Typing tool
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Typing tool
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Complete norovirus genomes
| LC597133 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5089
ORF2: 5070..6692
ORF3: 6692..7498
LOCUS LC597133 7545 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.4Sydney2012[P16]/STM221 RNA,
comlete genome.
ACCESSION LC597133
VERSION LC597133.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Utsumi,T., Lusida,M.I., Dinana,Z., Wahyuni,R.M., Soegijanto,S.,
Soetjipto, Athiyyah,A.F., Sudarmo,S.M., Ranuh,R.G., Darma,A.,
Juniastuti, Yamani,L.N., Doan,Y.H., Shimizu,H., Ishii,K.,
Matsui,C., Deng,L., Abe,T., Katayama,K. and Shoji,I.
TITLE Molecular epidemiology and genetic diversity of norovirus infection
in children hospitalized with acute gastroenteritis in East Java,
Indonesia in 2015-2019
JOURNAL Infect Genet Evol 88, 104703 (2021)
PUBMED 33401005
REMARK DOI:10.1016/j.meegid.2020.104703
Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7545)
AUTHORS Utsumi,T. and Shoji,I.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2020) Contact:Takako Utsumi Kobe University
School of Medicine, Center for Infectious Diseases; 7-5-1
Kusunoki-cho Chuo-ku, Kobe, Hyogo 650-0017, Japan
FEATURES Location/Qualifiers
source 1..7545
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.4Sydney2012[P16]/STM221"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS <1..5089
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BCN97309.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDEPQKPPRPPTPELVKRIPPPPPNGEKEEEPVIRYEVKSGISGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
RVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCRIIYGGSTYDLESDGKGKILVEKVKNTSVQTNNELAGALHHLKHA
RIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKS
EDDEFIVSSKDIKEEGKKGKTKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVAGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLSTMI
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQVVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5070..6692
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97310.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSYLARMYNGYAGG
FEVQVILAANAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFETNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6692..7498
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97311.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLKDAVPARGPSNKFS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg aaaaatcttc
61 aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg gggccaggcc
121 caaacagcct gccccgagag acgaaccaca aaagccccca agaccaccaa ctcccgagtt
181 ggtcaagagg ataccccctc ctccacctaa tggcgaaaaa gaagaagaac cagtcattag
241 gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc cccaaccgga
301 cgtggccaac acagcattca gtgttccacc attgagcttg agagaaaaca gggaggccaa
361 ggaaccgcta acaggggcaa tattagagat gtgggatgga gagatatacc actatggcct
421 gtatgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca taagcatggc
481 aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtgtacactc cccaatacct
541 catctcccct gaaactctca ggaggctcaa cggagaggcg ttcccttaca ccgccttcga
601 caataactgc tatgcctttt gctgctgggt gttagacctc aatgactcat ggcttagcag
661 gaggatggtg caaagaacaa cgggcttctt cagaccttac caagagtgga acagaaaacc
721 cctgcccacc atggatgact ccaaaattaa gaaggtagca aatatattcc tatgttcatt
781 gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac cattaaacat
841 attgaacata ctggcaacgt gtgattggac gtttgccgga atagtggagt ctctgatatt
901 acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta tgatcgctcc
961 cttactcggg gactacgagt tgcaagggcc agaagacctc gccgttgaac tcgtacctgt
1021 ggtaatggga gggattggct tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt
1081 gtcctcagca gcatcaacac tcagggcttg caaagatctt ggtgcctatg gcttagagat
