Typing tool
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Typing tool
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Complete norovirus genomes
| LC209468 | GII.2 | |
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| GII.P16 |
ORF1: 1..3790
ORF2: 3771..5399
ORF3: 5399..6178
LOCUS LC209468 6222 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Yamaguchi-4 RNA, nearly
complete genome.
ACCESSION LC209468
VERSION LC209468.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Yamaguchi-4
ORGANISM Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Yamaguchi-4
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 6222)
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..6222
/organism="Norovirus
Hu/GII/JP/2011/GII.P16_GII.2/Yamaguchi-4"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2011/GII.P16_GII.2/Yamaguchi-4"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934294"
/country="Japan: Yamaguchi"
/collection_date="2011"
/note="genotype: GII.P16_GII.2"
gene <1..3790
/gene="POL"
CDS <1..3790
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB87022.1"
/translation="KTLDMEEEKARRLSTKSASPDIVGTINALLARIAAARSLVHRAK
EELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVGLIPRNGVDHWDAYK
GERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKVFDSEVIIITTNLAN
PAPLDYVNFEAYSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFKSDFSHIKLQLAP
QGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQGPTVTTFNFDRNRIT
AFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNVIIKRCRIIYGGSTYDLESD
GKGKVLVEKVKNTSIQTNNELAGALHHLKHARIRYYVRCVQEAVYSIIQIAGAAFVTT
RIARRMNIQELWSKPPLDQNESEAKEEAPKSEDDEFIISSKDIKEEGKKGKNKTGRGR
KHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEE
EEVKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNE
KLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITEAFGVPIKQIQVHKSG
EFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPLAARMGTHATMKIQG
RMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIVIGVHTAAARGGNTVIC
ATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAYL
GGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTIINVLEQTLDPPQKW
TYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQASKANLMFEEGKHMTPVYT
AALKDELVKTDKVYGKIKKRLLWGSDLSTMIRCARSFGGLMDEMKAHCISLPVRVGMN
MNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQLAQIVAED
LLAPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSPDIVQANS
MFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRT
VTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLGEASLHGP
SFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE
"
gene 3771..5399
/gene="VP1"
CDS 3771..5399
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87023.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 5399..6178
/gene="VP2"
CDS 5399..6178
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87024.1"
/translation="MAGAFMAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSIAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGAASSNSTRSTGLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA"
ORIGIN
1 gaaaacacta gacatggaag aggagaaagc cagaagattg tccacaaagt ctgcatcccc
61 tgacatagtt gggacgatca acgccctgct ggctcgaata gcagcggcta ggtcattagt
121 ccacagggcc aaggaggagt tatctagcag gataagacca gtagttgtta tgatatctgg
181 caaaccaggg ataggtaaaa ctcatttggc cagggaggtg gcaagaaagg tggcatccac
241 tctcacaggg gatcaaagag tcgggctcat accgagaaac ggtgtggacc actgggatgc
301 atacaaaggt gagagagtcg tgctgtggga cgactatggc atgagcaacc ccattcatga
