Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC597115 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5075
ORF2: 5056..6678
ORF3: 6678..7484
LOCUS LC597115 7547 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.4Sydney2012[P31]/SOEP127 RNA,
comlete genome.
ACCESSION LC597115
VERSION LC597115.1
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 7547)
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..7547
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.4Sydney2012[P31]/SOEP127"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS <1..5075
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BCN97258.1"
/translation="SVAAVANSNNDIAKSSSDGVFSNMAVTLKRALGARPKQPPPKEI
PPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSV
PPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAP
LSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILN
ILATCDWTFAGIVESSILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPI
VMGGIGLVLGFTREKIGKMLSSAASTLRACKDLGAYGLEILKLAMKWFFPKKEEANEL
AMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASL
TGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ
PDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL
DEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQALK
NIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYV
KCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGCLKPKDEEF
VVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQ
DRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRN
PEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHV
IPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKR
PTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKR
GNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLST
KTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNV
LEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKL
ADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARA
FGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLA
AALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHW
LLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRP
DKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTKGPNHEDPFETM
IPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFS
DLSTWEGDRNLAPSFVNEDGVE"
CDS 5056..6678
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97259.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVRVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPIGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6678..7484
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97260.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAAPARGSSSKPS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cttccgttgc cgctgttgcc aacagcaaca acgacatcgc aaaatcttca agtgacggtg
61 tgttttctaa catggctgtc actcttaagc gggccctcgg ggcgcggcct aaacagccgc
121 ccccgaagga aataccaccc agacccccgc gaccacccac accagaattg gtcaaaaaga
181 tccctcctcc cccacccaac ggggaggatg agctagtggt ctcttacagc gccaaagatg
241 gcgtttccgg actgcctgag ctcaccactg tcagacaacc ggaagaaacc aacacggcgt
301 ttagtgtccc cccactcaac caaagggaga gcagggacgc caaggagcca ctaactggaa
361 caatcattga aatgtgggat ggagaaatct accattacgg cctgtacgtg gaacgaggtc
421 ttatacttgg tgtgcataag ccaccggcag ccattagcct tgccaaggtc gagctagcac
481 cgctctcttt gttctggaga cctgtataca ccccccagta tctcatctct ccagacactc
541 ttaggagatt acatggagag tcattcccct acactgcatt tgataacaat tgctacgcct
601 tttgttgttg ggtattagac ctgaacgact catggctaag taggagaatg attcagagaa
661 caacaggttt ctttaggccg taccaggatt ggaacaggaa acccctcccc actatggatg
721 attccaaatt aaagaaggta gccaacatat tcttgtgtac tttgtcttca ctattcacca
781 ggcccattaa ggacataata gggaagttga aacctcttaa catccttaac attctggcta
841 catgtgattg gaccttcgca ggcatagtgg aatcctcaat actcttggca gaactctttg
901 gagttttctg gacaccccca gatgtgtctg cgatgatcgc ccccttgcta ggtgattatg
961 aactgcaagg acctgaggac cttgcagtgg aactggtccc aatagtgatg ggggggatag
