Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC318747 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..1708
ORF2: 1689..3311
ORF3: 3311..3476
LOCUS LC318747 3476 bp RNA linear VRL 11-MAY-2018
DEFINITION Norovirus GII genes for nonstructural polyprotein, VP1, VP2,
partial and complete cds, strain:
Hu/GII/JP/2016/GII.P17_GII.17/OsakaFB311.
ACCESSION LC318747
VERSION LC318747.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Sakon,N., Sadamasu,K., Shinkai,T., Hamajima,Y., Yoshitomi,H.,
Matsushima,Y., Takada,R., Terasoma,F., Nakamura,A., Komano,J.,
Nagasawa,K., Shimizu,H., Katayama,K. and Kimura,H.
TITLE Foodborne Outbreaks Caused by Human Norovirus
GII.P17-GII.17-Contaminated Nori, Japan, 2017
JOURNAL Emerging Infect. Dis. 24 (5), 920-923 (2018)
PUBMED 29664371
REMARK DOI:10.3201/eid2405.171733
REFERENCE 2 (bases 1 to 3476)
AUTHORS Sakon,N., Takada,R., Tarasoma,F. and Hamajima,Y.
TITLE Direct Submission
JOURNAL Submitted (04-SEP-2017) Contact:Naomi Sakon Osaka Institute of
Public Health, Microbiology; 1-3-69, Nakamichi, Higashinari-ku,
Osaka, Osaka 537-0025, Japan
FEATURES Location/Qualifiers
source 1..3476
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2016/GII.P17_GII.17/OsakaFB311"
/isolation_source="stool from gastroenteritis patient"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Japan:Osaka"
/collection_date="2016-12"
/note="genotype: GII.P17_GII.17"
gene <1..1708
/gene="POL"
CDS <1..1708
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBC83325.1"
/translation="GSNAKSMDLGTTPGDCGCPYIYKRGNDLVVIGVHTAAARGGNTV
ICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPA
YLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKKTIINVLEQTIDPPQ
KWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASKANLMYEEGKHMQPV
YTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMDEFKANCITLPIRVG
MNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMVRFSAEPQLAQIVA
EDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTGLGPDIIQA
NSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLR
RTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQRPVQLMALLGESSLH
GPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWEGDRNLAPSFVNEDG
VE"
CDS 1689..3311
/codon_start=1
/product="VP1"
/protein_id="BBC83326.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
CDS 3311..>3476
/codon_start=1
/product="VP2"
/protein_id="BBC83327.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQA"
ORIGIN
1 aggctcaaat gctaaaagca tggatctagg cacaacgcca ggtgactgcg gatgtccata
61 catatacaaa aggggcaatg accttgtggt cattggggtg cacactgcag cagctcgtgg
121 aggcaacacg gtcatatgtg ccacacaggg aagtgaaggt gaagccactc ttgaaggagg
181 tgacaacaag ggtacctatt gtggagcccc cattttggga cctggcaatg caccaaaatt
241 gagcacaaag acaaaattct ggagatcctc taacgcaccg cttcccccag gtacttatga
301 accagcatac cttggtggga gagacccgcg cgtgaaggga ggcccatctc tgcaacaagt
361 tatgagagac caacttaaac ctttcacaga gcccagaggg aagccaccaa acccaaatgt
421 cttagagtca gcaaagaaga ctatcatcaa tgttctggaa caaaccattg acccccctca
481 aaagtggtca tatgcccaag cttgtgcatc cctcgacaag acaacctcca gtggataccc
541 gcaccacgtc cggaagaatg actattggag tggtgaatcc ttcacaggaa aacttgcaga
601 tcaggcttca aaagcaaacc tcatgtatga ggaaggcaag cacatgcaac cagtttacac
661 cgcagcactc aaagacgagc tcgtgaaaac tgacaaaatt tatggcaaaa tcaagaaaag
