Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC597130 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5080
ORF2: 5061..6683
ORF3: 6683..7489
LOCUS LC597130 7489 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.4Sydney2012[P31]/STM194 RNA,
nearly comlete genome.
ACCESSION LC597130
VERSION LC597130.1
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 7489)
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..7489
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.4Sydney2012[P31]/STM194"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS <1..5080
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BCN97300.1"
/translation="DASVAAVANSNNDIVKSSSDGVFSNMAVTFKRALGARPKQPPPK
EIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAF
SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVEL
APLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
IQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNI
LNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PIVMGGIGLVLGFTREKIGKMLSSAASTLRACKDLGAYGLEILKLAMKWFFPKKEEAN
ELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPD
IVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAA
SLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNC
DRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQA
LKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRY
YVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGCLKPKDE
EFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY
LQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRK
RNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITST
HVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLI
KRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIY
KRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKL
STKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRP
NVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFIG
KLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCA
RAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDV
LAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIA
HWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPT
RPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFE
TMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMR
FSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5061..6683
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97301.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6683..7489
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97302.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAAPARGSSSKPS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgacgcttcc gttgccgctg ttgccaacag caacaacgac atcgtaaaat cttcaagtga
61 cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc ggcctaaaca
121 gccgcccccg aaggaaatac cacccagacc cccgcgacca cccacaccag aattggtcaa
181 aaagatccct cctcccccac ccaacgggga ggatgaacta gtggtctctt acagcgccaa
241 agatggcgtt tccggactgc ctgagctcac cactgtcaga caaccggaag aaaccaacac
301 ggcgtttagt gtccccccac tcaaccaaag ggagagcagg gacgccaagg agccactaac
361 tggaacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt acgtggaacg
421 aggtcttata cttggtgtgc ataagccacc ggcagccatt agccttgcca aggtcgagct
481 agcaccgctc tctttgttct ggagacctgt atacaccccc cagtatctca tctctccaga
541 cactcttagg agattacatg gagagtcatt cccctacact gcatttgata acaattgcta
601 cgccttttgt tgttgggtat tagacctgaa cgactcatgg ctaagcagga gaatgattca
661 gagaacaaca ggtttcttta ggccgtacca ggattggaac aggaaacccc tccccactat
721 ggatgattcc aaattaaaga aggtagccaa catattcttg tgtactttgt cttcactatt
781 caccaggccc attaaggaca taatagggaa gttgaaacct cttaacatcc ttaacattct
841 ggctacatgt gattggacct tcgcaggcat agtggaatcc ttaatactct tggcagaact
901 ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct tgctaggtga
961 ttatgaactg caaggacctg aggaccttgc agtggaactg gtcccaatag tgatgggggg
1021 gataggtttg gtgctaggat ttaccagaga gaaaatcgga aagatgttat catccgctgc
