Typing tool
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Typing tool
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Complete norovirus genomes
| LC597119 | GII.13 | |
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| GII.P16 |
ORF1: 1..5087
ORF2: 5068..6696
ORF3: 6696..7427
LOCUS LC597119 7445 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2015/GII.13[P16]/STM09 RNA, nearly comlete
genome.
ACCESSION LC597119
VERSION LC597119.1
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 7445)
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..7445
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2015/GII.13[P16]/STM09"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2015"
CDS <1..5087
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BCN97269.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPDVAN
TAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAK
VELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLN
RRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARK
VASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLT
LNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERMDEFELQGPTVTTFNFDRNRIAAFRQLAAENKYGLVDTMRVGNQLKGVKTMEEL
KQAIKNVIIKRCRIIYGGSTYDLESDGKGRVLVEKVKNTSVQTNNELAGALHHLKHAR
IRYYVKCVQEAVYSILQIAGAAFVTTRIVRRMNIQELWSKPPLDQNESEAEKEAPKSE
DDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLVTGSEI
RKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFIT
STHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRSDVTGMILEEGAPEGTVATV
LIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPY
IYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAP
KLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETF
TGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLSTMIR
CARSFGGLMDEMKTHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQR
AVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLK
PTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDP
NETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5068..6696
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97270.1"
/translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ
TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD
VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP
SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT
QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGASYDPTDEVPAPLGTQDFSGILYG
VLTQDNVSEGTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV
AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF
IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP
LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ"
CDS 6696..7427
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97271.1"
/translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA
SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTAGGFSPADAARGAVNAPMTRVLDWSG
TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS
SGGSSTTSSSSRTADWVQQQRALSPYMQGALQTAYVTPPSSRASSMSSVSTVPKGVLD
SWTPVFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag gaaaaatctt
61 caggtgaagg cttattcaca aacatgtctt ccaccttaaa gaaagccctc ggggcccggc
121 ccaaacagcc tgccccgagg gacaactcac aaaaaccccc aagaccacca actcccgagt
181 tggtcaagag gataccccct cccccaccta atggagaaga agaagaacca gtcattaggt
241 atgaggttaa gagtggaatc tctggcctgc ccgagctcac aacagtccct caaccggatg
301 tggccaacac ggcattcagt gtcccaccgc tgagcttgag agaaaacagg gaggccaagg
361 aaccgctgac aggggcaata ttagagatgt gggatggaga gatataccac tatggtctgt
421 acgtggagaa aggcctagtg ttgggtgtgc acaaaccacc tgcagctata agcatggcaa
481 aagtggagct gacgccgttg tcattgtact ggcgtgtggt ctacaccccc caatacctca
541 tctcccctga aactctcagg aggctcaacg gagaggcatt cccttacact gcctttgaca
601 acaactgcta tgccttttgc tgttgggtat tagacctcaa tgactcatgg cttaacagga
661 ggatggtgca aagaacaaca ggcttcttca gaccttatca agagtggaac agaaaacccc
721 tgcccactat ggatgactcc aaaatcaaga aggtggcaaa catattcctg tgttcattgt
781 ccacgttgtt caccagacct ataaaagacc tcataggaaa aattaagcca ttaaacatct
