Typing tool
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Typing tool
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Complete norovirus genomes
| LC597128 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7487
LOCUS LC597128 7487 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.4Sydney2012[P31]/STM150 RNA,
nearly comlete genome.
ACCESSION LC597128
VERSION LC597128.1
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 7487)
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..7487
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.4Sydney2012[P31]/STM150"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS <1..5083
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BCN97295.1"
/translation="NDASVAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPP
KEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTA
FSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVE
LAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRR
MIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLN
ILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL
VPIVMGGIGLVLGFTREKIGKMLSSAASTLRACKDLGAYGLEILKLAMKWFFPKKEEA
NELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASP
DIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIA
ASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLN
CDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF
PGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH
ERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQ
ALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIR
YYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGCLKPKD
EEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIR
KRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITS
THVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLL
IKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYI
YKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPK
LSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFT
GKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRC
ARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRD
VLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKP
TRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPF
ETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5064..6686
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97296.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPSVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6686..>7487
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97297.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAAPARGSSSKPS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESR"
ORIGIN
1 taacgacgct tccgttgccg ctgttgccaa cagcaacaac gacatcgcaa aatcttcaag
61 tgacggtgtg ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa
121 acagccgccc ccgaaggaaa taccacccag acccccgcga ccacccacac cagaattggt
181 caaaaagatc cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacagcgc
241 caaagatggc gtttccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa
301 cacggcgttt agtgtccccc cactcaacca aagggagagc agggacgcca aggagccact
361 aactggaaca atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga
421 acgaggtctt gtacttggtg tgcataagcc accggcagcc attagccttg ccaaggtcga
481 gctagcaccg ctctctttgt tctggagacc tgtatacacc ccccagtatc tcatctctcc
541 agacactctt aggagattac atggagagtc attcccctac actgcatttg ataacaattg
601 ctacgccttt tgttgttggg tattagacct gaacgactca tggctaagca ggagaatgat
661 tcagagaaca acaggtttct ttaggccgta ccaggattgg aacaggaaac ccctccccac
721 tatggatgat tccaaattaa agaaggtagc caatatattc ttgtgtactt tgtcttcact
781 attcaccagg cccattaagg acataatagg gaagttgaaa cctcttaaca tccttaacat
841 tctggctaca tgtgattgga ccttcgcagg catagtggaa tccttaatac tcttggcaga
901 actctttgga gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgctagg
961 tgattatgaa ctgcaaggac ctgaggacct tgcagtggaa ctggtcccaa tagtgatggg