1081 atccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct taaaattggc
1141 catgaaatgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg tgagatccat
1201 cgaggatgca gtgctagacc tcgaggcaat tgaaaacaac cacatgacca ccctactcaa
1261 agacaaagac agcttggcaa cctacatgag aacccttgat cttgaggagg agaaagccag
1321 aaagctctca accaaatctg cttcacccga tattgtgggc acaatcaact ctcttctggc
1381 aagaatcgct gctgcacgtt ccctagtgca tcgggcgaaa gaagagctct ccagcaggcc
1441 gagacctgtc gttgtgatga tatcgggaag accagggata gggaaaactc accttgccag
1501 ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg gtcttatccc
1561 acgcaatggt gtcgaccact gggacgcata caagggcgag agagttgtcc tatgggacga
1621 ctatggaatg agcaacccca tccatgatgc ccttaggttg caggagcttg ctgacacttg
1681 ccccctcacg ctaaattgtg acagaattga gaacaaagga aaagtctttg acagtgatgc
1741 cataattatc accaccaatc tggccaaccc agcaccgctg gattatgtca actttgaagc
1801 gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg agaaggcaaa
1861 gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg acttctcaca
1921 cataaaactg tcattggctc cacagggtgg ttttgacaag aacggcaaca ccccacatgg
1981 aaaaggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat cagggttact
2041 ccatgagagg ctagacgaat atgaactgca aggcccagcc ctcaccactt tcaactttga
2101 ccgcaacaag atacttgctt ttagacagct tgctgctgaa aacaagtatg ggctgatgga
2161 cacaatgaga gttggaaaac agctcaagga tgtcaagacc atgccagacc tcaaacaagc
2221 acttaagaac atcgcgataa agaagtgcca gatagtgtac aatggtggca cctacacact
2281 tgaggctgat ggcaagggta gtgtgaaagt tgacaaagtg caaagtgcca ctgtgcagac
2341 caacaatgaa ctagccggtg ccctacacca cctaaggtgc gctagaatca gatactatgt
2401 taagtgcgtc caggaggcac tgtattccat catccaaatc gctggggctg cattcgtcac
2461 cacgcgcatc gctaagcgca tgaatataca gaacctctgg tccaagccac aggtggaaga
2521 cacagaagag acggccaaca aagatggttg cttaaagccc aaagatgaag agtttgtcgt
2581 ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagtccg gccgtggtaa
2641 gaagcacaca gccttttcaa gcaaagggct cagtgatgag gagtacgatg agtacaagag
2701 aatcagagaa gaaaggaatg gcaagtactc catagaggaa taccttcagg acagagacag
2761 gtactacgag gaggtggcca ttgccagggc aaccgaagag gacttctgtg aagaagaaga
2821 ggccaaaatc cggcagagaa ttttcagacc aacaaggaaa caacgtaaag aagagagggc
2881 ctctctcggc ttggtcacag gctctgaaat caggaagaga aacccagaag acttcaaacc
2941 caagggaaag ctgtgggctg atgacgacag aagtgttgac tacaatgaaa aactcaactt
3001 tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct ggggtttctg
3061 ggtctccccc agtttgttta taacatcaac ccatgtcata ccccaaggtg caaaagagtt
3121 cttcggggtc cctatcaagc aaatccagat acataagtca ggtgaattct gccggttgag
3181 attcccaaag ccaatcagaa ctgatgtgac gggcatgatt ctagaagaag gcgcgcccga
3241 ggggaccgtg gccacactgc tcatcaagag gccaactgga gagctcatgc ctctggcagc
3301 cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc acagttggag ggcaaatggg
3361 tatgctcctg acaggatcca acgccaagag tatggaccta ggcacaacac caggcgactg
3421 cggctgcccc tacatctaca agagggggaa tgactacgtg gtcatagggg tccatacggc
3481 cgctgcccgt gggggaaaca ctgtcatatg cgccacccag gggagtgagg gagaagccac
3541 acttgaagga ggtgacagca aagggacata ctgtggcgca ccaatattgg gcccagggag
3601 tgctccgaag ctcagtacca agactaagtt ttggaggtca tccacaacac cactcccgcc
3661 tggcacctat gaaccagcct acctcggtgg taaagaccct agagtcaaag gtggcccttc
3721 attgcaacaa gttatgaggg accagctaaa gccattcaca gaacccagag gcaaaccacc
3781 aagaccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg agcaaacaat
3841 tgacccaccc caaaaatggt catttgcgca agcttgcgca tcccttgaca aaaccacctc
3901 cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt ccttcatagg
3961 aaaattggct gatcaagcct ccaaggccaa cctaatgttt gaagagggaa agaacatgac
4021 tccagtctac acaggtgcac ttaaagatga gttggtgaaa accgataaag tttatggtaa
4081 ggtcaagaag aggcttctgt ggggttcaga tctggcgacc atgatacggt gtgcccgagc
4141 ttttggaggc cttatggatg aactcaaggc acactgtgtc acacttcctg tcagagttgg
4201 tatgaacatg aatgaggatg gccccatcat ctttgagaag cactccagat atagatacca
4261 ctatgatgct gattattccc ggtgggactc aacacaacaa agggatgtgc tagcagcagc
