Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC644992 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..5088
ORF2: 5069..6688
ORF3: 6688..7417
LOCUS LC644992 7417 bp RNA linear VRL 04-AUG-2021
DEFINITION Norovirus GII.17 Hu/GII.17[P17]/1379F/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC644992
VERSION LC644992.1
KEYWORDS .
SOURCE Norovirus GII.17
ORGANISM Norovirus GII.17
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T.,
Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo(April
2020-March 2021)
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7417)
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T.,
Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (26-JUL-2021) Contact:Yu Yaoita Tokyo Metropolitan
Institute of Public Health, Department of Microbiology;
Hyakunincho3-24-1, Shinjyuku, Tokyo 169-0073, Japan URL
:http://www.tokyo-eiken.go.jp/
FEATURES Location/Qualifiers
source 1..7417
/organism="Norovirus GII.17"
/mol_type="genomic RNA"
/strain="Hu/GII.17[P17]/1379F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:552592"
/geo_loc_name="Japan:Tokyo"
/collection_date="2021-03"
gene <1..5088
/gene="POL"
CDS <1..5088
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDA20600.1"
/translation="ASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQPPPG
ETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNT
AYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKI
EITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKV
ASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRD
FPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLL
HERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDELK
QAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARI
RYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPR
DEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFI
TSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVS
ILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNA
PKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGES
FTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMI
RCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGL
KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHED
PSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5069..6688
/gene="VP1"
CDS 5069..6688
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDA20601.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN
DDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIIDC
LIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVV
PANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6688..>7417
/gene="VP2"
CDS 6688..>7417
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDA20602.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPFSSSSSVYSMYTQST
HLASGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALDISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTH"
ORIGIN
1 gcttccgctg ccgttgctgg caaaaacaac aacaacgaca aggaaaaatc ttcaagtgac
61 agcttgtttg ctaacatgtc tgtcactttt aagaaagccc tcggggcgcg gtctaaacaa
121 ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa ggccaccgac accggaattg
181 gtgaagagaa tacctccacc cccacccaat ggcgaggatg aaccagggat agtgtacaag
241 gtgggagagg gtgtgtctgg gctgcccgac ctaacaactg tggtacaacc tgacgcacaa
301 aacacagctt atagtgttcc cccacttagc cagagagaag tcggcgaagc taaagaaccg
361 ctgcctggct ccattctgga aatgtgggat ggtgagatct accactatgg gctgtatgtt
421 gagcgggggc atgtgctcgg agtacacaaa ccacctgctg caataagcct tgccaaaatt
481 gaaataacac cgctgtctct ctactggaga gtggtctaca ctccccagta tttgatagat
541 ccaggaactc ttaagaactt gagtggagag actttcccat acacggcctt tgacaacaac
601 tgttatgcct tctgttgttg ggtcctagac ctcaacgact cctggcttag caggagaatg
661 atccaaagaa caactggatt cttcaaacct tatcaggatt ggaacagaaa acccttacca
721 accatggatg aaccgaaaat caagaaggcc gcgaatgctg tcctatgcgc tctctcctca
781 ctcttcacta gacccattaa ggacatcatt ggaaagctta gaccactgaa cattcttaat
