Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC209477 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6692
ORF3: 6692..7471
LOCUS LC209477 7515 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Ehime-6 RNA, nearly complete
genome.
ACCESSION LC209477
VERSION LC209477.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Ehime-6
ORGANISM Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Ehime-6
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Mizukoshi,F., Nagasawa,K., Doan,Y.H., Haga,K., Yoshizumi,S.,
Ueki,Y., Shinohara,M., Ishikawa,M., Sakon,N., Shigemoto,N.,
Okamoto-Nakagawa,R., Ochi,A., Murakami,K., Ryo,A., Suzuki,Y.,
Katayama,K. and Kimura,H.
TITLE Molecular Evolution of the RNA-Dependent RNA Polymerase and Capsid
Genes of Human Norovirus Genotype GII.2 in Japan during 2004-2015
JOURNAL Front Microbiol 8, 705 (2017)
PUBMED 28487679
REMARK DOI:10.3389/fmicb.2017.00705
Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7515)
AUTHORS Mizukoshi,F., Matsushima,Y., Ishikawa,M. and Kimura,H.
TITLE Direct Submission
JOURNAL Submitted (12-JAN-2017) Contact:Mariko Ishikawa Kawasaki City
Institute for Public Health, Division of Virology; Tonomachi
3-25-13, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan
FEATURES Location/Qualifiers
source 1..7515
/organism="Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Ehime-6"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2013/GII.P16_GII.2/Ehime-6"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934303"
/country="Japan: Ehime"
/collection_date="2013"
/note="genotype: GII.P16_GII.2"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB87049.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPDATNT
AFSVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKV
ELAPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPL
NILNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPEDIAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAKKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTMEELK
QAIKNVSIKRCQIIYHGSTFDLESDGKGEVTVEKVKNTTVQTNNELAGALHHLRSARI
RYYVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEVKEETPKLED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPSGVTEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMVRC
ARAFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSI
SHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKP
TRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPMQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5064..6692
/gene="VP1"
CDS 5064..6692
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87050.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTRPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6692..7471
/gene="VP2"
CDS 6692..7471
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87051.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT
GSSYGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg aaaaatcttc
61 gggtgaaggc ttatttacaa atatgtcttc caccctaaag aaagccctcg gggctcggcc
121 taaacagcct gccccgaggg acaactcaca aaaaccccca agaccaccaa cgcccgagtt
181 ggttaaaagg ataccccctc ccccacctaa tggcgaagaa gagccagtca ttaggtttga
241 ggtcaagagt ggaatttctg gcctgcccga tctcacgaca gtccctcaac cagatgcgac
301 caatacggca ttcagtgttc caccgttgag cttaagagaa aacagggagg ccaaggaacc
361 actaactggg gcaataatag agatgtggga tggagagata taccactatg gtttgtatgt
421 ggagaaaggc ctagtcttgg gtgtgcacaa accacccgca gctataagca tggcaaaagt
481 ggaattagca ccgctgtcgt tatactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgacact ctcaagaggc tcaacggaga ggcattcccc tacaccgcct ttgataataa
601 ctgttatgcc ttttgctgct gggttttaga ccttaatgac tcatggctca gcagaagaat
661 ggtgcagagg acgacaggct tcttcagacc ctaccaagag tggaacagaa agcccctacc
721 caccatggat gattccaaaa ttaagaaggt ggcaaacata ttcctatgtt cattatctac
781 attgttcacc aggcctataa aagacatcat aggaaaaatc aaaccactga atatcttaaa
841 cattctggca acgtgtgatt ggacgttcgc cggaattgta gagtctctaa tattatttgc
