Typing tool
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Typing tool
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Complete norovirus genomes
| LC597116 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5086
ORF2: 5067..6689
ORF3: 6689..7495
LOCUS LC597116 7495 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.4Sydney2012[P31]/SOEP134 RNA,
nearly comlete genome.
ACCESSION LC597116
VERSION LC597116.1
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 7495)
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..7495
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.4Sydney2012[P31]/SOEP134"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS <1..5086
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BCN97261.1"
/translation="ASNDASVAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP
PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDHELQGPEDLAVE
LVPIVMGGIGLVLGFTREKIGKMLSSAASTLRACKDLGAYGLEILKLAMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLK
QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGCLKPK
DEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEI
RKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFIT
STHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATL
LIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPY
IYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAP
KLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESF
TGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIR
CARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQR
DVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLK
PTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDP
FETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5067..6689
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97262.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6689..7495
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97263.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAAPARGSSSKPS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ttgccgctgt tgccaacagc aacaacgaca tcgcaaaatc
61 ttcaagtgac ggtgtgtttt ctaacatggc tgtcactttt aagcgggccc tcggggcgcg
121 gcctaaacag ccgcccccga aggaaatacc acccagaccc ccgcgaccac ccacaccaga
181 actggtcaaa aagatccctc ctcccccacc caacggggag gatgaactag tggtctctta
241 tagcgccaaa gatggcgttt ccggactgcc tgagctcacc actgtcagac aagaagaaac
301 caacacggcg tttagtgtcc ccccactcaa ccaaagggag agcagggacg ccaaggagcc
361 actaactgga acaatcattg aaatgtggga tggagaaatc taccattacg gcctgtacgt
421 ggaacgaggt cttatacttg gtgtgcataa gccaccggca gccattagcc ttgccaaggt
481 cgagctagca ccgctctctt tgttctggag acctgtatac accccccagt atctcatctc
541 tccagacact cttaggagat tacatggaga gtcattcccc tacactgcat ttgataacaa
601 ttgctacgcc ttttgttgtt gggtattaga cctgaacgac tcatggctaa gcaggagaat
661 gattcagaga acaacaggtt tctttaggcc gtaccaggat tggaacagga aacccctccc
721 cactatggat gattccaaat taaagaaggt agccaacata ttcttgtgta ctttgtcttc
781 actattcacc aggcccatta aggacataat agggaagttg aaacctctta acatccttaa
841 cattctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttaa tactcttggc
901 agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg cccccttgct
961 aggtgatcat gaactgcaag gacctgagga ccttgcagtg gaactggtcc caatagtgat
1021 gggggggata ggtttggtgc taggatttac cagagagaaa atcggaaaga tgttatcatc
1081 cgctgcatcc actttaagag cttgtaaaga ccttggtgca tacggactgg aaatcttaaa
1141 attggccatg aaatggttct tcccaaagaa agaggaagca aatgaactgg ctatggtgag
1201 atccatcgag gatgcagtgc tagacctcga ggcaattgaa aacaaccaca tgaccaccct
1261 actcaaagac aaagacagct tggcaaccta catgagaacc cttgatcttg aggaggagaa
1321 agccagaaag ctctcaacca aatctgcttc acccgatatt gtgggcacaa tcaactctct
