Typing tool
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Typing tool
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Complete norovirus genomes
| OR844379 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7507
LOCUS OR844379 7553 bp RNA linear VRL 29-NOV-2023
DEFINITION Norovirus GII isolate NGII.4/18792/Kyoto/Sep/2021-2022, complete
genome.
ACCESSION OR844379
VERSION OR844379.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7553)
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..7553
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NGII.4/18792/Kyoto/Sep/2021-2022"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan"
/collection_date="17-Sep-2021"
/note="genotype: GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WPK51432.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVVAELKEGGMDFYVPRQE
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="WPK51433.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6707..7507
/gene="ORF3"
CDS 6707..7507
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WPK51434.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGATN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRARDAVPARGSSSKSSNS
SAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISF
VTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
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 aaaagatccc tcctccccca cccaacgggg aggatgaact
241 agtggtctct tacagcgcca aagatggcgt tttcggactg cctgagctca ccactgtcag
301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gagagagcag
361 agacgccaag gagccattaa ctggaacaat cattgaaatg tgggatggag aaatctacca
421 ttacggcctg tacgtggagc gaggtcttat acttggtgtg cacaagccac cagcagccat
481 cagcctcgcc aaggtcgagc tggcaccgct ctctttgttc tggagacctg tatacacccc
541 ccagtacctc atctctccag acactcttag gagattacat ggagagtcat tcccctacac
601 tgcatttgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcgtg
661 gctaagcagg agaatgattc agagaacaac aggcttcttc aggccgtacc aggattggaa
721 caggaaaccc ctccctacta tggatgattc caaattaaag aaggtagcta acatattctt
781 gtgcactttg tcttcactat tcaccagacc cattaaggat ataataggga agttgaaacc
841 tctcaacatc cttaatattc tggctacatg tgattggacc tttgcaggca tagtggaatc
901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttgctaggtg attatgaact gcaaggaccc gaggaccttg cagtggaact
1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg
1081 aaagatgctg tcatccgctg catccacttt aagagcttgc aaagaccttg gtgcatacgg
1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa
1261 ccacatgacc actctgctca aagacaaaga cagcttggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg
1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa
1441 agaagagctc tccagcaggc cgagacctgt cgttgtaatg atatcgggaa gaccagggat
1501 agggaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga
1561 ccagcgtgtg ggccttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga
1621 aagagttgtc ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt
1681 gcaggagctt gctgacactt gtcccctcac gctaaattgt gacaggattg agaacaaggg
1741 aaaagtcttt gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact
1801 ggattatgtc aactttgaag cgtgctcgag acgcattgat ttcctcgtgt acgcagaggc
1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc
1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa
1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat
2041 cgctcgagca tcagggttgc tccatgagag gctagatgaa tatgaattgc aaggcccagc
2101 cctcaccact ttcaactttg accgcaacaa ggtacttgct tttagacagc ttgctgctga
2161 aaacaagtat gggctgatgg acacaatgag agttgggaaa cagctcaagg atgtcaagac
2221 tatgtcagac ctcaaacaag cacttaagaa catcgcgatc aagaagtgcc agatagtgta
2281 caacggtggc acctacacac ttgaggctga tggcaagggc aatgtgaaag ttgacaaagt
2341 gcaaagtgcc actgtgcaga ccaacaatga actagccggt gccctacacc acctaagatg
2401 cgctagaatc agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat
2461 cgctggggct gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg
2521 gtccaagcca caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc
2581 caaagatgat gaagagtttg tcgtttcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga
2701 tgaggagtac gatgagtaca aaagaatcag agaagaaagg aatggtaagt actccataga
2761 agagtacctt caggacagag acaggtacta cgaggaagtg gccattgcca gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag aggattttca gaccgacaag
2881 gaaacaacgc aaagaagaga gggcctctct cggcttggtc acaggatctg aaatcaggaa
2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt
3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa
3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt
3121 cataccccaa ggtgcaaaag aattcttcgg agtccctatc aagcaaattc agatacacaa
3181 gtcaggtgaa ttctgccgat tgagattccc aaagccaatc agaactgatg tgacgggcat
3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac
3301 tggagagctc atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg
3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga
3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta
3481 cgtggtcata ggggtccata cggccgctgc 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 ccctagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt
3781 cacagaaccc agaggcaaac caccaaggcc aaatgtgttg gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg
3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg
3961 ttggaatggg gagtctttca caggaaaatt ggctgaccaa gcctccaagg ccaacctaat
4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt
4081 aaagaccgat aaagtttatg gtagggtcaa gaagaggctt ctgtggggtt cagatctggc
4141 gaccatgata cggtgcgccc gagctttcgg aggcctcatg gatgaactca aggcacactg
4201 cgtcacactc cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatcttcga
4261 gaagcactcc agatatagat accactatga tgctgactat tcccggtggg actcaacaca
4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca
4381 cctggcccag atagttgcag aagacctcct ctcccccagc gtgatggatg tgggtgactt
4441 tcaaatatca ataagtgagg gtctcccctc tggggtgcct tgtacctccc agtggaattc
4501 catcgcccac tggctcctca ctctatgtgc actctctgaa gtcacggacc tgtcccctga
4561 tatcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga
4621 cataaagttg gacccagaga ggctgacagc aaaactcaag gagtacgggc tgaaaccaac
4681 ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg gtctgacatt
4741 cctccggaga actgtgaccc gtgatccagc cggctggttt gggaaattgg aacaaagttc
4801 aattcttagg caaatgtact ggaccagggg tcccaaccat gaagacccat ttgaaacaat
4861 gataccacat tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca
4921 cggcccggca ttttacagca aagttagcaa attagttgtt gcagagttga aggaaggagg
4981 catggatttt tacgtaccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa
5341 atccctactt atctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaattagaa cctgtgttga ttcccctacc cgatgttagg aataatttct
5581 atcattacaa tcaatcaaat gaccccacta ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgtct tcacagtctc ttgccgagtt ctcacgaggc
5701 catcccccga ttttgacttc atatttctag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagttttg actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggtaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcgcct
5941 tcagaggaga tgtcacccac atcacaggta gtcataacta cacaatgaat ttggcttctc
6001 aaaattggag caattacgac ccaacagaag aaattccagc ccctctaggg actccagact
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 accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcaggaac actcctaatg tgcatctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaactcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggattgtctg ctccctcagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgaatg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttca ggtttgattc ctgggtcaac cagttttaca
6661 cgcttgcccc catgggaaac ggagcggggc gtagacgtgc actataatgg ctggaacttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggctccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataat agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggctacca aaaggttaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcttagag ggtgggttct ctgagacaga tgcagcccgc ggggcgacca acgcccctat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgcttct ccacccccca accatcgggg gcgctaccag gaagagctag
7141 ggatgctgtc cctgctcggg gttcctctag taagtcttct aattcttctg ctgctacttc
7201 tgtgtactca aatcaaacta tttcaacgag acttggttct acagctggtt ctggtaccag
7261 tgtctcgagc ttcccgtcaa ctgcaaggac taggagctgg gttgaggatc agagtaggaa
7321 tttgtcacct ttcatgaggg gggcccacaa catatcgttt gtcaccccac catctagcag
7381 atcctctagt caaggcacag tctcaaccgt gcctaaagag attttggact cctggactgg
7441 cgcttttaac acgcgcaggc agccactctt cgctcacatt cgtaagcgag gggagtcacg
7501 ggtgtaatgt gaaaagacaa aattgattat ctttcttttc tttagtgtct ttt
//