901 tgaactcttt ggagtttact ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 tggcgaatac gagttgcagg gaccagaaga catcgccgtt gagctcgtac ctgtagtgat
1021 gggggggatt ggtttggtgc taggattcac caaagagaaa attggcaaaa tgctgtcctc
1081 agcagcgtca acgctcaggg cttgcaaaga tcttggtgcc tatggtttag agatactcaa
1141 attagtcatg aaatggtttt tcccaaagaa agaagaagcc aatgaactag ccatggtgag
1201 agcaatagag gatgctgttc tggatcttga ggcgatagaa aacaatcaca tgacagccct
1261 gctgaaagat aaagacagcc ttgcaactta catgaaaaca ctggacctag aggaggagaa
1321 agccagaaaa ctatccacga aatccgcatc tcctgacata gttgggacaa tcaacgccct
1381 gctggctcga atagcggcgg ctagatcact agtccacagg gccaaggagg agctatctag
1441 cagaatcaga ccagttgtcg ttatgatatc tggcaaacca gggataggca agacccactt
1501 ggccagggag gtggcgaaaa aggtggcgtc cactctcaca ggagatcaaa gagttggact
1561 cataccgaga aacggtgtgg accattggga tgcatacaaa ggtgaaaggg tcgtgttgtg
1621 ggatgactat ggcatgagta accctattca tgatgcactg cgcatacagg aattggccga
1681 cacatgcccc ctcaccttga attgtgacag aattgaaaat aagggaaaag tttttgatag
1741 tgatgttata ataattacaa caaaccttgc caatccagct cctcttgatt atgtcaactt
1801 tgaggcctgt tccaggagaa ttgacttcct ggtgtacgcc gaagcgccag aagtggaaaa
1861 ggcaaaacgg gatttccctg gtcaaccaga tatgtggaag gacgccttca aagcggactt
1921 ctcgcacatc aagttgcaac ttgcgcctca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agacccttac caccggttct ctgatcgccc gtgcgtcagg
2041 tttgctacat gagaggatgg atgaatttga acttcagggc cccacaatca ccactttcaa
2101 ctttgaccgg aacagagtca ccgccttcag acaactggct gctgagaaca aatatgggct
2161 ggtggacacc atgaggattg gcaatcaatt gaaaggggtg aaaaccatgg aagaactcaa
2221 gcaagctatc aagaatgtgt ccatcaagag atgccagatt atctaccatg gatccacgtt
2281 tgaccttgag tctgatggca agggtgaagt tacagtggaa aaggtcaaaa acaccactgt
2341 tcagaccaac aacgaattgg ccggagccct gcaccacctc agaagtgctc gaatcaggta
2401 ttatgtcaaa tgtgtgcaag aggcaatcta ttccatccta caaattgccg gcgccgcgtt
2461 cgtcaccaca cgcattgcac gccgcatgaa tatacaagag ctttggtcaa agccaccatt
2521 agatcaaagc gagccagagg ttaaggagga gacccccaag ttagaggatg atgaattcat
2581 tatctcctcc aaggacatta aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ctagcaaggg cttgagcgat gaggagtatg acgagtacaa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacaggga
2761 caggtactat gaagaactcg ccatcgccaa ggccacggaa gaagattttt gtgaggagga
2821 agaaataaaa atccgccagc ggatctttcg tcccactaga aaacaaagga aggaagaaag
2881 ggccacgtta gggctagtga ctggttcgga aatcagaaaa agaaaccctg atgacttcaa
2941 acctaaaggg aaattgtggg ccgacgacaa cagaagtgtt gactacaatg aaaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gatcgtaagc tttggttcag gttggggctt
3061 ctgggtgtca ccaagcctgt ttataacatc aactcatgtg atcccttcgg gtgtaacaga
3121 ggcatttgga gtccctatca aacagattca agtccacaaa tcgggcgagt tttgtcggtt
3181 cagattccca aaaccaatta gaccagatgt aacaggaatg atcctggaag aaggtgcgcc
3241 agagggcacc gtagcaaccg tgctcatcaa gcgccccact ggagaactta tgcccctcgc
3301 agctagaatg ggaacacacg caaccatgaa aattcagggc cgcatggttg gtgggcagat
3361 gggcatgttg ctcactggtt caaatgctaa gggtatggat ctggggacaa ctcccggtga
3421 ctgtggctgc ccgtatattt ataaaagggg caatgactac atagtcattg gagtgcacac
3481 agcagcagcc cgaggtggta acactgtcat ctgtgccaca cagggaagtg agggtgaagc
3541 gaccctcgag ggtggagacg acaaaggaac atactgtggg gcacccatcc tgggccctgg
3601 aggggcgcca aagttaagca caaaaaccaa attttggaga tcatcaaaca cgccccttcc
3661 accagggaca tatgagcctg cctaccttgg cggtcgtgat ccgcgtgtaa ggggtgggcc
3721 ttccctacaa caagtcatga gagatcagct aaagcccttc accgagccca ggggtaaacc
3781 cccgagacct agtgtgctgg aggcagccaa acagaccatc atcaacgttc tcgagcaaac
3841 tttggatcct ccacaaaaat ggacgtacgc acaggcgtgc gcttcacttg ataaaaccac
3901 ctctagtggg cacccccatc acgctcgaaa gaatgaattc tggaacggtg agacctttac
3961 cggtaagctg gcagaccaag catcaaaagc aaacttaatg tttgaggaag ggaaacatat
4021 gacaccagtg tacacagcag cccttaagga tgagttggtt aaaaccgaca aaatctatgg
4081 gaagatcaag aaacgcctgc tttggggctc tgatttatcc accatggtcc gatgtgctag
4141 ggcctttggt ggtctcatgg acgagatgaa ggcgcactgc atatcgctcc caatccgagt
4201 tggcatgaat atgaatgagg atggcccaat aatatttgag aagcactcca gatataaata
