Typing tool
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Typing tool
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Complete norovirus genomes
| OR844378 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS OR844378 7559 bp RNA linear VRL 29-NOV-2023
DEFINITION Norovirus GII isolate NGII.4/17378/Kyoto/Jan/2018-2019, complete
genome.
ACCESSION OR844378
VERSION OR844378.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7559)
AUTHORS Hoque,S.A., Pham,N., Okitsu,S., Shimizu,Y.O. and Ushijima,H.
TITLE Direct Submission
JOURNAL Submitted (24-NOV-2023) Department of Pathology and Microbiology,
Nihon University Graduate School of Medicine, Itabashi-ku,
Itabashi-Ku, Itabashi 173-8610, Japan
COMMENT ##Assembly-Data-START##
Assembly Method :: SOAPdenovo v. May-2022
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NGII.4/17378/Kyoto/Jan/2018-2019"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan"
/collection_date="11-Jan-2019"
/note="genotype: GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WPK51429.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKEIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
FAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDTEEMANKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPERLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WPK51430.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WPK51431.1"
/translation="MAGAFFAGLASDILGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTSQPPGALPGRANFRDAVPARGSSSKFS
NSSTATSVYSNQTTSTRLGSAAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 catcgcaaaa tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc
121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc
181 acccacacca gaattggtca aagagatccc tcctccccca cccaacgggg aggatgaatt
241 agtggtctct tacaacgcca aagatggcgt ttccggactg cctgagctca ccactgtcag
301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag
361 ggacgccaag gagccactaa ctggaacaat cattgaaatg tgggatggag aaatctacca
421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cagcagccat
481 cagtttcgct aaggtcgagc tggcaccgct ctctttgttc tggagacctg tgtacacccc
541 ccagtacctt atctctccag acactcttag gagattacat ggagagtcat tcccctacac
601 tgcatttgac aataattgct acgccttttg ttgttgggta ttagacctaa acgactcatg
661 gctaagcagg agaatgattc agagaacaac aggcttcttt aggccgtacc aggattggaa
721 caggaaaccc ctccccacta tggatgattc caaattaaag aaggtagcca acatattttt
781 gtgcactttg tcttcactat tcaccaggcc cattaaggac ataataggga agttgaaacc
841 tctcaacatc cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc
901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttgctaggtg attatgaact gcaaggaccc gaggaccttg cagtggaact
1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttaccaaag agaagatcgg
1081 aaagatgctg tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg
1141 actggaaatc ttaaaactgg tcatgaagtg gttcttccca aagaaagaag aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa
1261 ccacatgacc accctgctca aagacaaaga cagcttgaca acctacatga gaacccttga
1321 ccttgaggag gaaaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg
1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa
1441 agaagagcta tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat
1501 agggaaaact caccttgcta gggagctggc caagaagatc gcggcctccc tcacagggga
1561 ccagcgtgtg ggccttatcc cacgcaacgg tgtcgaccac tgggacgcat acaagggcga
1621 aagggttgtc ctatgggacg actatggaat gagcaacccc atccatgatg cccttaggtt
1681 gcaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg
1741 aaaagtcttt gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact
1801 ggattatgtc aactttgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc
1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc
1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa
1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat
2041 cgcccgagca tcagggttac ttcatgagag gctagatgaa tatgaattgc aaggcccagc
2101 ccttaccact ttcaactttg atcgcaacaa gatacttgct tttagacagc ttgctgctga
2161 aaacaagtat gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac
2221 tatgtcagac ctcaaacagg cacttaagaa catcgcgatc aagaagtgcc agatagtgta
2281 caatggtggc acctacacac ttgaggctga tggcaagggc agtgtgaaag ttgacaaagt
2341 gcaaagtgcc actgtgcaga ccaacaatga actagccggt gccctacacc acctaagatg
2401 tgctagaatc agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat
2461 tgctggggct gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg
2521 gtccaggcca caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc
2581 caaagatgat gaagagtttg tcgtttcatc tgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga
2701 tgaggagtac gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga
2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa aatccgacag aggattttca gaccaacaag
2881 gaaacaacgc aaagaagaga gggcttctct cggcttggtc acaggttctg aaatcaggaa
2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgacg acagaagtgt
3001 tgattacaat gagaaactca actttgaggc cccaccaagc atttggtcgc ggatagtcaa
3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt
3121 cataccccaa ggtgcaaagg agttcttcgg agtccctatc aagcaaatcc agatacacaa
3181 gtcaggtgaa ttctgccgat tgagattccc aaagccaatc agaaccgatg tgacgggcat
3241 gattctagaa gaaggtgcgc ccgaggggac tgtggccaca ctgctcatca agagaccaac
3301 tggagagctc atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg
3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tctaacgcca agagtatgga
3421 cctgggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta
3481 cgtggtcata ggggtccata cggctgctgc ccgtggagga aacactgtca tatgtgccac
3541 ccagggaagt gagggagagg ccacacttga aggaggtgac agtaaaggga catactgtgg
3601 cgcgccaatc ttgggcccag ggagcgctcc gaagctcagc accaagacta agttttggag
3661 atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga
3721 cccaagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccttt
3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg
3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg
3961 ttggaatggg gagtccttca caggaaagtt ggctgaccaa gcctccaagg ccaacttaat
4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt
4081 aaagaccgat aaagtttatg gtaaggtcaa gaagaggctt ctatggggtt cagatctggc
4141 gaccatgata cggtgcgccc gagcttttgg aggcctcatg gatgaactca aggcacactg
4201 tgtcacactc cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatcttcga
4261 gaagcactcc agatatagat atcattatga tgctgactat tcccggtggg actcaacaca
4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca
4381 cctggcccag atagttgcag aagacctcct ttcccctagc gtgatggatg tgggtgactt
4441 tcaaatatca ataagtgagg gtctcccctc tggggtgcct tgcacctctc agtggaactc
4501 catcgcccac tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga
4561 tatcgttcag gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacaga
4621 cataaagttg gacccagaga ggctaacagc aaaactcaag gagtacgggc tgaaaccaac
4681 ccgccccgac aaaactgaag gaccccttgt catctctgaa gacctggatg gtctgacatt
4741 cctccggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc
4801 aattcttagg caaatgtact ggaccagggg tcccaaccat gaagacccat ttgaaacaat
4861 gataccacac tcccaaagac ccatacaatt gatgtctttg ctgggcgagg ctgcactcca
4921 cggcccggca ttctacagca aaattagcaa attggtcatt gcagagttga aggaaggtgg
4981 catggatttt tacgtaccca gacaagagcc aatgttcagg tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgtcaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa
5341 atccctactt gtctcatttg gccaggatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac
5461 caaactttcc aactgaaggc ttgagcccca gtcaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcattacaa tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgacgtct tcacagtttc ttgccgagtt ctcacgagac
5701 catcccccga ttttgacttc atatttctag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagttttg actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg ccttcgttgt ccaaccacaa aacggtaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 ttagaggaga tgtcacccat atcacaggta gtcataacta tacaatgaat ttggcttctc
6001 aaaattggag caactacgac ccaacagaag aaatcccagc ccctctaggg accccagact
6061 ttgtggggaa gattcaaggc atgcttaccc aaaccacaag gacagatggc tcaacacgcg
6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac aatgattttg aagctaacca aaacacaaag ttcaccccag
6241 ttggtgtcat ccaagatggt ggcaccaccc atcgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcaggaac actcctaatg tgcatctggc ccccgctgtg gcccccactt
6361 ttccgggtga gcaactcctc ttctttagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggattgtctg ctcccccagg aatgggtgca gtacttctac caggaggcgg
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgaatg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttttaca
6661 cacttgcccc catgggaaat ggagcggggc gtagacgtgc actataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atatccttgg ctctggactt ggttccctta ttaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggctacca aaaggttaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccctat
7021 gacaaaagcc ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacctccca accaccgggg gcgctgccag gaagagctaa
7141 ttttagggat gctgtccctg ctcggggctc ctctagtaag ttttccaatt cttctactgc
7201 tacttctgtg tattcaaatc aaactacttc aacgagactt ggttctgcag ctggttctgg
7261 taccagtgtc tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggaccaaag
7321 taggaacttg tcacctttca tgaggggggc ccacaacata tcgttcgtca ccccaccatc
7381 tagcaggtcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt
//