1021 ggggataggt ttggtgctag gatttaccag agagaaaatc ggaaagatgt tatcatccgc
1081 tgcatccact ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt
1141 ggccatgaaa tggttcttcc caaagaaaga ggaagcaaat gaactggcta tggtgagatc
1201 catcgaggat gcagtgctag acctcgaggc aattgaaaac aaccacatga ccaccctact
1261 caaagacaaa gacagcttgg caacctacat gagaaccctt gaccttgagg aggagaaagc
1321 cagaaagctc tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct
1381 ggcaagaatc gctgctgcac gttccctagt gcatcgggcg aaagaagagc tctccagcag
1441 gccgagacct gtcgttgtga tgatatcggg aagaccaggg atagggaaaa ctcaccttgc
1501 cagggagctg gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggtcttat
1561 cccacgcaat ggtgtcgacc actgggacgc atacaagggc gagagagttg tcctatggga
1621 cgactatgga atgagcaacc ccatccatga tgcccttagg ttgcaggagc ttgctgacac
1681 ttgccccctc acgctaaatt gtgacagaat tgagaacaaa ggaaaagtct ttgacagtga
1741 tgccataatt atcaccacca atctggccaa cccagcaccg ctggattatg tcaactttga
1801 agcgtgctcg agacgcattg atttcctcgt gtacgcagaa gcccctgagg tggagaaggc
1861 aaagcgcgac ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc
1921 acacataaaa ctgtcattgg ctccacaggg tggttttgac aagaacggca acaccccaca
1981 tggaaaaggg gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt
2041 actccatgag aggctggacg aatatgaact gcaaggccca gccctcacca ctttcaactt
2101 tgaccgcaac aagatacttg cttttagaca gcttgctgct gaaaacaagt atgggctgat
2161 ggacacaatg agagttggaa aacagctcaa ggatgtcaag accatgccag acctcaaaca
2221 agcacttaag aacatcgcga taaagaagtg ccagatagtg tacaatggtg gcacctacac
2281 acttgaggct gatggcaagg gtagtgtgaa agttgacaaa gtgcaaagtg ccactgtgca
2341 gaccaacaat gaactagccg gtgccctaca ccacctaagg tgcgctagaa tcagatacta
2401 tgttaagtgc gtccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt
2461 caccacgcgc atcgctaagc gcatgaatat acagaacctc tggtccaagc cacaggtgga
2521 agacacagaa gagacggcca acaaagatgg ttgcttaaag cccaaagatg aagagtttgt
2581 cgtctcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt ccggccgtgg
2641 taagaagcac acagcctttt caagcaaagg gctcagtgat gaggagtacg atgagtacaa
2701 gagaatcaga gaagaaagga atggcaagta ctccatagag gagtaccttc aggacagaga
2761 caggtactac gaggaggtgg ccattgccag ggcaaccgaa gaggacttct gtgaagaaga
2821 agaggccaaa atccggcaga gaattttcag accaacaagg aaacaacgta aagaagagag
2881 ggcctctctc ggcttggtca caggctctga aatcaggaag agaaacccag aagatttcaa
2941 acccaaggga aagctgtggg ctgatgacga cagaagtgtt gactacaatg aaaaactcaa
3001 ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag gctggggttt
3061 ctgggtctcc cccagtttgt ttataacatc aacccatgtc ataccccaag gtgcaaaaga
3121 gttcttcggg gtccctatca agcaaatcca gatacacaag tcaggtgaat tctgccggtt
3181 gagattccca aagccaatca gaactgatgt gacgggcatg attctagaag aaggcgcgcc
3241 cgaggggacc gtggccacac tgctcatcaa gaggccaact ggagagctca tgcctctggc
3301 agccagaatg gggacccatg caaccatgaa aattcagggg cgcacagttg gagggcaaat
3361 gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa caccaggcga
3421 ctgcggctgc ccctacatct acaagagggg gaatgactac gtggtcatag gggtccatac
3481 ggccgctgcc cgtgggggaa acactgtcat atgtgccacc caggggagtg agggagaagc
3541 cacacttgaa ggaggtgaca gcaaagggac atactgtggc gcaccaatat tgggcccagg
3601 gagtgctccg aagctcagta ccaagactaa gttttggagg tcatccacaa caccactccc
3661 gcctggcacc tatgaaccag cctacctcgg tggtaaagac cctagagtca aaggtggccc
3721 ttcattgcaa caagttatga gggaccagct aaagccattc acagaaccca gaggcaaacc
3781 accaagacca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc ttgagcaaac
3841 aattgaccca ccccaaaaat ggtcatttgc gcaagcttgc gcatcccttg acaaaaccac
3901 ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg agtccttcac
3961 aggaaaattg gctgatcaag cctccaaggc caacctaatg tttgaagagg gaaagaacat
4021 gactccagtc tacacaggtg cacttaaaga tgagttggtg aaaaccgata aagtttatgg
4081 taaggtcaag aagaggcttc tgtggggttc agatctggcg accatgatac ggtgtgcccg
4141 agcttttgga ggccttatgg atgaactcaa ggcacactgt gtcacacttc ctgttagagt