721 actcctgtgg ggttctgacc tctccacaat gattcgatgc gccagagcat ttggtggtct
781 catggatgaa ttcaaagcaa attgtattac actccctatc agagttggta tgaatatgaa
841 tgaagatggt cccataatat ttgagaaaca ctccaggtac aggtaccact atgatgctga
901 ttactcccgc tgggactcca cacaacagcg ggcagtgctg gaagcggcac ttgaaatcat
961 ggtgagattt tctgctgagc cacagctggc acaaatagtg gcagaggacc tgctgtcacc
1021 aagtgtggtt gatgtgggcg atttcaaaat cgctatcaat gaaggcctac catctggcgt
1081 gccttgcacc tcacaatgga attctattgc ccactggtta cttaccttgt gtgccctttc
1141 tgaagtgaca ggattaggtc ctgacatcat acaagctaac tccatgtact ctttctatgg
1201 tgatgatgag attgtgagca cagacataaa attggaccca gagaaattga ccgcaaagct
1261 caaagaatat ggccttaaac ccactcggcc cgacaaaact gaggggccgt tggtgattag
1321 tgaggacctg aatgggttga ctttcctccg ccgaacagtc acccgtgatc cagcaggttg
1381 gtttggaaag ttggaccaaa actccatcct caggcagttg tactggacaa gaggacccaa
1441 ccatgaagac cccagtgaga ccatgatacc acacgcacaa agacctgtgc agctcatggc
1501 actactagga gaatcctccc tacatggacc ctcattttac agcaaggtta gcaaattagt
1561 catatctgaa cttaaagagg gaggaatgga tttttatgtg cctagacaag agtcaatgtt
1621 cagatggatg aggttctcag atctaagcac atgggagggc gatcgcaatc tggctcccag
1681 ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc taatgatggt gctgctggtc
1741 tcgtaccaga gggcaacaac gagacccttc ccctagaacc agttgcgggc gcagctatag
1801 ccgcacccgt tactggccaa aataatataa ttgacccctg gattagaaca aattttgtgc
1861 aagcaccaaa tggagagttc acagtgtcac ccagaaactc tcctggagaa attttattaa
1921 atttagagtt gggccctgat ttgaaccctt atttggctca cttgtcaagg atgtacaatg
1981 ggtatgctgg tggagtggaa gttcaggttc tcctggcagg gaacgcgttc actgccggaa
2041 agatcctctt cgccgccgtc ccgccaaatt tcccagtgga attcttaagc ccagcccaga
2101 tcacaatgct cccacattta atagtagatg ttaggactct tgaaccaatt atgatcccac
2161 tccctgatgt taggaataca ttcttccatt atagtaacca gcctaacagc cgcatgagat
2221 tagtggctat gctctatacc ccacttagat ctaatggctc aggtgatgat gtctttactg
2281 tctcttgcag ggttttgact aggcctactc ctgattttga gttcacttat ttagtgccac
2341 cttctgttga atctaaaact aagccttttt ccttacctat tttaaccctt tctgagctca
2401 caaattcgag gtttccagtc cccatcgatt cgcttttcac cgcccagaat aatgtgttgc
2461 aggtgcagtg tcaaaatggc aggtgtacac ttgatggtga gttacaaggc acaacccagt
2521 tgctcccaac tggcatctgt gcattcagag gacgggtgac agcacaaatt aaccaacgtg
2581 acaggtggca catgcaactg caaaacctca atggtacaac atatgaccca actgatgatg
2641 tgccagcccc gctgggtaca cctgacttca agggcgtcgt gtttgggatg gtaagccaaa
2701 gaaatgtggg taatgatgcg cctggctcaa ccagagccca acaggcgtgg gtttcaacct
2761 atagccccca atttgtcccc aaattaggtt ctgtcaatct tagaattagt gataatgatg
2821 atttccaatt ccagccgaca aaattcacac cagtgggcgt caatgatgac gatgatggcc
2881 acccgttcag acaatgggaa ctaccaaact attcagggga gcttaccttg aatatgaatc
2941 ttgccccccc agttgctcca aattttcctg gtgaacaatt gttattcttc agatctttcg
3001 tgccatgctc aggaggttac aaccaaggta ttatagattg tcttattccc caagaatgga
3061 tccaacactt ctatcaggaa tcagcaccct cccagtcaga cgtggcccta atcaggtatg
3121 tcaaccccga tacgggacgt acactgtttg aagcaaaatt gcacagatct ggttacatca
3181 ctgtggctca ctctggagac tatcctcttg ttgttccggc taatggacac tttagatttg
3241 attcttgggt aaatcagttt tactcactcg ccccaatggg aactgggaat gggcgaagga
3301 gggctcagta atggctgggg ctttcattgc aggattggca ggcgacatgc tcacgtcatc
3361 tgtgggctcc cttgtgaacg caggggcaaa cgccatcaac caaaagatag actttgaaaa
3421 caacaaacaa ctccagtctg cttcctttca gcatgacaaa gagatgctcc aagcac
//