361 tgctttgcgc atacaagaat tggctgatac gtgtcccctt accttaaatt gcgacagaat
421 tgaaaataag ggaaaagtct ttgacagtga agtcataata attacaacaa accttgccaa
481 tccagctcca cttgattatg tcaactttga ggcctattcc aggagaattg acttcctggt
541 gtacgccgag gcaccagaag tagaaaaggc aaaacgagac tttcctggtc aaccagatat
601 gtggaaggac gccttcaagt cggacttttc acatatcaag ttgcaacttg cacctcaggg
661 cggctttgac aagaatggta acaccccaca tgggaaagga gtgatgaaga ccctcaccac
721 cggttccctg attgcccgtg catcaggctt actgcatgag aggatggatg aatttgaact
781 ccaaggcccc acagttacca ccttcaattt cgaccggaac agaatcaccg cattcagaca
841 attggccgca gaaaacaagt atgggttggt ggacaccatg agagttggca accaattaaa
901 aggggtgaaa accatggaag aactcaaaca agcaatcaag aatgtgatca tcaagaggtg
961 ccggatcatc tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt
1021 ggtggaaaag gtcaagaaca cctctataca gaccaacaac gagttggctg gagccctgca
1081 tcacctcaaa catgcccgaa tcaggtatta tgtcagatgt gtgcaagaag cagtttactc
1141 tatcatacaa attgccggcg ctgcgtttgt caccacacgc attgcacgcc gcatgaacat
1201 acaagagctt tggtcgaagc caccattaga ccaaaatgaa tcagaggcta aggaagaggc
1261 ccccaagtca gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa
1321 gaagggcaaa aacaaaactg gccgtggcag gaaacacact gcattctcta gcaagggctt
1381 gagcgatgag gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc
1441 tatagaggag tatcttcaag acagagacag gtactatgag gaactcgcca tcgccaaggc
1501 cacggaagaa gacttctgtg aggaggagga ggtcaaaatc cgtcagagga tcttccgtcc
1561 caccaggaaa caaaggaagg aagagagggc tacactagga ctagtaactg gttcagaaat
1621 cagaaaaaga aaccctgatg acttcaaacc taaagggaaa ctgtgggccg atgacaacag
1681 aagtgttgac tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat
1741 tgtgagtttt ggttctggtt ggggcttctg ggtatcacca agcctgttca taacatcaac
1801 tcatgtaatc cctgcaggca taacagaggc atttggagtc cccatcaaac aaatccaggt
1861 ccacaaatca ggtgaatttt gccggttcag attcccaaaa ccaattagac cagatgtgac
1921 aggaatgata ttggaagaag gtgcgcctga gggcaccgtg gcaaccgtac tcatcaaacg
1981 ccctaccgga gagctcatgc cccttgcagc cagaatgggg acacacgcaa ccatgaagat
2041 tcaaggccgc atggttggcg gacagatggg tatgttgctc actggttcaa atgctaaagg
2101 aatggatttg ggaacaactc ctggtgattg tggctgtccc tacatctaca aaaggggcaa
2161 tgactatata gtcattgggg tgcacacagc agcagcccgt ggtggaaaca ccgtcatctg
2221 tgccacacag ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata
2281 ctgtggagca cccattctag gccccggggg ggcaccaaaa ttgagcacca aaaccaaatt
2341 ttggaggtca tcgaacacgc ctcttccacc agggacatat gagcctgcct acctcggtgg
2401 ccgtgacccg cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa
2461 accattcact gaacccaggg gtaaacctcc aagaccaagt gtgttggagg cagccaaaca
2521 aaccatcatc aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca
2581 ggcgtgtgct tcacttgaca aaaccacctc cagcgggcat ccccaccacg tccgaaagaa
2641 tgaattctgg aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa
2701 tctgatgttt gaggaaggga aacacatgac accagtgtat acagcagccc tcaaggacga
2761 gctggtcaag actgacaaag tctatggaaa gatcaagaag agactgctct ggggctctga
2821 cttgtccacc atgatccggt gcgccaggtc ctttggtggg cttatggatg agatgaaggc
2881 acactgcata tcactcccag tccgagttgg catgaacatg aatgaagatg gtccaataat
2941 atttgagaag cactccagat acaagtacca ctatgatgca gactactccc gctgggattc
3001 aacacaacag agggcagtac tagcagcagc cttggaaatc atggtcaggt tctctgcaga
3061 gccacaattg gcacagatag tcgctgagga tctgctggcc cccagtgtgg tagatgtagg
3121 agactttaaa atttcaataa atgaggggct cccctctggt gtaccatgca cttctcaatg
3181 gaattccatc gcacactggc tgctaaccct ctgtgccttg tctgaagtca ccaaactgtc
3241 ccctgacatt gtacaggcaa attccatgtt ctcattttac ggtgatgacg agattgtcag