4201 tggtatgaac atgaatgagg atggccccat catctttgag aagcactcca gatatagata
4261 ccactatgat gctgattatt cccggtggga ctcaacacaa caaagggatg tgctagcagc
4321 agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga tagttgcaga
4381 agacctcctt tcccctagcg tgatggatgt aggtgacttt caaatatcaa taagtgaggg
4441 tctcccctct ggggtacctt gtacctccca gtggaattcc atcgcccact ggctcctcac
4501 tctgtgcgca ctctctgaag tcacggacct gtcccctgat atcattcagg ccaactccct
4561 gttctccttc tatggtgatg atgagattgt aagcacagac ataaagttgg acccagagaa
4621 gctgacagca aaactcaagg agtacgggct gaaaccaacc cgccccgaca aaactgaagg
4681 accccttgtt atctctgaag acctggatgg cctgacattc ctccggagaa ctgtgacccg
4741 tgatccagct ggctggtttg gaaaattgga acaaagttca attctcaggc aaatgtactg
4801 gaccaggggt cccaaccatg aagatccatt tgaaacaatg ataccacact cccaaagacc
4861 catacaattg atgtccttgc tgggcgaggc tgcactccac ggcccggcat tctatagcaa
4921 aattagcaaa ttagtcattg cagagttgaa ggaaggtggc atggattttt acgtacccag
4981 acaagagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg agggcgatcg
5041 caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg
5101 ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctttg gagcccgttg
5161 ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta
5221 gaaataattt tgtacaagcc cctggtggag agtttacagt atcccctaga aacgctccag
5281 gtgaaatact atggagcgcg cccttgggcc ctgacctaaa tccctaccta tcccatttgg
5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaatg
5401 cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaattttcca actgaaggct
5461 tgagccccag ccaggtcact atgttccccc atatagtagt agatgttagg cagttagaac
5521 ctgtgctgat tcccttaccc gatgttagga ataatttcta tcattataat caatcaaatg
5581 atcccaccat taagttgata gcaatgttgt atacaccact tagggctaat aatgctgggg
5641 atgatgtctt cacagtttct tgccgagttc tcacgagacc atcccccgat tttgatttca
5701 tatttctagt gccacccaca gttgagtcaa gaactaaacc attctctgtc ccagttttaa
5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggtc
5821 ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat ggcgtgctcc
5881 taggcaccac ccaactgtct cctgtcaaca tctgcacctt cagaggagat gttacccata
5941 tcacaggtag tcgtaactac acaatgaatt tggcttctca aaattggagc aattatgacc
6001 caacagaaga aatcccagcc cctctaggaa ctccagattt tgttgggaag attcaaggca
6061 tgctcaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc acagtgtaca
6121 ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaaca gacacagacc
6181 atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc caagatggca
6241 gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc aagttactca ggcagaaaca
6301 ctcccagtgt gcatctggcc cccgctgtag cccccacttt tccgggtgag caacttctct
6361 tcttcagatc taccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc
6421 tcccccagga atgggtgcag tacttctacc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgt aagcttcata
6541 aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg
6601 gttattttag gtttgattcc tgggtcaacc agttttacac gcttgccccc atgggaaatg
6661 gaacggggcg tagacgtgca ctataatggc tggagctttc tttgctggat tggcatctga
6721 tgtccttggc tctgggcttg gttcccttat caatgctggg gctggggcca tcaaccaaaa
6781 agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta gcagcaatct
6841 acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg aggccaccaa
6901 aaggctacaa caggaaatga tgaaagttaa gcaggcaatg ctcctagagg gtgggttctc
6961 tgagacagat gcggcccgcg gggcaatcaa cgcccccatg acaaaagctt tggactggag
7021 cgggacaagg tactgggctc ccgatgctag gactacaaca tacaatgcag gccgcttttc
7081 cacccctcaa ccatcagggg cactgccggg aagagtcaat cttagggatg ctgcccctgc
7141 tcggggttcc tccagtaagc cttctaattc ttccactgct acttctgtgt actcaaatca
7201 aactacttca acgagacttg gttctacagc tggttctggt accagtgtct cgagcttccc
7261 atcagctgca aggactagga gctgggttga ggaccaaagt aggaatttgt cacctttcat
7321 gaggggggcc cacaacatat cgtttgtcac tccaccatct agcagatcct ctagccaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcca ctcttcgctc acattcgtaa gcgaggggag tcacggg
//