841 atactggcaa cctgcgattg gacttttgca ggcatagtgg aatccttgat ccttcttgct
901 gaactctttg gggtgttctg gacaccccca gatgtgtctg cgatgattgc tcccttactc
961 ggtgactacg agatgcaagg ccccgaagac ctggccgtgg aacttgtgcc cgtggtgatg
1021 ggaggaatag gtttggtgtt aggattcacc aaagaaaaga tcggcaagat gctttcatca
1081 gctgcgacca cacttagggc ctgcaaggac ctaggatctt atggattgga gatactcaaa
1141 ttggtcatga agtggttctt ccccaagaag gaggaggcta acgaactagc catggtgagg
1201 gccattgagg atgcagtcct ggatttggag gcaatagaaa acaatcacat gaccaccctt
1261 ctcaaggata aagacagcct ggccacatac atgaggactc ttgacttgga agaagagaaa
1321 gcaaggaaac tgtcaaccaa atcggcgtca cctgacatcg tgggtacaat aaacgcattg
1381 ttggctagga tagcagccgc caggtcactg gtccacaagg ctaaggagga gctctcgagc
1441 agacagagac ctgttgttgt aatgatatca ggtagaccag gtataggaaa gacccatctg
1501 gccagagagc tagccaagaa agttgcgtca acactgtcag gcgaccaaag gattggactg
1561 gtacctagga atggcgtcga ccattgggac gcctacaagg gagaaagggt ggtcctgtgg
1621 gatgattatg gtatgagcaa ccctatacag gacgcactga ggctccaaga attggctgac
1681 acctgtcctc tgaccctaaa ttgtgatagg attgaaaaca aaggaaaagt gttcgacagt
1741 gatgccataa ttataacaac caaccttgca aacccagcac cactagacta tgtcaacttt
1801 gaggcctgct ctagacgcat agacttcttg gtgtatgcag acgcacctga cattgagaag
1861 gctaagcgtg acttccctgg ccaaccagat atgtggaaag accatttcag accagacttc
1921 tcacacatta aacttcagct ggcaccacag ggaggttttg acaaaaatgg caacacccca
1981 catggcaaag gtgtggtaaa gtccctgacg attggttctc tgatcgccag ggcctccggc
2041 ttgctccacg agagaatgga tgaattcgag ctccaaggtt ctgacctgcc aaccttcaat
2101 tttgaccgca acaaagtcgc cgccttcaga caattagcag ctgaaaacaa atatggtctt
2161 atggacacat tgagggtcgg caaccaactg aaaagtgtta agaccctgga tgagctgaag
2221 caggccataa agaacatcag tatcaagaag tgtcagatag tgtataatgg atgcacctat
2281 accatggaat ctgatgggag gggcaaggtt gtggttgaaa aggtacaaaa cgcaacagtt
2341 caaaccaaca atgaacttgt aggggcgctc caccacctga gatctgcaag gataagatat
2401 tatgttaaat gtttccaaga agccatttac tctctactcc aaattgctgg tgcagccttt
2461 gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc tctggtcgaa gccacccatc
2521 gaggagggtg atgagcctga agacagagga ggatgcccca agcccaggga tgaagatgac
2581 ctcactattg actctagaga cattaaagtg gaagggaaga agggcaagaa caagtctggc
2641 cggggcaaga aacacacagc cttctcttcc aagggcctca gtgatgaaga gtacgatgag
2701 tacaagagaa tcagagagga gaggaatggc aaatactcaa tagaggaata cctccaagat
2761 agggacagat actatgaaga gcttgccatt gctaaggcca ctgaggagga cttctgtgag
2821 gaggaggaga tcaaaatccg ccagagaatc ttccgaccca ccaggaagca gcggaaagag
2881 gaaagggcca cgcttgggct tgtcacagga tcggaaatca gaaagaggaa tccagatgac
2941 tttaaaccaa aaggaaaatt gtgggctgat gacaacagga gcgtggatta caatgagagg
3001 atagattttg aggctccccc gagtgtttgg tctaggatag tcaactttgg cacaggctgg
3061 gggttctggg tttctccaag tctctttata acttcaacac acgtcatacc aaaaggaatc
3121 actgaggcct ttggagtgcc cataaaccaa atccaaattc acaaatctgg agaattttgc
3181 cgcttgcggt ttccaaagcc aattagacca gacgtgagtg ggatgatctt ggaagagggc
3241 gcccctgaag gcactgttgt gtctattctc atcaaaagga caacagggga gctgatgcct
3301 cttgcagtca gaatggggac tcatgccaca atgaaaatcc aaggtagaac ggtgggtggt
3361 cagatgggta tgcttctcac tggctcaaat gctaaaggca tggatctagg cacaacgcca
3421 ggtgactgcg gatgtccata catatacaaa aggggcaatg accttgtggt cattggggtg
3481 cacactgcag cagctcgtgg aggcaacacg gtcatatgtg ccacacaggg aagtgaaggt
3541 gaagccactc ttgaaggagg tgacaacaag ggtacctatt gtggagcccc cattttggga
3601 cctggcaatg caccaaaatt gagcacaaag acaaaattct ggagatcctc taacgcaccg
3661 cttcccccag gtacttatga accagcatac cttggtggga gagacccgcg cgtgaaggga
3721 ggcccatctc tgcaacaagt tatgagagac caacttaaac cttttacaga gcccaggggg
3781 aagccaccaa acccaaatgt cttagagtca gcaaagaaga ctatcatcaa tgttctggaa
3841 caaaccattg acccccctca aaagtggtca tatgcccaag cttgtgcatc cctcgataag
3901 acaacctcca gtggataccc gcaccacgtc cggaagaatg actattggag tggtgaatcc
3961 ttcacaggaa aacttgcaga tcaggcttca aaagcaaatc tcatgtatga ggaaggcaag
4021 cacatgcaac cagtttacac cgcagcactc aaagacgagc tcgtgaaaac tgacaaaatt
4081 tatggcaaaa tcaagaaaag actcctgtgg ggttctgacc tttccacaat gattcgatgc