4261 tcactatgat gcagattact ctcgctggga ctcaacacaa cagagggctg ttctagcagc
4321 ggccttggaa ataatggtca gattctctgc agaaccgcaa ctggcccaaa cagttgctga
4381 ggatctgctg gcccccagtg tagtagatgt cggagacttc aaaatttcaa taaatgaggg
4441 actcccttct ggtgtgccat gcacttccca gtggaactcc atctcacact ggttactaac
4501 cctctgtgct ttgtctgaag tcaccaatct gtctcctgac atcgtgcagg caaactctat
4561 gttctcattt tacggtgatg acgagatcgt cagcaccgat ataaaattgg accctgaaaa
4621 gttaaccacc aaattgaggg agtatggtct aaaaccaact cgcccagaca aaaccgaggg
4681 gcccttgatc atcagcgagg atttggacgg tctcaccttc ctccggagga cggtttctcg
4741 tgacccagct ggttggtttg gaaagttaga tcaaagctca atactaaggc aaatgtattg
4801 gaccagagga ccaaaccatg aagaccccaa tgagacaatg ataccccact ctcaaagacc
4861 catgcaactc atggcactgc ttggtgaggc ctcccttcac ggaccctctt tctacagcaa
4921 gattagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag
4981 acaggaaccc atgttcagat ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccagttttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctactg
5101 atggtgcagc cggcctcgtg ccagaaagta ataatgaggt catggctctt gaacccgtgg
5161 ctggtgccgc cttggcagcc ccagtcaccg gtcaaacaaa tataatagac ccttggatta
5221 gagcaaattt tgtccaggcc cccaatggtg aatttacagt ctctccccgt aactcccctg
5281 gtgaagtgct actgaatcta gagttgggtc cagaattaaa tccttatctg gcacatttag
5341 caagaatgta caatgggtat gccggtggga tggaggtgca ggtcatgttg gctgggaatg
5401 cgttcacagc cggcaagtta gtcttcgccg ctgtgccacc ccactttccg gtcgaaaacc
5461 ttagcccaca gcaaattacc atgttccctc atgtgattat agatgtcagg actttggaac
5521 ctgttttatt accactccct gatgttagga ataacttctt ccattacaat cagaaagatg
5581 atcccaagat gagaattgtg gctatgcttt atacccccct taggtctaat ggttcaggcg
5641 atgatgtgtt tacagtctcc tgcagggtgt tgactagacc ctcccctgat tttgatttca
5701 catatctggt gccaccaaca gtggaatcta aaacaagacc attcactctc ccaatcctca
5761 cgcttgggga actttccaat tctagattcc cagtgtccat agaccagatg tacaccagcc
5821 ccaatgaagt catatcagtg cagtgtcaaa atggcaggtg cacactggat ggggaactcc
5881 aaggaacaac acaactccaa gtcagtggca tttgtgcttt caagggagaa gtgactgccc
5941 acttgcatga caatgatcac ctgtataatg tcaccatcac aaacttgaat gggtcccctt
6001 ttgacccctc cgaggacatc cccgcccctc tgggcgtacc tgacttccag ggaagggtct
6061 ttggtgtcat ctcccaaaga gacaaacata acacccctgg acataatgaa ccagcaaaca
6121 gggcacacga tgccgtggtc cctacttata cagcacagta taccccaaaa ttgggtcaga
6181 tccaaattgg cacatggcag actgacgatc tcacagtcaa ccaaccagtc aaattcaccc
6241 cagttggact taatgacact gaccatttta accaatgggt ggtccccagg tatgctggtg
6301 ccctaaacct taacacaaac cttgcccctt ctgttgctcc agtatttcca ggggagcgtc
6361 tgctcttttt cagatcatac atccccctca agggcggtta tggaactcca gccatcgatt
6421 gcctactacc acaagagtgg gtgcaacatt tctatcagga agcagcccct tcgatgagtg
6481 aggtggccct tgtcagatac atcaacccgg atactggtcg ggcactgttt gaggccaaac
6541 tccacagagc tggtttcatg acagtctcaa gcaacaccag tgccccggtg gttgtgcctg
6601 ccaacggata tttcaggttt gattcttggg tgaaccaatt ctattctctc gcccccatgg
6661 gaactggaaa tgggcgcaga aggatccaat aatggctgga gcttttgtag ctggtcttgc
6721 aggggacgtg ctcagcaatg ggctcagttc attaattaat gcaggtgcta atgcaataaa
6781 tcagagggca gaatttgatt tcaatcagag attacagcaa aattctttca atcatgataa
6841 ggagatgttg caggctcagg tccaggcaac taagcagctg caggcagata tgatggctat
6901 aaaacagggg gtcctggccg ctggcggctt ttcccctgct gatgcagcca gaggtgctgt
6961 gaacgcgccc atgacacagg cgctggattg gaacggcaca aggtattggg caccaggctc
7021 catgaggact acagcctact ctgggagatt cacatcaacc gccccagtga ggcaggctga
7081 ttttcagcac acccaaaacc ggccttcaag tggttcttct gtgtcctcct ttgctactca
7141 gtcttcaagg ccgaccctga ctacaaccac tgggtcctca tatggcacag cctcatcaaa
7201 ttcgactcgc agtacaaatc tctcccaatc aacggtctcc agggctacat ctaggactgg
7261 tgaatgggtt agagaccaaa atagaaattt ggaaccttac atgcatggtg ccttacagac
7321 ggcctttgtc accccacctt ccagcagggc gtctgatggg acggtctcaa ccgttccaaa
7381 aggtgttttg gactcctgga cacctgcgtt taacacccgc aggcagccgc ttttcgcaca
7441 cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaaaatttat ttaaaatgga
7501 ttgattttac ctttt
//