagacca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc ttgagcaaac
3841 aattgatcca ccccaaaaat ggtcattcgc gcaagcttgc gcatcccttg acaaaaccac
3901 ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg agtccttcac
3961 aggaaaattg gctgaccaag cctccaaggc caacctaatg tttgaagagg gaaagaacat
4021 gactccagtc tacacaggtg cacttaaaga tgagttggta aagaccgata aagtttatgg
4081 taaggtcaag aagaggcttc tgtggggttc agacctggcg accatgatac ggtgcgcccg
4141 agcttttgga ggcctcatgg atgaactcaa ggcacactgt gtcacgctcc ctgtcagagt
4201 tggtatgaac atgaatgagg atggccccat catcttcgag aagcactcca gatatagata
4261 tcactatgat gctgactatt cccgatggga ctcaacacaa caaagggatg tgctagcagc
4321 agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga tagttgcaga
4381 agacctcctc tctcctagcg tgatggatgt gggtgacttt caaatatcaa taagtgaggg
4441 tctcccctct ggggtgcctt gtacctccca gtggaattcc atcgcccact ggctcctcac
4501 tctgtgtgca ctctctgaag tcacggacct gtcccctgat atcattcagg ccaactccct
4561 tttctccttt tatggtgatg atgagattgt aagcacagac ataaagttgg acccagagag
4621 gctgacagca aaactcaagg agtacgggct gaaaccaacc cgccccgaca aaactgaagg
4681 acccctcgtt atctctgaag atctggatgg tctgacattc ctccggagaa ctgtgacccg
4741 tgacccagct ggttggtttg gaaaattgga acaaagttca attcttaggc aaatgtactg
4801 gaccaggggt cccaaccatg aagatccatt tgaaacaatg ataccacact cccaaagacc
4861 catacagttg atgtccttgc tgggcgaggc tgcactccac ggcccggcat tctacagcaa
4921 aattagcaaa ttagtcattg cagagttgaa ggaaggtggc atggattttt acgtacccag
4981 acaagagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg agggcgatcg
5041 caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg
5101 ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg gagcccgttg
5161 ttggtgccgc cattgcggcg cctgtagcgg gccagcaaaa tgtaattgac ccctggatta
5221 gaaacaattt tgtacaagcc cctggtggag agttcacagt gtcccctaga aacgctccag
5281 gtgaaatact atggagcgcg cccttgggcc ctgatctaaa tccctactta tctcatttgg
5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaattttcca actgaaggct
5461 tgagccccag ccaggtcact atgttccccc atatagtagt agatgttagg caattagaac
5521 ctgtgttgat acccttaccc gatgttagga ataatttcta tcattataat caatcaaatg
5581 accccactat caagctgata gcaatgttgt acacaccact tagggctaat aatgctgggg
5641 atgatgtctt cacagtttct tgccgagttc tcacgaggcc atcccccgat tttgacttca
5701 tatttctagt gccacccaca gttgaatcaa gaactaagcc attctctgtc ccagttttaa
5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggtc
5821 ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat ggcgtgctcc
5881 taggcaccac ccaactgtct cctgtcaaca tctgcacctt cagaggagat gtcacccata
5941 tcacaggtag tcaccactac acaatgaatt tggcttctca aaattggagc aattacgacc
6001 caacagaaga aattccagcc cctctaggga ctccagactt tgtggggaag attcaaggca
6061 tgcttaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc acagtgtaca
6121 ctgggagcgc cgactttgcc ccaaaactgg gtagagttca atttgaaact gacacaaaca
6181 atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc caagatggtg
6241 gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc aagttactca ggcaggaaca
6301 ctcctaatgt gcatctggcc cccgctgtag cccccacttt tccgggcgag caactcctct
6361 tcttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg gattgtctgc
6421 tcccccagga atgggtgcag tacttctacc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag gtttgtgaat ccagacacag gtagggtttt gtttgaatgt aagcttcaca
6541 agtcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg
6601 gttattttag gtttgactcc tgggtcaacc agttttacac gcttgccccc atgggaaatg
6661 gagcggggcg tagacgtgca ctataatggc tggagctttc tttgctggat tggcatctga
6721 tgtccttggc tctgggcttg gttcccttat caatgctggg gctggggcca tcaaccaaaa
6781 agttgagttt gaaaataaca gaaaactgca acaagcatcc ttccaattta gcagcaatct
6841 acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg aggctaccaa
6901 aaggttacaa caggaaatga tgaaagttaa acaggcaatg ctcttagagg gtgggttctc
6961 tgagacagat gcagcccgcg gggcaatcaa cgcccctatg acaaaagctt tggactggag
7021 cgggacaagg tactgggctc ctgatgctag gactgcaaca tacaatgcag gtcgcttttc
7081 caccccccaa ccatcggggg cgctgccagg aagagctaac cttagggatg ctgcccccgc
7141 tcggggttcc tctagtaagt cttctaattc ttctactgct acttctgtgt actcaaatca
7201 aactatttca acgaggcttg gttctacagc tggttctggt accagtgtct cgagcttccc
7261 gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt cacctttcat
7321 gaggggggcc cacaacatat cgtttgtcac cccaccatct agcagatcct ctagccaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcca ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt aatgtgaaaa
7501 gacaaaattg attatctttc ttttctttag
//