3301 caccgatata aaattggacc ctgaaaagtt aaccaccaaa ttgaaggagt atggcctgaa
3361 accaactcgc ccagacaaaa ccgagggacc cctgatcatc agtgaggatt tgaatggact
3421 cactttcctc cggaggacgg tgactcgtga cccagctggc tggtttggaa aattggacca
3481 aagctcaata ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga
3541 gacaatgata ccccactctc aaagacccat acagctcatg gcactgcttg gtgaggcctc
3601 ccttcacgga ccctctttct acagcaaaat cagtaaattg gtcataaccg aactcaaaga
3661 aggtgggatg gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc
3721 tgacttgagc acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg
3781 cgtcgaatga cgccgctcca tctactgatg gtgcagccgg cctcgtgcca gaaagtaaca
3841 atgaggtcat ggctcttgaa cccgtggctg gtgccgcctt ggcagcaccg gtcaccggtc
3901 aaacaaatat tatagaccct tggattagag caaattttgt ccaggccccc aatggcgaat
3961 ttacagtctc tccccgtaat gcccctggtg aagtgctatt aagtctagaa ttgggtccag
4021 aattaaatcc ttatctggca catttagcaa gaatgtacaa cgggtatgcc ggtgggatgg
4081 aggtgcaggt catgttggct gggaatgcgt tcacagccgg caagttggtc ttcgccgctg
4141 tgccacctca cttcccggtt gaaaacctta gcccacagca aattaccatg ttccctcatg
4201 tgattataga tgtaaggacc ttggaacctg ttttattacc actccctgat gttaggaata
4261 atttcttcca ttataatcag aaagatgatc ccaaaatgag aattgtggct atgctttata
4321 ccccccttag atctaatggt tcaggtgatg atgtgttcac agtttcctgc agggtgttga
4381 ccagaccctc ccctgatttc gatttcacat atctggtgcc accaacagtg gaatctaaaa
4441 caaaaccatt caccctccca atcctcacac ttggggaact ttccaattct aggttcccag
4501 tgtccataga ccagatgtac accagcccta atgaagttat atcagtgcag tgtcaaaatg
4561 gtaggtgcac attggacggg gaacttcaag ggacaacaca actccaagtc agtggcattt
4621 gtgctttcaa gggggaagtg accgcccatt tgcatgacaa tgatcaccta tacaatgtca
4681 ccatcacaaa cttgaatggg tccccttttg acccctccga ggacgttcct gcccctctgg
4741 gcgtgcctga tttccaggga agggtctttg gtattatctc ccaaagagac aaacataata
4801 gccctgggca taatgaacca gcaaacaggg gacacgacgc tgtggtccct acttacacag
4861 cacagtacac tccaaaattg ggtcagattc aaattggcac atggcagacc gatgatctta
4921 cagtcaacca accagtcaaa ttcaccccag ttggactcaa tgacactgaa cattttaatc
4981 aatgggtggt ccccagatac gctggtgccc taaacctcaa cacaaacctt gccccttctg
5041 ttgctccggt atttccaggg gagcgcctgc ttttctttag atcatacgtt cccctcaagg
5101 gtggttatgg gaatccagcc attgattgtc tattaccaca agagtgggtg caacacttct
5161 atcaggaagc tgccccatca atgagtgagg tggcccttgt cagatacatc aacccggata
5221 ctggtcgggc actgtttgag gccaagctcc acagagctgg tttcatgaca gtctcgagca
5281 acaccagtgc cccggtggtt gtgcctgcca atgggtactt cagatttgac tcttgggtta
5341 atcaattcta ttctctcgcc cccatgggaa ctggaaatgg gcgtagaagg gttcaataat
5401 ggctggagct tttatggctg gtcttgcagg ggacgtgctc agcaatgggc tcagttcatt
5461 aattaatgca ggtgctaatg caataaatca gagggcagaa tttgatttta atcagaaatt
5521 acagcaaaat tctttcaatc atgataagga gatgttgcag gcccagattc aggcaactaa
5581 gcagctgcag gcagacatga tggctataaa acagggggtc ctgaccgctg gcggcttttc
5641 ccctgctgat gcagccagag gtgctgtgaa tgcgcccatg acacaagcgc tggattggaa
5701 cggcacaagg tattgggcac caggctctat gaggaccaca tcttattctg gaaagttcac
5761 atcaatcgcc ccagtgaggc aggccgactt ccagcacacc caaagccggc cttcgagtgg
5821 ctcttctgtg tcctcctttg ccactcagtc ttcaaggcca actctgacca caaccactgg
5881 gtcctcacat ggcgcagcct catcaaattc aactcgcagc acaggcctct cccaatcaac
5941 ggtctctaga gctacatcta ggactagtga gtgggttaga gatcaaaata gaaatttgga
6001 accctacatg catggtgcct tacagacggc ctttgtcacc ccaccttcca gcagggcgtc
6061 tgacgggaca gtctcaaccg tcccaaaagg tgttttggac tcctggacac ctgcgttcaa
6121 cacccgcagg cagccgctct ttgcacacct ccgtaagagg ggggagtcac atgcctagtg
6181 aaaaggtgaa aatttgttta gaataaattg attctacctt tt
//