1381 tctggcaaga atcgctgctg cacgttccct agtgcatcgg gcgaaagaag agctctccag
1441 caggccgaga cctgtcgttg tgatgatatc gggaagacca gggataggga aaactcacct
1501 tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc gtgtgggtct
1561 tatcccacgc aatggtgtcg accactggga cgcatacaag ggcgagagag ttgtcctatg
1621 ggacgactat ggaatgagca accccatcca tgatgccctt aggttgcagg agcttgctga
1681 cacttgcccc ctcacgctaa attgtgacag aattgagaac aaaggaaaag tctttgacag
1741 tgatgccata attatcacca ccaatctggc caacccagca ccgctggatt atgtcaactt
1801 tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg aggtggagaa
1861 ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca gtcctgactt
1921 ctcacacata aaactgtcat tggctccaca gggtggtttt gacaagaacg gcaacacccc
1981 acatggaaaa ggggtcatga agaccctcac cactggctcc ctcatcgccc gagcatcagg
2041 gttactccat gagaggctag acgaatatga actgcaaggc ccagccctca ccactttcaa
2101 ctttgaccgc aacaagatac ttgcttttag acagcttgct gctgaaaaca agtatgggct
2161 gatggacaca atgagagttg gaaaacagct caaggatgtc aagaccatgc cagacctcaa
2221 acaagcactt aagaacatcg cgataaagaa gtgccagata gtgtacaatg gtggcaccta
2281 cacacttgag gctgatggca agggtagtgt gaaagttgac aaagtgcaaa gtgccactgt
2341 gcagaccaac aatgaactag ccggtgccct acaccaccta aggtgcgcta gaatcagata
2401 ctatgttaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg gggctgcatt
2461 cgtcaccacg cgcatcgcta agcgcatgaa tatacaaaac ctctggtcca agccacaggt
2521 ggaagacaca gaagagacgg ccaacaaaga tggttgctta aagcccaaag atgaagagtt
2581 tgtcgtctca tccgacgaca tcaaaactga gggcaagaaa gggaagaaca agtccggccg
2641 tggtaagaag cacacagcct tttcaagcaa agggctcagt gatgaggagt acgatgagta
2701 caagagaatc agagaagaaa ggaatggcaa gtactccata gaggaatacc ttcaggacag
2761 agacaggtac tacgaggagg tggccattgc cagggcaacc gaagaggact tctgtgaaga
2821 agaagaggcc aaaatccggc agagaatttt cagaccaaca aggaaacaac gtaaagaaga
2881 gagggcctct ctcggcttgg tcacaggctc tgaaatcagg aagagaaacc cagaagactt
2941 caaacccaag ggaaagctgt gggctgatga cgacagaagt gttgactaca atgaaaaact
3001 caactttgag gccccaccaa gcatctggtc gcggatagtc aactttggtt caggctgggg
3061 tttctgggtc tcccccagtt tgtttataac atcaacccat gtcatacccc aaggtgcaaa
3121 agagttcttc ggggtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg
3181 gttgagattc ccaaagccaa tcagaactga tgtgacgggc atgattctag aagaaggcgc
3241 gcccgagggg accgtggcca cactgctcat caagaggcca actggagagc tcatgcctct
3301 ggcagccaga atggggaccc atgcaactat gaaaattcag gggcgcacag ttggagggca
3361 aatgggtatg ctcctgacag gatccaacgc caagagtatg gacctaggca caacaccagg
3421 cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca taggggtcca
3481 tacggccgct gcccgtgggg gaaacactgt catatgtgcc acccagggga gtgagggaga
3541 agccacactt gaaggaggtg acagcaaagg gacatactgt ggcgcaccaa tattgggccc
3601 agggagtgct ccgaagctca gtaccaagac taagttttgg aggtcatcca caacaccact
3661 cccgcctggc acctatgaac cagcctacct cggtggtaaa gaccctagag tcaaaggtgg
3721 cccttcattg caacaagtta tgagggacca gctaaagcca ttcacagaac ccagaggcaa
3781 accaccaaga ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca
3841 aacaattgac ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac
3901 cacctccagc ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcctt
3961 cacaggaaaa ttggctgatc aagcctccaa ggccaaccta atgtttgaag agggaaagaa
4021 catgactcca gtctacacag gtgcacttaa agatgagttg gtgaaaaccg ataaagttta
4081 tggtaaggtc aagaagaggc ttctgtgggg ttcagatctg gcgaccatga tacggtgtgc
4141 ccgagctttt ggaggcctta tggatgaact caaggcacac tgtgtcacac ttcctgtcag
4201 agttggtatg aacatgaatg aggatggccc catcatcttt gagaagcact ccagatatag
4261 ataccactat gatgctgatt attcccggtg ggactcaaca caacaaaggg atgtgctagc
4321 agcagcacta gaaatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc
4381 agaagacctc ctttccccta gcgtgatgga tgtaggtgac tttcaaatat caataagtga
