Typing tool
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Typing tool
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Complete norovirus genomes
| LC369258 | GII.17 | |
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| GII.P17 |
ORF1: 1..5056
ORF2: 5037..6659
ORF3: 6659..7438
LOCUS LC369258 7484 bp RNA linear VRL 28-JUN-2023
DEFINITION Norovirus GII NoV/Hu/JP/2015/GII.P17-GII.17/SA-169 genomic RNA,
nearly complete genome.
ACCESSION LC369258
VERSION LC369258.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Matsushima,Y., Mizukoshi,F., Sakon,N., Doan,Y.H., Ueki,Y.,
Ogawa,Y., Motoya,T., Tsukagoshi,H., Nakamura,N., Shigemoto,N.,
Yoshitomi,H., Okamoto-Nakagawa,R., Suzuki,R., Tsutsui,R.,
Terasoma,F., Takahashi,T., Sadamasu,K., Shimizu,H., Okabe,N.,
Nagasawa,K., Aso,J., Ishii,H., Kuroda,M., Ryo,A., Katayama,K. and
Kimura,H.
TITLE Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase
Regions of Human Norovirus GII.P17-GII.17 in 2013-2017
JOURNAL Front Microbiol 10, 2189 (2019)
PUBMED 31611853
REMARK DOI:10.3389/fmicb.2019.02189
Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7484)
AUTHORS Doan,Y.H., Katayama,K. and Kimura,H.
TITLE Direct Submission
JOURNAL Submitted (02-FEB-2018) Contact:Yen Hai Doan National Institute of
Infectious Diseases; 4-7-1 Gakuen, Musashimurayama, Tokyo 208-0011,
Japan
FEATURES Location/Qualifiers
source 1..7484
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="NoV/Hu/JP/2015/GII.P17-GII.17/SA-169"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Japan:Saitama"
/collection_date="2015"
/note="genotype: GII.P17-GII.17"
gene <1..5056
/gene="POL"
CDS <1..5056
/gene="POL"
/note="start codon is not identified"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBD04746.1"
/translation="NDKEKSSSDSLFANMSVTFKKALGARSKQPPPGETKQIQKPPRP
PTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYSVPPLSQRE
VGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISFAKIEITPLSLYWRV
VYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFK
PYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPLNILNILATCDW
TFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPVVMGGIGL
VLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANELAMVRAIE
DAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALL
ARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTLSGDQRIG
LVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDRIENKGKV
FDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQPDMWKDH
FRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERMDEFELQG
SDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDELKQAIKNISIKKC
QIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYYVKCFQEAI
YSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPRDEDDLTIDSRD
IKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYY
EELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKP
KGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTHVIPKGIT
EAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIKRTTGELM
PLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDLVV
IGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWR
SSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKE
TIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASK
ANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMD
EFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIM
VRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCA
LSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGP
LVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQR
PVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWE
GDRNLAPSFVNEDGVE"
gene 5037..6659
/gene="VP1"
CDS 5037..6659
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBD04747.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6659..7438
/gene="VP2"
CDS 6659..7438
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBD04748.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 caacgacaag gaaaaatctt caagtgacag cttgtttgct aacatgtctg tcacttttaa
61 gaaagccctc ggggcgcggt ctaaacaacc gcccccggga gaaacaaaac aaatacaaaa
121 accaccaagg ccaccgacac cggaattggt gaagagaata cctccacccc cacccaatgg
181 cgaggatgaa ccagggatag tgtacaaggt gggagagggt gtgtctgggc tgcccgacct
241 aacaactgtg gtacaacctg acgcacaaaa cacagcttat agtgttcccc cacttagcca
301 gagagaagtc ggcgaagcta aagaaccgct gcctggctcc attctggaaa tgtgggatgg
361 tgagatctac cactatgggc tgtatgttga gcgggggcat gtgctcggag tacacaaacc
421 acctgctgca ataagctttg ccaaaattga aataacaccg ctgtctctct actggagagt
481 ggtctacact ccccagtatt tgatagatcc aggaactctt aagaacttga gtggagagac
541 tttcccatac acggcctttg acaacaactg ttatgccttc tgttgttggg tcctagacct
601 caacgactcc tggcttagca ggagaatgat ccaaagaaca actggattct tcaaacctta
661 tcaggattgg aacagaaaac ccttaccaac catggatgaa ccgaaaatca agaaggccgc
721 gaatgctgtc ctatgcgctc tctcctcact cttcactaga cccattaagg acatcattgg
781 aaagcttaga ccactgaaca ttcttaatat actggcaacc tgcgattgga cttttgcagg
841 catagtggaa tccttgatcc ttcttgctga actctttggg gtgttctgga cacccccaga
901 tgtgtctgcg atgattgctc ccttactcgg tgactacgag atgcaaggcc ccgaagacct
961 ggccgtggaa cttgtgcccg tggtgatggg aggaataggt ttggtgttag gattcaccaa
1021 agaaaagatc ggcaagatgc tttcatcagc tgcgaccaca cttagggcct gcaaggatct
1081 aggatcttat ggattggaga tactcaaatt ggtcatgaag tggttcttcc ccaagaagga
1141 ggaggctaac gaactagcca tggtgagggc cattgaggat gcagtcctgg atttggaggc
1201 aatagaaaac aatcacatga ccacccttct caaggataaa gacagcctgg ccacatacat
1261 gaggactctt gacttggaag aagagaaagc aaggaaactg tcaaccaaat cggcgtcacc
1321 tgacatcgtg ggtacaataa acgcattatt ggctaggata gcagccgcca ggtcactggt
1381 ccacaaggct aaggaggagc tctcgagcag acagagacct gttgttgtaa tgatatcagg
1441 tagaccaggt ataggaaaga cccatctggc cagagagcta gccaagaaag ttgcgtcaac
1501 actgtcaggc gaccaaagga ttggactggt acctagaaat ggcgtcgacc attgggacgc
1561 ctacaaggga gaaagggtgg tcctgtggga tgattatggt atgagcaacc ctatacagga
1621 cgcactgagg ctccaagaat tggctgacac ctgtcctctg accctaaatt gtgataggat
1681 tgaaaacaaa ggaaaagtgt tcgacagtga tgccataatt ataacaacca accttgcaaa
1741 cccagcacca ctagactatg tcaactttga ggcctgctct agacgcatag acttcttggt
1801 gtatgcagac gcacctgaca ttgagaaggc taagcgtgac ttccctggcc aaccagatat
1861 gtggaaagac catttcagac cagacttctc acacattaaa cttcagctgg caccacaggg
1921 aggttttgac aaaaatggca acaccccaca tggcaaaggt gtggtgaagt ccctgacgat
1981 tggttctctg atcgccaggg cctccggctt gctccacgag agaatggatg aattcgagct
2041 ccaaggctct gacctgccaa ccttcaattt tgaccgcaac aaagtcgccg ccttcagaca