841 tgaacatcct ggcaacgtgt gactggacat tcgccggaat agtggagtct ctgatattac
901 ttgctgaact ctttggagtt ttctggacac ccccagatgt gtctgctatg atcgctcctt
961 tacttggaga ctacgagttg caagggccag aagaccttgc cgttgagctc gtacctgtag
1021 taatgggagg gattggtttg gtgttgggat tcaccaaaga gaaaattgga aaaatgttgt
1081 cctcagcagc atcaacgctc agggcttgta aagatcttgg tgcctatggc ttagagatac
1141 tcaaattggt catgaagtgg ttcttcccaa agaaagaaga ggccaatgag ctagccatgg
1201 tgagagctat agaggatgct gtactggatc ttgaggcaat agaaaataat cacatgacaa
1261 ctctgttgaa agacaaagac agcctagcaa cctacatgaa aacactagac atggaggagg
1321 aaaaagccag aagattgtcc acaaaatctg catcccctga catagttggg acgatcaacg
1381 ccctgctggc tcgaatagca gcggcaaggt cactagtcca cagggccaag gaggagttat
1441 ctagcaggat aagaccagtg gttgttatga tatctggtaa accagggata ggcaaaactc
1501 atctggccag ggaggtggca agaaaggtgg catccactct cacaggggat caaagagtcg
1561 ggctcatacc gagaaacggt gtggaccatt gggatgcata caaaggtgag agagtcgtgc
1621 tgtgggacga ctatggcatg agcaacccca ttcatgatgc tctgcgcata caagaattgg
1681 ctgatacgtg cccccttacc ttaaattgtg acagaatcga aaataaggga aaagtttttg
1741 acagtgaagt cataataatc acaacaaacc ttgccaatcc agctccactt gattatgtca
1801 actttgaggc ctgttccagg agaattgact tcctggtgta cgccgaggca ccagaagtag
1861 aaaaggcgaa acgagacttt cctggtcaac cagatatgtg gaaggacgcc ttcaagtcgg
1921 acttttcaca tatcaagttg caacttgcac ctcagggcgg ctttgacaag aatggcaaca
1981 ccccacatgg gaaaggagtg atgaaaaccc tcaccaccgg ttccctgatc gcccgtgcat
2041 caggcttact gcatgagaga atggatgaat ttgaactcca aggccccaca gtcaccacct
2101 tcaattttga ccggaacaga atcgctgcat tcagacaatt ggctgcagaa aacaagtatg
2161 gattggtgga caccatgaga gttggcaatc aattaaaagg ggtgaaaacc atggaagaac
2221 tcaaacaagc aatcaagaat gtgatcatca agaggtgccg gatcatctac ggcggctcca
2281 cgtatgacct tgaatctgat ggcaagggca gagttctggt ggaaaaggtc aagaacacct
2341 ctgtacagac caacaacgag ttggccggag ccctgcatca cctcaaacat gcccgaatca
2401 ggtactatgt caaatgtgtg caagaagcag tctactctat tttacaaatc gccggcgctg
2461 cgtttgtcac cacacgcata gtacgccgca tgaacataca agagctttgg tcgaagccac
2521 cattagacca aaatgaatca gaggctgaga aagaggcccc caagtcagaa gatgacgagt
2581 tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac aaaactggcc
2641 gtggcaagaa acatactgca ttctctagca agggcttgag cgatgaggag tatgacgagt
2701 acaagaggat aagagaagag agaaatggga agtactctat agaggagtat cttcaagaca
2761 gagacaggta ctatgaggaa ctcgccatcg ccaaggccac ggaagaagac ttctgtgagg
2821 aggaggagat caaaatccgt cagaggatct tccgtcccac caggaagcaa aggaaggaag
2881 agagggtcac actagggcta gtaactggtt cagaaatcag aaaaagaaac cctgatgact
2941 tcaaacctaa agggaaactg tgggctgatg acaacagaag tgttgactac aatgagaaac
3001 tggactttga ggccccccca agcatatggt ctaggattgt gagttttggt tctggttggg
3061 gcttctgggt gtcaccaagc ctgttcataa catcaactca cgtaatccct gcaggcataa
3121 cagaggcatt tggagtcccc atcaaacaaa tccaggtcca caaatcaggt gaattttgtc
3181 ggttcagatt cccaaaacca attagatcag atgtgacagg aatgatcttg gaggaaggtg
3241 cgcctgaggg caccgtggca accgtgctca ttaaacgccc taccggagag ctcatgcccc
3301 ttgcagccag aatgggaaca cacgcaacca tgaaaattca gggccgcatg gttggcgggc
3361 agatgggtat gttgctcact ggttcaaatg ctaaaggaat ggatttggga acaactcctg
3421 gtgattgtgg ctgtccctac atctacaaaa ggggcaatga ctatatagtc attggggtgc
3481 acacagcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga agtgagggtg
3541 aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc attctaggcc
3601 ctgggggggc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg aacacgcctc
3661 ttccaccagg gacgtatgag cctgcctacc tcggtggccg cgacccgcgt gttaagggtg
3721 ggccctcctt gcagcaggta atgagagacc agttgaagcc atttaccgag cccaggggta
3781 aacctccaag accaagtgtg ttggaagcag ctaaacaaac catcatcaat gtcctcgaac
3841 aaaccctgga ccctccacaa aaatggacat acgcacaggc gtgtgcttca cttgacaaaa
3901 ccacctccag cgggcatccc caccacgtcc gaaagaatga attctggaat ggtgagacct
3961 tcactggtaa attggcagac caagcatcaa aagcaaattt aatgtttgag gaagggaaac
4021 acatgacacc agtgtataca gcagccctca aggatgagct ggtcaagaca gacaaagtct
4081 atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg atccggtgcg