1141 actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg agctagccat
1201 ggtgagggcc atagaggatg ccgtactaga tcttgaggca atagaaaata accacatgac
1261 aaccctgttg aaagacaaag acagtttagc aacatacatg aaaacactgg acatggagga
1321 ggagaaagcc agaaggttgt ccacaaaatc tgcatcccct gacatagttg ggacaatcaa
1381 cgccctgctg gctcgaatag cagcggccag gtcattagtc cacagggcca aggaagagct
1441 atctagcagg ataagaccag tagttgttat gatatctggc aaaccaggaa taggcaaaac
1501 tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacaggag atcaaagagt
1561 cggactcata ccaagaaacg gtgtggacca ttgggatgca tacaaaggtg agagagtcgt
1621 gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca tacaagaatt
1681 ggctgacacg tgtcccctta ccttaaattg tgacagaatt gaaaataagg gaaaagtttt
1741 tgacagtgaa gtcataataa ttacaacaaa ccttgccaat ccagccccac ttgattacgt
1801 caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg caccagaagt
1861 ggaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg ccttcaagcc
1921 ggacttttca cacatcaagc tacagcttgc acctcagggc ggctttgaca agaatggcaa
1981 caccccacac gggaaaggag tgatgaagac cctcactacc ggttctctga ttgcccgtgc
2041 atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca caatcaccac
2101 cttcaatttc gaccggaaca gaatcacagc attcagacaa ttggctgcag aaaacaagta
2161 tggattggtg gataccatga aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga
2221 actcaaacaa gcaatcagga atgtgaccat caagaggtgc cggatcatct acggtggctc
2281 cacgtatgac ctagaatctg atggcaaggg caaaattttg gtggaaaagg tcaagaacac
2341 ctctgtacag accaacaacg agctggccgg ggccctgcac catctcaaac acgcccgaat
2401 caggtactat gtcaaatgtg tgcaagaagc ggtctattcc atcatacaaa ttgccggcgc
2461 tgcgtttgtc accacgcgca ttgcacgccg catgaacata caagaactct ggtcgaagcc
2521 acaattagat caaaatgaat cagagactaa ggaagaggcc cccaagtcag aagatgacga
2581 gttcatcgta tcttctaagg acatcaagga ggaaggaaag aagggtaaaa ccaaaactgg
2641 ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg agtatgacga
2701 gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt atcttcaaga
2761 cagagacagg tactatgagg agctcgccat tgccaaggcc acggaagaag acttctgtga
2821 agaggaggag atcaaaatcc gtcagagaat tttccgtccc accaggaaac aaagaaagga
2881 agagagggcc acattagggc tagtaacagg ttcagaaatc agaaaaagga accctgatga
2941 cttcaaaccc aaagggaagc tgtgggccga tgacaacaga agtgttgact acaatgagaa
3001 actggacttt gaggcccccc caagcatatg gtctaggatt gtaagctttg gttctggctg
3061 gggcttctgg gtatcaccaa gcctgttcat aacatcaact catgtaatcc ccgcaggcat
3121 aacagaagca tttggagtcc ccatcaaaca aattcagatc cacaaatcag gtgaattttg
3181 ccgattcaga ttcccaaaac caatcagacc agatgtggca ggaatgatct tggaagaagg
3241 tgcgcccgaa ggcaccgtgg caactgtgct catcaaacgc cccaccggag agctcatgcc
3301 tcttgcagcc agaatgggaa cacacgcaac catgaaaatc caaggccgca tggttggcgg
3361 gcagatgggt atgttgctca ctggatcaaa tgctaaagga atggatttgg gaacaactcc
3421 tggtgactgt ggctgtcctt acatctataa aaggggcaat gactatatag tcattggggt
3481 gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg gaagtgaggg
3541 tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac ccattctagg
3601 ccctgggggt gcgccaaaat tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc
3661 ccttccacca gggacatatg agcctgccta cctcggtggc cgtgatccgc gtgttaaggg
3721 tgggccctcc ttgcagcagg taatgagaga ccagctgaag ccattcactg aacccagggg
3781 caaacctcca agaccaagtg tattggaggc agccaaacaa accattatca atgtcctcga
3841 acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgcct cacttgacaa
3901 gaccacctcc agcgggcatc cccatcacgt ccgaaagaat gaattctgga atggcgagac
3961 cttcactggt aaattggcag accaagcatc aaaagcaaac ctaatgtttg aggaagggaa
4021 acacatgaca ccagtgtata cagcagcact caaggacgag ctagtcaaga ctgagaaaat
4081 ctatggaaag gtcaagaaga gactgctctg gggctctgac ttgtctacca tgatccggtg
4141 cgctaggtca tttggtgggc tcatggacga gatgaaggca cactgcatat cactcccagt
4201 gcgagttggc atgaatatga atgaagatgg cccaataata tttgagaagc attccagata
4261 caaataccac tatgatgcag actactctcg ttgggattca acacaacaga gggcagtgct