2101 attagcagct gaaaacaaat atggtcttat ggacacattg agggtcggca accaactgaa
2161 aagtgttaag accctggatg agctgaagca ggccataaag aacatcagta tcaagaagtg
2221 tcagatagtg tataatggat gcacctatac catggaatct gatgggaggg gcaaggttgt
2281 ggttgaaaag gtacaaaacg caacagttca aaccaacaat gaacttgtag gggcgctcca
2341 ccacctgaga tctgcaagga taagatacta tgttaaatgt ttccaagaag ccatttactc
2401 tctactccaa attgctggtg cagccttcgt cacctcacgc atcgtgaggc gcatgaacat
2461 atcaaacctc tggtcgaagc cacccatcga ggagggtgat gagcctgaag acagaggagg
2521 atgccccaag cccagggatg aagatgacct cactattgac tctagagaca ttaaagtgga
2581 agggaagaag ggcaagaaca agtctggccg gggcaagaaa cacacagcct tctcttccaa
2641 gggcctcagt gatgaagagt acgatgagta caagagaatc agagaggaga ggaatggcaa
2701 atactcaata gaggaatacc tccaagatag ggacagatac tatgaagagc ttgccattgc
2761 taaggccact gaggaggact tctgtgagga ggaggaggtc aaaatccgcc agagaatctt
2821 ccgacccacc aggaagcagc ggaaagagga aagggccacg cttgggcttg tcacaggatc
2881 ggaaatcaga aagaggaatc cagatgactt taaaccaaaa ggaaaattgt gggctgatga
2941 caacaggagc gtggattaca atgagaggat agattttgag gctcccccga gtgtttggtc
3001 taggatagtc aactttggca caggctgggg attctgggtt tctccaagtc tctttataac
3061 ttcaacacac gtcataccaa aaggaatcac tgaggccttt ggagtgccca taaaccaaat
3121 ccaaattcac aaatctggag aattttgccg cttgcggttt ccaaagccaa ttagaccaga
3181 cgtgagtggg atgatcttgg aagagggcgc ccctgaaggc actgttgtgt ctattctcat
3241 caaaaggaca acaggggagc tgatgcctct tgcagtcaga atggggactc atgccacaat
3301 gaaaatccaa ggtagaacgg tgggtggtca gatgggtatg cttctcactg gctcaaatgc
3361 taaaagcatg gatctaggca caacgccagg tgactgcgga tgtccataca tatacaaaag
3421 gggcaatgac cttgtggtca ttggggtgca cactgcagca gctcgtggag gcaacacggt
3481 catatgtgcc acacagggaa gtgaaggtga agccactctt gaaggaggtg acaacaaggg
3541 tacctattgt ggagccccca ttttgggacc tggcaatgca ccaaaattga gcacaaagac
3601 aaaattctgg agatcctcta acgcaccgct tcccccaggt acttatgaac cagcatacct
3661 tggtgggaga gacccgcgcg tgaagggagg cccatctctg caacaagtta tgagagacca
3721 acttaaacct tttacagagc ccagagggaa gccaccaaac ccaaatgtct tagagtcagc
3781 aaaggagact atcatcaatg ttctggaaca aaccattgac ccccctcaaa agtggtcata
3841 tgcccaagct tgtgcatccc tcgacaagac aacctccagt ggatacccgc accacgtccg
3901 gaagaatgac tattggagtg gtgaatcctt cacaggaaaa cttgcagatc aggcttcaaa
3961 agcaaatctc atgtatgagg aaggcaagca catgcaacca gtttacaccg cagcactcaa
4021 agacgagctc gtgaaaactg acaaaattta tggcaaaatc aagaaaagac tcctgtgggg
4081 ttctgacctc tccacaatga ttcgatgcgc cagagcattt ggtggtctca tggatgaatt
4141 caaagcaaat tgtattacac tccctatcag agttggtatg aatatgaatg aagatggtcc
4201 cataatattt gagaaacact ccaggtacag gtaccactat gatgctgatt actcccgctg
4261 ggactccaca caacagcggg cagtgctgga agcggcactt gaaatcatgg tgagattttc
4321 tgctgagcca cagctggcac aaatagtggc agaggacctg ctgtcaccaa gtgtggttga
4381 tgtgggcgat ttcaaaatcg ctatcaatga aggcctacca tctggcgtgc cttgcacctc
4441 acaatggaat tctattgccc actggttact taccttgtgt gccctttctg aagtgacagg
4501 attaggtcct gacatcatac aagctaactc catgtactct ttctatggtg atgatgagat
4561 tgtgagcaca gacataaaat tggacccaga gaaattgacc gcaaagctca aagaatatgg
4621 ccttaaaccc actcggcccg acaaaactga ggggccgttg gtgattagtg aggacctgaa
4681 tgggttgact ttcctccgcc gaacagtcac ccgtgatcca gcaggttggt ttggaaagtt
4741 ggaccaaaac tccatcctca ggcagttgta ctggacaaga ggacccaacc atgaagaccc