4141 ccaggtcttt tggtgggctc atggatgaga tgaaaacaca ctgcatatca ctcccagtcc
4201 gagttggcat gaacatgaat gaagatggtc caataatatt tgagaagcac tccagataca
4261 agtatcacta tgatgcagat tactcccgct gggattcaac acaacagagg gcagtactag
4321 cagcagcctt ggagatcatg gtcaggttct ctgcagagcc acaattggca caaatagtcg
4381 ctgaggatct gctggccccc agtgtggtag atgtaggaga ctttaaaatt tcaataaatg
4441 aagggctccc ctctggtgta ccatgcactt ctcaatggaa ttccatcgca cactggctgc
4501 taaccctctg cgccttgtct gaagtcacca aactgtcccc tgacattgta caggcaaatt
4561 ccatgttctc attttacggt gatgacgaga ttgtcagcac cgatataaaa ttggaccctg
4621 aaaagttaac caccaaattg aaggagtacg gcctgaaacc aactcgccca gacaaaaccg
4681 aaggacccct gatcatcagt gaggatttga acggactcac tttcctccgg aggacggtga
4741 ctcgtgaccc agctggctgg tttggaaagt tggaccaaag ctcaatattg aggcagatgt
4801 actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc cactctcaaa
4861 gacccataca gctcatggca ctgcttggtg aggcctccct tcacggaccc tctttctaca
4921 gcaaaattag taagttggtc ataactgaac tcaaagaagg tgggatggac ttttacgtgc
4981 caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg tgggagggcg
5041 atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc cgctccatcg
5101 aatgatggtg cagctagtct cgtaccagag gccattaatg agactatgcc attggaaccc
5161 gttgctggcg catctattgc tgccccagtg gcgggacaaa ctaacataat tgacccctgg
5221 ataagaacaa attttgtgca agcccctaat ggagagttta cagtgtcacc gagaaattcc
5281 cctggagaga ttttattaaa tttagagtta ggaccagatt tgaatcctta tttggcccat
5341 ctatcaagga tgtacaatgg atatgctgga ggtgttgagg tgcaagtgct tcttgctggg
5401 aacgcgttca cagcaggaaa gatattattt gcagcaatcc cacccaactt tcctgtagat
5461 atgatcagcc cagctcaaat tactatgctt ccccatttga ttgtagatgt taggacattg
5521 gaacctatta tgataccctt acctgatgtt aggaatgtgt tctatcattt taataatcaa
5581 ccccaaccta ggatgagatt agtggctatg ctctataccc cattgagatc taatggttca
5641 ggagatgatg tctttactgt gtcttgtaga gtgttgacta ggccaacccc tgactttgaa
5701 ttcatttacc tagtgcctcc ctctgtagag tccaaaacta aaccattcac acttccaata
5761 ttgaccattt ctgaactaac caactcccgg tttcccatcc caattgagca actgtacacg
5821 gccccaaatg agaataatgt tgtacagtgt caaaatggaa ggtgcacctt ggatggagag
5881 cttcagggca ccacccagct attatcaagt gcagtctgct cgtacagggg caggactgtg
5941 gctaacagtg gggacaattg ggaccagaat ttgctccagc tgacctaccc aagcggtgca
6001 agctatgacc ccactgatga agtaccagca cccttgggca cccaggattt cagtgggata
6061 ttgtatgggg tgttaaccca agataatgtg agtgagggta caggggaggc caaaaatgct
6121 aagggagtat acatatccac caccagtgga agattcaccc caaaaattgg gacaattgga
6181 ttgcattcaa taactgaaaa tgtgcacccc aatcagcaat cacggttcac ccccgttgga
6241 gtcgctcaga atgaaaacac ccccttccag caatgggttc taccacacta cgcaggtgct
6301 cttgctctaa ataccaattt ggcacccgct gttgccccga ctttccctgg cgagcaatta
6361 ctgttcttca ggtcccgtgt tccatgtgtt caaggtctgc gggggcagga tgctttcata
6421 gattgtctcc tacctcaaga gtgggtgaac catttttatc aagaggctgc tccctcccaa
6481 gcagacgttg ccctcatcag gtatgtcaac cctgatactg gtcgcacgtt gtttgaggcc
6541 aaattgcaca ggtcaggttt cattactgta tcacacactg gtacctaccc tcttgtggtc
6601 cccccaaatg gtcatttcag gtttgattct tgggttaacc aattctactc actcgccccc
6661 atgggaactg gcaatgggcg tagaagagtt caataatggc aggagcattc atagctggtc
6721 tagccggtga catgctgact tctgctgttg gttcactgac ctctgcagga gccaatgcca
6781 tcaatcagaa attgaatttt gattacaata aacaactcca aaatgcatcc tttcaacatg
6841 ataaggaaat gttgcaggcc caaattgatg ctacaaagaa gctccagtca gagatgattg
6901 caattaagca tggggttctg accgcgggcg gcttttcccc agctgatgca gccagagggg
6961 cagtcaacgc cccaatgact cgagtgttgg attggtcagg gacacgctac tacgctccaa
7021 attctgtgca aaccaccagt tattctgggc aattcacccc ctcgcctgtc catcgggcgc
7081 aggtgaagtc cccttccaat tcgtctcagc ggactgcagc tccaagcagt atccgcagcc
7141 tgtcaaccca atcaacttct ttaggctcta cctcctcagg ggggtcctct acaacctcct
7201 ccagttcgag gacagcagac tgggtgcaac aacaaagggc tcttagcccg tacatgcagg
7261 gagccctgca gacggcatac gtcacaccgc cgtctagtag ggcttccagt atgagctctg
7321 tctcaacagt gcccaaaggg gttttggact cctggacacc tgtgtttaac acacgcaggc
7381 agccgctgtt tgcacacctc aggaagaggg gggagtcaca ggcttagtga aaaggataat
7441 cagca
//