4141 gccagagcat ttggtggtct catggatgaa ttcaaagcaa attgtattac actccctatc
4201 agagttggta tgaatatgaa tgaagatggt cccataatat ttgagaaaca ctccaggtac
4261 aggtaccact atgatgctga ttactcccgc tgggactcca cacaacagcg ggcagtgctg
4321 gaagcggcac ttgaaatcat ggtgagattt tctgctgagc cacagctggc acaaatagtg
4381 gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg atttcaaaat cgctatcaat
4441 gaaggcctac catctggcgt gccttgcacc tcacaatgga attctattgc ccactggtta
4501 cttaccttgt gtgccctttc tgaagtgaca ggattaggtc ctgacatcat acaagctaac
4561 tccatgtact ctttctatgg tgatgatgag attgtgagca cagacataaa attggaccca
4621 gagaaattga ccgcaaagct caaagaatat ggccttaaac ccactcggcc cgacaaaact
4681 gaggggccgt tggtgattag tgaggacctg aatgggttga ctttcctccg ccgaacagtc
4741 acccgtgatc cagcaggttg gtttggaaag ttggaccaaa actccatcct caggcagttg
4801 tactggacaa gaggacccaa ccatgaagac cccagtgaga ccatgatacc acacgcacaa
4861 agacctgtgc agctcatggc actactagga gaatcctccc tacatggacc ctcattttac
4921 agcaaggtta gcaaattagt catatctgaa cttaaagagg gaggaatgga tttttatgtg
4981 cccagacaag agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc
5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc
5101 taatgatggt gctgctggtc tcgtaccaga gggcaacaac gagacccttc ccctagaacc
5161 agttgcgggc gcagctatag ccgcacccgt cactggccaa aataatataa ttgacccctg
5221 gattagaaca aattttgtgc aagcaccaaa tggagagttc acagtgtcac ccagaaactc
5281 tcctggagaa attttattaa atttagagtt gggccctgat ttgaaccctt atttggctca
5341 tttgtcaagg atgtacaatg ggtatgctgg tggagtggaa gttcaggttc tcctggcagg
5401 gaacgcgttc actgccggaa agatcctctt cgccgccgtc ccgccaaatt tcccagtgga
5461 attcttaagc ccagcccaga tcacaatgct cccacattta atagtagatg ttaggactct
5521 tgaaccaatt atgatcccac tccctgatgt taggaataca ttcttccatt atagtaacca
5581 gcctaacagc cgcatgagat tagtggctat gctctatacc ccactcagat ctaatggctc
5641 aggtgatgat gtctttactg tctcttgcag ggttttgact aggcctactc ccgattttga
5701 gttcacttat ttagtgccac cttctgttga atctaaaact aagccttttt ccttacctat
5761 tttaaccctt tctgagctca caaattcgag gtttccagtc cccatcgatt cgcttttcac
5821 cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc aggtgtacac ttgatggtga
5881 gttacaaggc acaacccagt tgctcccaac tggcatctgt gcattcagag gacgggtgac
5941 agcacaaatt aaccaacgtg acaggtggca catgcaactg caaaacctca atggtacaac
6001 atatgaccca actgatgatg tgccagcccc gctgggtaca cctgacttca agggcgtcgt
6061 gtttgggatg gtaagccaaa gaaatgtggg taatgatgcg cctggctcaa ccagagccca
6121 acaggcgtgg gtttcaacct atagccccca atttgtcccc aaattaggtt ctgtcaatct
6181 tagaattagt aataatgatg atttccaatt ccagccgaca aaattcacac cagtgggcgt
6241 caatgacgat gatgaccacc cgttcagaca gtgggaacta ccaaactatt caggggagct
6301 taccttgaat atgaatcttg cccccccagt tgctccaaat tttcctggtg aacaattgtt
6361 attcttcaga tcttttgtgc catgctcagg aggttacaac caaggtatta tagattgtct
6421 tattccccaa gaatggatcc aacatttcta tcaggaatca gcaccctccc agtcagacgt
6481 ggccctaatc aggtatgtca accccgatac gggacgtaca ctgtttgaag caaaattgca
6541 cagatctggt tacattactg tggctcactc tggagactat cctcttgttg ttccggctaa
6601 tggacacttt agatttgatt cttgggtaaa tcagttttac tcactcgccc caatgggaac
6661 tgggaatggg cgaaggaggg ctcagtaatg gctggggctt tcattgcagg attggcaggt
6721 gacatgctca cgtcatctgt gggctccctt gtgaacgcag gggcaaacgc catcaaccaa
6781 aagatagact ttgaaaacaa caaacaactc cagtctgctt cctttcagca tgataaagag
6841 atgctccaag cgcaggtgag ggcaaccaag cagctgcaat ctgaaatgat agccctaaaa
6901 cagggggttt tggccgcagg cggcttttcc cccactgatg cagcaagggg atccattggt
6961 gcacccatga caaaggtgct tgactggtct ggcactcgat actgggcgcc caattccaca
7021 aagacaactg gctattcggg acaatttacc tcttcacctg tgcatatgtc tagcccaaat
7081 gctccacaat caaaacctgc aaagcctagg tctctagctc ctttctcttc ttctagcagt
7141 gtctatagta tgtatactca atctactcat ttggcatctg gctcttctag taatgcttct
7201 tccgcctcca caaaattgac aaatttaagc tctggctcct ctcaaaacag aacagcagag
7261 tgggtaaatc aacagagaag tcttagccct ttcatgagtg gcgcacttga catctcacat
7321 gtcacgccac cctcaagtag ggcttccagt tctgggacgg tctcgaccgt gcccaaggaa
7381 gttttggact cctggacgtc tgcgtttaac acacaca
//