1021 gtttggtgct aggatttacc agagagaaaa tcggaaagat gttatcatcc gctgcatcca
1081 ctttaagagc ttgtaaagac cttggtgcat acggactgga aatcttaaaa ttggccatga
1141 aatggttctt cccaaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg
1201 atgcagtgct agacctcgag gcaattgaaa acaaccacat gaccacccta ctcaaagaca
1261 aagacagctt ggcaacctac atgagaaccc ttgaccttga ggaggagaag gccagaaagc
1321 tctcaaccaa atctgcttca cccgatattg tgggcacaat caactctctt ctggcaagaa
1381 tcgctgctgc acgttcccta gtgcatcggg cgaaagaaga gctctccagc aggccgagac
1441 ctgtcgttgt gatgatatcg ggaagaccag ggatagggaa aactcacctt gccagggagc
1501 tggccaagaa gatcgcggcc tccctcacag gggaccagcg tgtgggtctt atcccacgca
1561 atggtgtcga ccactgggac gcatacaagg gcgagagagt tgtcctatgg gacgactatg
1621 gaatgagcaa ccccatccat gatgccctta ggttgcagga gcttgctgac acttgccccc
1681 tcacgctaaa ttgtgacaga attgagaaca aaggaaaagt ctttgacagt gatgccataa
1741 ttatcaccac caatctggcc aacccagcac cgctggatta tgtcaacttt gaggcgtgct
1801 cgagacgcat tgatttcctc gtgtacgcag aagcccctga ggtggagaag gcaaagcgcg
1861 acttcccagg tcaacctgac atgtggaaga acgctttcag tcctgacttc tcacacataa
1921 aactgtcatt ggctccacag ggtggttttg acaagaacgg caacacccca catggaaaag
1981 gggtcatgaa gaccctcacc actggctccc tcatcgcccg agcatcaggg ttactccatg
2041 agaggctaga cgaatatgaa ctgcaaggcc cagccctcac cactttcaac tttgaccgca
2101 acaagatact tgcttttaga cagcttgctg ctgaaaacaa gtatgggctg atggacacaa
2161 tgagagttgg aaaacagctc aaggatgtca agaccatgcc agacctcaaa caagcactta
2221 agaacatcgc gataaagaag tgccagatag tgtacaatgg tggcacctac acacttgagg
2281 ctgatggcaa gggtagtgtg aaagttgaca aagtgcaaag tgccactgtg cagaccaaca
2341 atgaactagc cggtgcccta caccacctaa ggtgcgctag aatcagatac tatgttaagt
2401 gcgtccagga ggcactgtat tccatcatcc aaatcgctgg ggctgcattc gtcaccacgc
2461 gcatcgctaa gcgcatgaat atacagaacc tctggtccaa gccacaggtg gaagacacag
2521 aagagacggc caacaaagat ggttgcttaa agcccaaaga tgaagagttt gtcgtctcat
2581 ccgacgacat caaaactgag ggcaagaaag ggaagaacaa gtccggccgt ggtaagaagc
2641 acacagcctt ttcaagcaaa gggctcagtg atgaggagta cgatgagtac aagagaatca
2701 gagaagaaag gaatggcaag tactccatag aggagtacct tcaggacaga gacaggtact
2761 acgaggaggt ggccattgcc agggcaaccg aagaggactt ctgtgaagaa gaagaggcca
2821 aaatccggca gagaattttc agaccaacaa ggaaacaacg taaagaagag agggcctctc
2881 tcggcttggt cacaggctct gaaatcagga agagaaaccc agaagacttc aaacccaagg
2941 gaaagctgtg ggctgatgac gacagaagtg ttgactacaa tgaaaaactc aactttgagg
3001 ccccaccaag catctggtcg cggatagtca actttggttc aggctggggt ttctgggtct
3061 cccccagttt gtttataaca tcaacccatg tcatacccca aggtgcaaaa gagttcttcg
3121 gggtccctat caagcaaatc cagatacaca agtcaggtga attctgccgg ttgagattcc
3181 caaagccaat cagaactgat gtgacgggca tgattctaga agaaggcgcg cccgagggga
3241 ccgtggccac actgctcatc aagaggccaa ctggagagct catgcctctg gcagccagaa
3301 tggggaccca tgcaaccatg aaaattcagg ggcgcacagt tggagggcaa atgggtatgc
3361 tcctgacagg atccaacgcc aagagtatgg acctaggcac aacaccaggc gactgcggct
3421 gcccctacat ctacaagagg gggaatgact acgtggtcat aggggtccat acggccgctg
3481 cccgtggggg aaacactgtc atatgtgcca cccaggggag tgagggagaa gccacacttg
3541 aaggaggtga cagcaaaggg acatactgtg gcgcaccaat attgggccca gggagtgctc
3601 cgaagctcag taccaagact aagttttgga ggtcatccac aacaccactc ccgcctggca
3661 cctatgaacc agcctacctc ggtggtaaag accctagagt caaaggtggc ccttcattgc
3721 aacaagttat gagggaccag ctaaagccat tcacagaacc cagaggcaaa ccaccaagac
3781 caaatgtgtt ggaagctgcc aagaaaacca tcatcaatgt ccttgagcaa acaattgacc
3841 caccccaaaa atggtcattt gcgcaagctt gcgcatccct tgacaaaacc acctccagcg
3901 gccacccgca ccacatgcgg aaaaacgact gttggaatgg ggagtccttc acaggaaaat
3961 tggctgatca agcctccaag gccaacctaa tgtttgaaga gggaaagaac atgactccag
4021 tctacacagg tgcacttaaa gatgagttgg tgaaaaccga taaagtttat ggtaaggtca
4081 agaagaggct tctgtggggt tcagatctgg cgaccatgat acggtgtgcc cgagcttttg
4141 gaggccttat ggatgaactc aaggcacact gtgtcacact tcctgtcaga gttggtatga
4201 acatgaatga ggatggcccc atcatctttg agaagcactc cagatataga taccactatg
4261 atgctgatta ttcccggtgg gactcaacac aacaaaggga tgtgctagca gcagcactag
