Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC939687 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..5099
ORF2: 5080..6702
ORF3: 6702..7481
LOCUS LC939687 7525 bp RNA linear VRL 24-JUN-2026
DEFINITION Norovirus GII Hu/GII.17[P17]/TKY612/2020/JP RNA, nearly complete
genome.
ACCESSION LC939687
VERSION LC939687.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Asakura,H., Yokota,S., Iwasaki,N., Miseki,N., Shinkai,T. and
Chiba,T.
TITLE The Detection of Norovirus in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7525)
AUTHORS Asakura,H., Yokota,S., Iwasaki,N., Miseki,N., Shinkai,T. and
Chiba,T.
TITLE Direct Submission
JOURNAL Submitted (22-JUN-2026) Contact:Hiroyuki Asakura Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; Hyakunincho
3-24-1, Shinjuku-ku, Tokyo 169-0073, Japan URL
:https://www.tmiph.metro.tokyo.lg.jp/
COMMENT ##Genome-Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 26.0.1
Genome Coverage :: 52.43x
Sequencing Technology :: Illumina MiSeq
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/TKY612/2020/JP"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan: Tokyo"
/collection_date="2020-09"
CDS <1..5099
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BIB40804.1"
/translation="SNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQP
PPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDA
QNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISL
AKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKL
RPLNVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELA
KKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKA
KRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARAS
GLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLD
ELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRS
ARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCP
KPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPS
LFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGT
VVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWS
GESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
TMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPN
HEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQES
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5080..6702
/codon_start=1
/product="capsid protein VP1"
/protein_id="BIB40805.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN
DDDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
CDS 6702..7481
/codon_start=1
/product="capsid protein VP2"
/protein_id="BIB40806.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLASGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac aaggaaaaat
61 cttcaagtga cagcttgttt gctaacatgt ctgtcacttt taagaaagcc ctcggggcgc
121 ggtctaaaca accgcccccg ggagaaacaa aacaaataca aaaaccacca aggccaccga
181 caccggaatt ggtgaagaga atacctccac ccccacccaa tggcgaggat gaaccaggga
241 tagtgtacaa ggtgggagag ggtgtgtctg ggctgcccga cctaacaact gtggtacaac
301 ctgacgcaca aaacacagct tatagtgttc ccccacttag ccagagagaa gtcggcgaag
361 ctaaagaacc gctgcctggc tccattctgg aaatgtggga tggtgagatc taccactatg
421 ggctgtatgt tgagcggggg catgtgctcg gagtacacaa accacctgct gcaataagcc
481 ttgccaaaat tgaaataaca ccgctgtctc tctactggag agtggtctac actccccagt
541 atttgataga tccaggaact cttaagaact tgagtggaga gactttccca tacacggcct
601 ttgacaacaa ctgttatgcc ttctgttgtt gggtcctaga cctcaacgac tcctggctta
661 gcaggagaat gatccaaaga acaactggat tcttcaaacc ttatcaggat tggaacagaa
721 aacccttacc aaccatggat gaaccgaaaa tcaagaaggc cgcgaatgct gtcctatgcg
781 ctctctcctc actcttcact agacccatta aggacatcat tggaaagctt agaccactga
841 acgttcttaa tatactggca acctgcgatt ggacttttgc aggcatagtg gaatccttga
901 tccttcttgc tgaactcttt ggggtgttct ggacaccccc agatgtgtct gcgatgattg
961 ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg gaacttgtgc
1021 ccgtggtgat gggaggaata ggtttggtgt taggattcac caaagaaaag atcggcaaga
1081 tgctttcatc agctgcgacc acacttaggg cctgcaagga cctaggatct tatggattgg
1141 agatactcaa attggtcatg aagtggttct tccccaagaa ggaggaggct aacgaactag
1201 ccatggtgag ggccattgag gatgcagtcc tggatttgga ggcaatagaa aacaatcaca
1261 tgaccaccct tctcaaggat aaagacagcc tggccacata catgaggact cttgacttgg
1321 aagaagagaa agcaaggaaa ctgtcaacca aatcggcgtc acctgacatc gtgggtacaa