4321 agcagcagcc ttggaaatca tggtcagatt ctctgcagaa ccacaattgg cacaagtagt
4381 cgctgaggat ctgctggccc ctagtgtagt agatgtagga gactttaaaa tcacaataaa
4441 tgaagggctc ccatctggtg tgccatgcac ttctcaatgg aactccatcg cacactggct
4501 gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta tacaagcaaa
4561 ttccatgttc tcattttacg gtgatgacga gattgtcagc accgacataa aactggaccc
4621 tgaacaatta accgccaagt tgaaggagta tggcctaaaa ccaacccgcc cagacaagac
4681 cgagggaccc ctgatcatca gtgaagattt gaacggactc actttcctcc gaaggacggt
4741 gactcgtgac ccagctggct ggtttggaaa actggaccaa agctcaattt tgaggcagat
4801 gtactggact agaggaccaa atcatgaaga ccccaatgag acaatgatac cccattctca
4861 aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac cctctttcta
4921 cagtaaaatc agtaaattgg tcataactga actcaaagaa ggtgggatgg acttttacgt
4981 gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca cgtgggaggg
5041 cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgagtgac gccaacccat
5101 ctgatgggtc cgcagccaac ctcgtaccag aggtcaacaa tgaggttatg gctttggagc
5161 ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta attgacccct
5221 ggattagaaa taattttgta caagcccctg gtggggagtt tacagtatcc cctagaaacg
5281 ctccaggtga aatactatgg agcgcgcccc taggccctga cctaaatccc tacctatcct
5341 atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta attctcgcgg
5401 cgaacgcgtt caccgccggg aagatcatat ttgcagcagt cccaccaaat tttccaactg
5461 aaggcttaag tcctagccag gtcactatgt tcccccatat aatagtagat gtaagacaat
5521 tagaacctgt gctgattccc ttacccgatg tcaggaataa tttctatcat tacaaccagt
5581 caaatgactc cactattaag ttgatagcaa tgttgtatac accacttagg gctaataatg
5641 ctggggatga tgttttcaca gtttcgtgcc gagttctcac gagaccatcc cccgattttg
5701 atttcatatt tttagtgcca cccacagttg agtcaagaac taaaccattc tctgtcccaa
5761 ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa aagttgttca
5821 cgggccccag cagtgccttt gttgttcaac cacaaaacgg caggtgcaca actgacggcg
5881 tgctcctagg caccacccaa ctgtctcctg tcaacatctg caccttcaga ggggatgtca
5941 cccacatcac aggtagtcgc aactacacaa tgaatttggc ttctcaaaat tggaacaact
6001 atgacccaac agaagaaatc ccagcccctc taggaactcc agattttgtg gggaagatcc
6061 aaggcatgct cacccaaacc acaaggacag atggttcaac acgcggccac aaagctacag
6121 tgtacactgg gagcgctgac tttgctccaa aactgggtag agttcaattt gaaactgaca
6181 cagaccatga ttttgaaact aaccaaaaca caaagttcac cccagtcggt gtcatccaag
6241 atggtagcac cacccaccga aacgaacctc aacagtgggt gctcccaagt tactcaggca
6301 gaaacactca caatgtacat ctggcccccg ctgtagcccc cacctttccg ggtgagcaac
6361 ttctcttctt cagatccacc atgcccggat gcagcgggta ccccaacatg gatttggact
6421 gtctactccc ccaggaatgg gtgcagtact tctaccaaga ggcagcccca gcacaatctg
6481 atgtagctct gctaagattt gtgaatccag acacaggtag ggttttgttt gagtgtaagc
6541 ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg gttatccccc
6601 ccaatggtta ctttaggttt gattcctggg tcaaccagtt ctacacgctt gcccccatgg
6661 gaaatggaac ggggcgtaga cgtgcagtat aatggctgga gctttctttg ctggattggc
6721 atctgacgtc cttggctctg gacttggttc cttaatcaat gctggggctg gggccatcaa
6781 ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa gcatccttcc aatttagcag
6841 caatttgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac aaattgaggc
6901 caccaagaaa ctacagcagg aaatgatgaa agttaagcag gcaatgctcc tagagggtgg
6961 gttctctgag acagatgcag cccgcggggc aattaacgcc cccatgacaa aagttttgga
7021 ctggagcggg acaaggtact gggctcccga tgctaggact acaacataca atgcaggccg
7081 cttttctacc cctcaaccat cgggggcact gccaggaaga gctaatctta aggatgctgt
7141 ccctgctcgg ggaccctcca acaaattttc taactcttct actgctacct ctgtgtactc
7201 aaatcaaact atttcaacga gacttggttc tacagctggt tctggaacca gtgtctcgag
7261 cctcccgtca actgcaagga ctaggagctg ggttgaggat caaagtagga atttgtcacc
7321 tttcatgagg ggggcccaca acatatcatt tgtcacccca ccatctagca gatcctctag
7381 ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg gcgctttcaa
7441 cacgcgcagg cagcctctct tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg
7501 tgaaaagaca aaactgatta tttttctttt tctttagtgt ctttt
//