4321 actagaaatc atggttaagt tctctccaga accacacctg gcccagatag ttgcagaaga
4381 cctcctttcc cctagcgtga tggatgtagg tgactttcaa atatcaataa gtgagggtct
4441 cccctctggg gtaccttgta cctcccagtg gaattccatc gcccactggc tcctcactct
4501 gtgcgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcca actccctgtt
4561 ctccttctat ggtgatgatg agattgtaag cacagacata aagttggacc cagagaagct
4621 gacagcaaaa ctcaaggagt acgggctgaa accaacccgc cccgacaaaa ctgaaggacc
4681 ccttgtcatc tctgaagacc tggatggcct gacattcctc cggagaactg tgacccgtga
4741 tccagctggc tggtttggaa aattggaaca aagttcaatt ctcaggcaaa tgtactggac
4801 caggggtccc aaccatgaag atccatttga aacaatgata ccacactccc aaagacccat
4861 acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct atagcaaaat
4921 tagcaaatta gtcattgcag agttgaagga aggtggcatg gacttttacg tacccagaca
4981 agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg gcgatcgcaa
5041 tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca tctgatgggt
5101 ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctttggag cccgttgttg
5161 gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc tggattagaa
5221 ataattttgt acaagcccct ggtggagagt ttacagtatc ccctagaaac gctccaggtg
5281 aaatactatg gagcgcgccc ttgggccctg acctaaatcc ctacctatcc catttggcca
5341 gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg gggaatgcgt
5401 tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact gaaggcttga
5461 gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcag ttagaacctg
5521 tgctgattcc cttacccgat gttaggaata atttctatca ttataatcaa tcaaatgatc
5581 ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat gctggggatg
5641 atgtcttcac agtttcttgc cgagttctca cgagaccatc ccccgatttt gatttcatat
5701 ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca gttttaactg
5761 ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc acgggtccca
5821 gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac gactgatggc gtgctcctag
5881 gcaccaccca actgtctcct gtcaacatct gcaccttcag aggagatgtc acccatatca
5941 caggtagtcg taactacaca atgaatttgg cttctcaaaa ttggagcaat tatgacccaa
6001 cagaagaaat cccggcccct ctaggaactc cagattttgt tgggaagatt caaggcatgc
6061 tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca gtgtacactg
6121 ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaacagac acagaccatg
6181 attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa gatggcagca
6241 ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc agaaatactc
6301 ccaatgtgca tctggccccc gctgtagccc ccacttttcc gggtgagcaa cttctcttct
6361 tcagatctac catgcccgga tgcagcgggt accccaacat ggatttggac tgtctgctcc
6421 cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct gatgtggctc
6481 tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaag cttcataaat
6541 caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc cccaatggtt
6601 attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg ggaaatggaa
6661 cggggcgtag acgtgcacta taatggctgg agctttcttt gctggattgg catctgatgt
6721 ccttggctct gggcttggtt cccttatcaa tgctggggct ggggccatca accaaaaagt
6781 tgagtttgaa aataacagga aattgcaaca agcatccttc caatttagca gcaatctaca
6841 acaggcttcc tttcaacatg acaaagagat gctccaagca caaattgagg ccaccaaaag
6901 gctacaacag gaaatgatga aagttaagca ggcaatgctc ctagagggtg ggttttctga
6961 gacagatgcg gcccgcgggg caatcaacgc ccccatgaca aaagctttgg actggagcgg
7021 gacaaggtac tgggctcccg atgctaggac tacaacatac aatgcaggcc gcttttccac
7081 ccctcaacca tcaggggcac tgccgggaag agtcaatctt agggatgctg cccctgctcg
7141 gggttcctcc agtaagcctt ctaattcttc cactgctact tctgtgtact caaatcaaac
7201 tacttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga gcttcccatc
7261 agccgcaagg actaggagct gggttgagga ccaaagtagg aatttgtcac ctttcatgag
7321 gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta gccaaggcac
7381 agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca acacgcgcag
7441 gcagccactc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtaa
//