4441 gggtctcccc tctggggtac cttgtacctc ccagtggaat tccatcgccc actggctcct
4501 cactctgtgc gcactctctg aagtcacgga cctgtcccct gatatcattc aggccaactc
4561 cctgttctcc ttctatggtg atgatgagat tgtaagcaca gacataaagt tggacccaga
4621 gaagctgaca gcaaaactca aggagtacgg gctgaaacca acccgccccg acaaaactga
4681 aggacccctt gttatctctg aagacctgga tggcctgaca ttcctccgga gaactgtgac
4741 ccgtgatcca gctggctggt ttggaaaatt ggaacaaagt tcaattctca ggcaaatgta
4801 ctggaccagg ggtcccaacc atgaagatcc atttgaaaca atgataccac actcccaaag
4861 acccatacaa ttgatgtcct tgctgggcga ggctgcactc cacggcccgg cattctatag
4921 caaaattagc aaattagtca ttgcagagtt gaaggaaggt ggcatggact tttacgtacc
4981 cagacaagag ccaatgttca gatggatgag attctcagat ctgagcacgt gggagggcga
5041 tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg
5101 atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct ttggagcccg
5161 ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga
5221 ttagaaataa ttttgtacaa gcccctggtg gagagtttac agtatcccct agaaacgctc
5281 caggtgaaat actatggagc gcgcccttgg gccctgacct aaatccctac ctatcccatt
5341 tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga
5401 atgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttt ccaactgaag
5461 gcttgagccc cagccaggtc actatgttcc cccatatagt agtagatgtt aggcagttag
5521 aacctgtgct gattccctta cccgatgtta ggaataattt ctatcattat aatcaatcaa
5581 atgatcccac cattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg
5641 gggatgatgt cttcacagtt tcttgccgag ttctcacgag accatccccc gattttgatt
5701 tcatatttct agtgccaccc acagttgagt caagaactaa accattctct gtcccagttt
5761 taactgttga ggagatgacc aattcaagat tccccattcc tttggaaaag ttgttcacgg
5821 gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact gatggcgtgc
5881 tcctaggcac cacccaactg tctcctgtca acatctgcac cttcagagga gatgtcaccc
5941 atatcacagg tagtcgtaac tacacaatga atttggcttc tcaaaattgg agcaattatg
6001 acccaacaga agaaatccca gcccctctag gaactccaga ttttgttggg aagattcaag
6061 gcatgctcac ccaaaccaca aggacagatg gctcaacacg cggccacaaa gccacagtgt
6121 acactgggag cgccgacttt gctccaaaac taggtagagt ccaatttgaa acagacacag
6181 accatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc atccaagatg
6241 gcagcaccac ccaccgaaat gaaccccaac agtgggtgct cccaagttac tcaggcagaa
6301 acactcccaa tgtgcatctg gcccccgctg tagcccccac ttttccgggt gagcaacttc
6361 tcttcttcag atctaccatg cccggatgca gcgggtaccc caacatggat ttggactgtc
6421 tgctccccca ggaatgggtg cagtacttct accaagaggc agccccagca caatctgatg
6481 tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag tgtaagcttc
6541 ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca
6601 acggttattt taggtttgat tcctgggtca accagtttta cacgcttgcc cccatgggaa
6661 atggaacggg gcgcagacgt gcactataat ggctggagct ttctttgctg gattggcatc
6721 tgatgtcctt ggctctgggc ttggttccct tatcaatgct ggggctgggg ccatcaacca
6781 aaaagttgag tttgaaaata acaggaaatt gcaacaagca tccttccaat ttagcagcaa
6841 tctacaacag gcttcctttc aacatgacaa agagatgctc caagcacaaa ttgaggccac
6901 caaaaggcta caacaggaaa tgatgaaagt taagcaggca atgctcctag agggtgggtt
6961 ctctgagaca gatgcggccc gcggggcaat caacgccccc atgacaaaag ctttggactg
7021 gagcgggaca aggtactggg ctcccgatgc taggactaca acatacaatg caggccgctt
7081 ttccacccct caaccatcag gggcactacc gggaagagtc aatcttaggg atgctgcccc
7141 tgctcggggt tcctccagta agccttctaa ttcttccact gctacttctg tgtactcaaa
7201 tcaaactact tcaacgagac ttggttctac agctggttct ggtaccagtg tctcgagctt
7261 cccatcagct gcaaggacta ggagctgggt tgaggaccaa agtaggaatt tgtcaccttt
7321 catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcagat cctctagcca
7381 aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg ctttcaacac
7441 gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaa
//