Typing tool
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Typing tool
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Complete norovirus genomes
| OQ940070 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS OQ940070 7560 bp RNA linear VRL 31-JUL-2023
DEFINITION Norovirus GII isolate SH20-247, complete genome.
ACCESSION OQ940070
VERSION OQ940070.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7560)
AUTHORS Ao,Y.
TITLE Emergence of recombinant GII.4 Sydney[P16] norovirus in Shanghai,
China
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7560)
AUTHORS Ao,Y.
TITLE Direct Submission
JOURNAL Submitted (08-MAY-2023) Department of Clinical Laboratory,
Children's hospital of Fudan University, 399 wanyuan road, Minhang
district, Shanghai, Shanghai 201102, China
COMMENT ##Assembly-Data-START##
Assembly Method :: DNAStar v. v. 11.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7560
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="SH20-247"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="China"
/collection_date="06-Dec-2020"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WGV43879.1"
/translation="MKMASNDATVAVACNNNNDKERSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTFFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSESETKEE
APKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGSAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQVVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSITHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRTSKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..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="WGV43880.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTTGSHNYTMNLASQDWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WGV43881.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDREMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNSGHFSTPQPSGALPGRANLRDAVPARGPSTKSS
NSPAATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaggaaaga tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attaggtatg aggttaaaag tgggatctct ggcctgcccg agctcacaac
301 agttccccaa ccggacgtgg ccaacacagc atttagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatacta gagatgtggg atggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggagttgac gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgtttcc
601 ttacaccgct ttcgacaaca actgctatgc cttttgttgc tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcaggc cttaccaaga
721 gtggaataga aaacccttgc ctactatgga tgactccaaa ataaagaagg tagcaaatat
781 attcctatgt tcattgtcca catttttcac cagacccata aaagacctca taggaaaaat
841 caaaccacta aacatattga acatcttggc aacgtgtgac tggacgtttg ccggaatagt
901 ggagtctatg atattgcttg ccgagctctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttacaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aatcggcaaa atgttgtcct cagcagcatc aacactcagg gcttgtaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caatgagcta gccatggtga gggccataga ggatgccgtg ctagatcttg aggcaataga
1261 gaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccagaag gttatccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcc gccaggtcat tagtccacag
1441 agccaaggaa gagctgtcta gcaggatgag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggaccaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 ccgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggctt
1981 tgacaagaat ggcaataccc cacatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgatcgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 tcccacaatc accactttca atttcgaccg gaatagaatc acagcattca gacaattggc
2161 tgcagaaaat aagtatggac tggtggacac catgaaagtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat cagaaatgtg accatcaaga ggtgccggat
2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggtcaag aacacctcta tacagaccaa caacgagttg gccggggccc tgcaccatct
2401 taaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagatcaaag tgaatcagag actaaggaag aggcccccaa
2581 gtcagaagat gacgagttcg tcatatcttc taaggatatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aacgggaagt actctataga
2761 ggaatatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggaaatcaa aatccgtcag agaatttttc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacatt agggctggta acaggttcag aaatcagaag
2941 aagaaaccct gatgatttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta gaattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caacccatgt
3121 tatccctgca ggcataacag aagcatttgg agtccccatc aaacaaattc agattcacaa
3181 atcaggtgaa ttttgccgat tcagattccc aaaaccgatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg
3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 tttgggaaca actcctggtg actgtggctg cccttacatc tataaaaggg gcaatgacta
3481 tatagccatt ggggtacaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg ggagtgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcgaac acgccccttc caccagggac atacgagcct gcctacctcg gtggccgtga
3721 cccgcgtgtt aggggtgggc cctccttaca gcaggtaatg agagaccagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgttttg gaagcagcca aacaaaccat
3841 tattaatgtc ctcgaacaaa ccctggatcc tccacaaaaa tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcatccacac cacgcccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgtgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat accactatga tgcagactac tctcgctggg attcaacaca
4321 acagagggca gtattagcag cagccttgga gatcatggtc agattctctg cagaaccaca
4381 attggcacaa gtagtcgctg aggatctact ggcccctagt gtagtagatg taggagactt
4441 taaaatcaca ataaatgaag ggctcccatc tggtgtgcca tgcacttctc aatggaactc
4501 cataacacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaattg gaccctgaac agttgaccgc caagttgaag gagtacggcc tgaaaccaac
4681 tcgcccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc
4801 aattttgagg cagatgtact ggactagagg gccaaatcat gaagacccca atgagacaat
4861 gataccccat tctcagagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagta gaaccagtaa attggtcata actgaactta aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt gccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagttcacag
5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc acccctaggc cctgacctaa
5341 atccctacct atcccattta gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggt ttaagcccta gccaggtcac tatgttcccc cacataatag
5521 tagatgttag acaattggaa cctgtgttga tccccttacc cgatgttagg aataatttct
5581 atcattacaa tcagtcaaat gattccacta ttaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttag taccacccac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gtttacaggc cccagcagtg catttgtcgt tcaaccacaa aacggcagat
5881 gcacaactga tggcgtgctt ctaggcacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga tgtcactcac accacaggta gtcacaacta cactatgaat ttggcttctc
6001 aagattggaa caactatgat ccaacagaag aaattccagc ccctctagga actccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc agaccacaag gacagatggt tcaacacgcg
6121 gtcacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggcagagttc
6181 aatttgaaac tgacacagac catgattttg aagccaatca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agtaccaccc atcgaaacga accccagcag tgggtgctcc
6301 caagttactc aggcagaaat actcacaatg tacatttggc ccccgctgta gcccccacct
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagctccac aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 agctggggcc atcaaccaaa aggttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 ctttcaattt agcagcaatt tgcaacaggc ttcctttcaa catgatagag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag atactgggct ccagatgcta gaattacaac
7081 atacaattca ggccactttt ccacccccca accatcgggg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggacc ctccaccaaa tcttctaact ctcctgctgc
7201 cacttctgtg tactcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcgactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaaattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaaca gattatcttt ctttttcttt agtgtctttt
//