4321 aaatcatggt taaattctct ccagaaccac acctggccca gatagttgca gaagacctcc
4381 tttcccctag cgtgatggat gtaggtgact ttcaaatatc aataagtgag ggtctcccct
4441 ctggggtacc ttgtacctcc cagtggaatt ccatcgccca ctggctcctc actctgtgcg
4501 cactctctga agtcacggac ctgtcccctg atatcattca ggccaactcc ctgttctcct
4561 tctatggtga tgatgagatt gtaagcacag acataaagtt ggacccagag aagctgacag
4621 caaaactcaa ggagtacggg ctgaaaccaa cccgccccga caaaactgaa ggaccccttg
4681 ttatctctga agacctggat ggcctgacat tcctccggag aactgtgacc cgtgatccag
4741 ctggctggtt tggaaaattg gaacaaagtt caattctcag gcaaatgtac tggaccaagg
4801 gtcccaacca tgaagatcca tttgaaacaa tgataccaca ctcccaaaga cccatacaat
4861 tgatgtcctt gctgggcgag gctgcactcc acggcccggc attctatagc aaaattagca
4921 aattagtcat tgcagagttg aaggaaggtg gcatggactt ttacgtaccc agacaagagc
4981 caatgttcag atggatgaga ttctcagatc tgagcacgtg ggagggcgat cgcaatctgg
5041 ctcccagttt tgtgaatgaa gatggcgtcg agtgacgcca acccatctga tgggtccgca
5101 gccaacctcg tcccagaggt caacaatgag gttatggctt tggagcccgt tgttggtgcc
5161 gccattgcgg cacctgtagc gggccaacaa aatgtaattg acccctggat tagaaataat
5221 tttgtacaag cccctggtgg agagtttaca gtatccccta gaaacgctcc aggtgaaata
5281 ctatggagcg cgcccttggg ccctgaccta aatccctacc tatcccattt ggccagaatg
5341 tacaatggtt atgcaggtgg ttttgaagtg cgggtaattc tcgcggggaa tgcgttcacc
5401 gccgggaagg tcatatttgc agcagtccca ccaaattttc caactgaagg cttgagcccc
5461 agccaggtca ctatgttccc ccatatagta gtagatgtta ggcagttaga acctgtgctg
5521 attcccttac ccgatgttag gaataatttc tatcattata atcaatcaaa tgatcccacc
5581 attaagttga tagcaatgtt gtatacacca cttagggcta ataatgctgg ggatgatgtc
5641 ttcacagttt cttgccgagt tctcacgaga ccatcccccg attttgattt catatttcta
5701 gtgccaccca cagttgagtc aagaactaaa ccattctctg tcccagtttt aactgttgag
5761 gagatgacca attcaagatt ccccattcct ttggaaaagt tgttcacggg tcccagcagt
5821 gcctttgttg tccaaccaca aaacggtagg tgcacgactg atggcgtgct cctaggcacc
5881 acccaattgt ctcctgtcaa catctgcacc ttcagaggag atgtcaccca tatcacaggt
5941 agtcgtaact acacaatgaa tttggcttct caaaattgga gcaattatga cccaacagaa
6001 gaaatcccag cccctctagg aactccagat tttgttggga agattcaagg catgctcacc
6061 caaaccacaa ggacagatgg ctcaacacgc ggccacaaag ccacagtgta cactgggagc
6121 gccgactttg ctccaaaact gggcagagtt caatttgaaa cagacacaga ccatgatttt
6181 gaagctaacc aaaacacaaa gttcacccca attggtgtca tccaagatgg cagcaccacc
6241 caccgaaatg aaccccaaca gtgggtgctc ccaagttact caggcagaaa cacccccaat
6301 gtgcatctgg cccccgctgt agcccccact tttccgggtg agcaacttct cttcttcaga
6361 tctaccatgc ccggatgcag cgggtacccc aacatggatt tggactgtct gctcccccag
6421 gaatgggtgc agtacttcta ccaagaggca gccccagcac aatctgatgt ggctctgcta
6481 agatttgtga atccagacac aggtagggtt ttgtttgagt gtaagcttca taaatcaggc
6541 tatgttacag tggctcacac tggccaacat gatttggtta tcccccccaa tggttatttt
6601 aggtttgatt cctgggtcaa ccagttttac acgcttgccc ccatgggaaa tggaacgggg
6661 cgtagacgtg cactataatg gctggagctt tctttgctgg attggcatct gatgtccttg
6721 gctctgggct tggttccctt atcaatgctg gggctggggc catcaaccaa aaagttgagt
6781 ttgaaaataa caggaaattg caacaagcat ccttccaatt tagcagcaat ctacaacagg
6841 cttcctttca acatgacaaa gagatgctcc aagcacaaat tgaggccacc aaaaggctac
6901 aacaggaaat gatgaaagtt aagcaggcaa tgctcctaga gggtgggttc tctgagacag
6961 atgcggcccg cggggcaatc aacgccccca tgacaaaagc tttggactgg agcgggacaa
7021 ggtactgggc tcccgatgct aggactacaa catacaatgc aggccgcttt tccacccctc
7081 aaccatcagg ggcactgccg ggaagagtca atcttaggga tgctgcccct gctcggggtt
7141 cctccagtaa gccttctaat tcttccactg ctacttctgt gtactcaaat caaactactt
7201 caacgagact tggttctaca gctggttctg gtaccagtgt ctcgagcttc ccatcagctg
7261 caaggactag gagctgggtt gaggaccaaa gtaggaattt gtcacctttc atgagggggg
7321 cccacaacat atcgtttgtc accccaccat ctagcagatc ctctagccaa ggcacagtct
7381 caaccgtgcc taaagagatt ttggactcct ggactggcgc tttcaacacg cgcaggcagc
7441 cactcttcgc tcacattcgt aagcgagggg agtcacgggt gtaatgtgaa aagacaaaat
7501 tgattatctt tcttttcttt agtgtctttt aaaaaaaaaa aaaaaaa
//