4801 cagtgagacc atgataccac acgcacaaag acctgtgcag ctcatggcac tactaggaga
4861 atcctcccta catggaccct cattttacag caaggttagc aaattagtca tatctgaact
4921 taaagaggga ggaatggatt tttatgtgcc cagacaagag tcaatgttca gatggatgag
4981 gttctcagat ctaagcacat gggagggcga tcgcaatctg gctcccagtt ttgtgaatga
5041 agatggcgtc gaatgacgcc gctccatcta atgatggtgc tgctggtctc gtaccagagg
5101 gcaacaacga gacccttccc ctggaaccag ttgcgggcgc agctatagcc gcacccgtca
5161 ctggccaaaa taatataatt gacccctgga ttagaacaaa ttttgtgcaa gcaccaaatg
5221 gagagttcac agtgtcaccc agaaactctc ctggagaaat tttattaaat ttagagttgg
5281 gccctgattt gaacccttat ttggctcatt tgtcaaggat gtacaatggg tatgctggtg
5341 gagtggaagt tcaggttctc ctggcaggga acgcgttcac tgccggaaag atcctcttcg
5401 ccgccgtccc gccaaatttc ccagtggaat tcttaagccc agcccagatc acaatgctcc
5461 cacatttaat agtagatgtt aggactcttg aaccaattat gatcccactc cctgatgtta
5521 ggaatacatt cttccattat agtaaccagc ctaacagccg catgagatta gtggctatgc
5581 tctatacccc actcagatct aatggctcag gtgatgatgt ctttactgtc tcttgcaggg
5641 ttttgactag gcctactcct gattttgagt tcacttattt agtgccacct tctgttgaat
5701 ctaaaactaa gcctttttcc ttacctattt taaccctttc tgagctcaca aattcgaggt
5761 ttccagtccc catcgattcg cttttcaccg cccagaataa cgtgttgcag gtgcagtgtc
5821 aaaatggcag gtgtacactt gatggtgagt tacaaggcac aacccagttg ctcccaactg
5881 gcatctgtgc attcagagga cgggtgacag cacaaattaa ccaacgtgac aggtggcaca
5941 tgcaactgca aaacctcaat ggtacaacat atgacccaac tgatgatgtg ccagccccgc
6001 tgggtacacc tgacttcaag ggcgtcgtgt ttgggatggt aagccaaagg aatgtgggta
6061 atgatgcgcc tggttcaacc agagcccaac aggcgtgggt ttcaacctat agcccccaat
6121 ttgtccccaa attaggttct gtcaatctta gaattagtga taatgatgat ttccaattcc
6181 agccgacaaa attcacacca gtgggcgtca atgatgacga tgatggccac ccgttcagac
6241 aatgggaact accaaactat tcaggggagc ttaccttgaa tatgaatctt gcccccccag
6301 ttgctccaaa ttttcctggt gaacaattgt tattcttcag atctttcgtg ccatgctcag
6361 gaggttacaa ccaaggtatt atagattgtc ttattcccca agaatggatc caacacttct
6421 atcaggaatc agcaccctcc cagtcagacg tggccctaat caggtatgtc aaccccgata
6481 cgggacgtac actgtttgaa gcaaaattgc acagatctgg ttacattact gtggctcact
6541 ctggagacta tcctcttgtt gttccggcta atggacactt tagatttgat tcttgggtaa
6601 atcagtttta ctcactcgcc ccaatgggaa ctgggaatgg gcgaaggagg gctcagtaat
6661 ggctggggct ttcattgcag gattggcagg cgacatgctc acgtcatctg tgggctccct
6721 tgtgaacgca ggggcaaacg ccatcaacca aaagatagac tttgaaaaca acaaacaact
6781 ccagtctgct tcctttcagc atgataaaga gatgctccaa gcgcaggtga gggcaaccaa
6841 gcagctgcaa tctgaaatga tagccctaaa acagggggtt ttggccgcag gcggcttttc
6901 ccccactgat gcagcaaggg gatccattgg tgcacccatg acaaaggtgc ttgactggtc
6961 tggcactcga tactgggcgc ccaattccac aaagacaact ggctattcgg gacaattcac
7021 ctcttcacct gtgcatatgt ctagcccaaa tgctccacaa tcaaaacctg caaagcctag
7081 gtctctagct ccttcctctt cttctagcag tgtctatagt atgtatactc aatctactca
7141 tttaacatct ggctcttcta gtaatgcttc ttctgcctcc acaaaattga caaatttaag
7201 ctctggctcc tctcaaaaca gaacagcaga gtgggtaaat caacagagaa gtcttagccc
7261 tttcatgagt ggcgcactta acatctcaca tgtcacgcca ccctcaagta gggcttccag
7321 ttctgggacg gtctcgaccg tgcccaagga agttttggac tcctggacgt ctgcgtttaa
7381 cacacacaga cagccgctct tcgcacacct cagagtgagg ggggagtcac gtgtttagtg
7441 aaaagaaata attggctata atgtgatttc tttctaaatt tggc
//