1381 taaacgcatt gttggctaga atagcagccg ccaggtcact ggtccacaag gctaaggagg
1441 agctctcgag cagacagaga cctgttgttg taatgatatc aggtagacca ggtataggaa
1501 agacccatct ggccagagag ctagccaaga aagttgcgtc aacactgtca ggcgaccaaa
1561 ggattggact ggtacctagg aatggcgtcg accattggga cgcctacaag ggagaaaggg
1621 tggtcctgtg ggatgattat ggtatgagca accctataca ggacgcactg aggctccaag
1681 aattggctga cacctgtcct ctgaccctaa attgtgatag gattgaaaac aaaggaaaag
1741 tgttcgacag tgatgccata attataacaa ccaaccttgc aaacccagca ccactagact
1801 atgtcaactt tgaggcctgc tctagacgca tagacttctt ggtgtatgca gacgcacctg
1861 acattgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa gaccatttca
1921 gaccagactt ctcacacatt aaacttcagc tggcaccaca gggaggtttt gacaaaaatg
1981 gcaacacccc acatggcaaa ggtgtggtaa agtccctgac gattggttct ctgatcgcca
2041 gggcctccgg cttgctccac gagagaatgg atgaattcga gctccaaggt tctgacctgc
2101 caaccttcaa ttttgaccgc aacaaagtcg ccgccttcag acaattagca gctgaaaaca
2161 aatatggtct tatggacaca ttgagggtcg gcaaccaact gaaaagtgtt aagaccctgg
2221 atgagctgaa gcaggccata aagaacatca gtatcaagaa gtgtcagata gtgtataatg
2281 gatgcaccta taccatggaa tctgatggga ggggcaaggt tgtggttgaa aaggtacaaa
2341 acgcaacagt tcaaaccaac aatgaacttg taggggcgct ccaccacctg agatctgcaa
2401 ggataagata ttatgttaaa tgtttccaag aagccattta ctctctactc caaattgctg
2461 gtgcagcctt tgtcacctca cgcatcgtga ggcgcatgaa catatcaaac ctctggtcga
2521 agccacccat cgaggagggt gatgagcctg aagacagagg aggatgcccc aagcccaggg
2581 atgaagatga cctcactatt gactctagag acattaaagt ggaagggaag aagggcaaga
2641 acaagtctgg ccggggcaag aaacacacag ccttctcttc caagggcctc agtgatgaag
2701 agtacgatga gtacaagaga atcagagagg agaggaatgg caaatactca atagaggaat
2761 acctccaaga tagggacaga tactatgaag agcttgccat tgctaaggcc actgaggagg
2821 acttctgtga ggaggaggag atcaaaatcc gccagagaat cttccgaccc accaggaagc
2881 agcggaaaga ggaaagggcc acgcttgggc ttgtcacagg atcggaaatc agaaagagga
2941 atccagatga ctttaaacca aaaggaaaat tgtgggctga tgacaacagg agcgtggatt
3001 acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata gtcaactttg
3061 gcacaggctg ggggttctgg gtttctccaa gtctctttat aacttcaaca cacgtcatac
3121 caaaaggaat cactgaggcc tttggagtgc ccataaacca aatccaaatt cacaaatctg
3181 gagaattttg ccgcttgcgg tttccaaagc caattagacc agacgtgagt gggatgatct
3241 tggaagaggg cgcccctgaa ggcactgttg tgtctattct catcaaaagg acaacagggg
3301 agctgatgcc tcttgcagtc agaatgggga ctcatgccac aatgaaaatc caaggtagaa
3361 cggtgggtgg tcagatgggt atgcttctca ctggctcaaa tgctaaaggc atggatctag
3421 gcacaacgcc aggtgactgc ggatgtccat acatatacaa aaggggcaat gaccttgtgg
3481 tcattggggt gcacactgca gcagctcgtg gaggcaacac ggtcatatgt gccacacagg
3541 gaagtgaagg tgaagccact cttgaaggag gtgacaacaa gggtacctat tgtggagccc
3601 ccattttggg acctggcaat gcaccaaaat tgagcacaaa gacaaaattc tggagatcct
3661 ctaacgcacc gcttccccca ggtacttatg aaccagcata ccttggtggg agagacccgc
3721 gcgtgaaggg aggcccatct ctgcaacaag ttatgagaga ccaacttaaa ccttttacag
3781 agcccagggg gaagccacca aacccaaatg tcttagagtc agcaaagaag actatcatca
3841 atgttctgga acaaaccatt gacccccctc aaaagtggtc atatgcccaa gcttgtgcat
3901 ccctcgataa gacaacctcc agtggatacc cgcaccacgt ccggaagaat gactattgga
3961 gtggtgaatc cttcacagga aaacttgcag atcaggcttc aaaagcaaat ctcatgtatg
4021 aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag ctcgtgaaaa
4081 ctgacaaaat ttatggcaaa atcaagaaaa gactcctgtg gggttctgac ctctccacaa
4141 tgattcgatg cgccagagca tttggtggtc tcatggatga attcaaagca aattgtatta
4201 cactccctat cagagttggt atgaatatga atgaagatgg tcccataata tttgagaaac
4261 actccaggta caggtaccac tatgatgctg attactcccg ctgggactcc acacaacagc
4321 gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag ccacagctgg
4381 cacaaatagt ggcagaggac ctgctgtcac caagtgtggt tgatgtgggc gatttcaaaa
4441 tcgctatcaa tgaaggccta ccatctggcg tgccttgcac ctcacaatgg aattctattg
4501 cccactggtt acttaccttg tgtgcccttt ctgaagtgac aggattaggt cctgacatca
4561 tacaagctaa ctccatgtac tctttctatg gtgatgatga gattgtgagc acagacataa
4621 aattggaccc agagaaattg accgcaaagc tcaaagaata tggccttaaa cccactcggc
4681 ccgacaaaac tgaggggccg ttggtgatta gtgaggacct gaatgggttg actttcctcc
4741 gccgaacagt cacccgtgat ccagcaggtt ggtttggaaa gttggaccaa aactccatcc
4801 tcaggcagtt gtactggaca agaggaccca accatgaaga ccccagtgag accatgatac
4861 cacacgcaca aagacctgtg cagctcatgg cactactagg agaatcctcc ctacatggac
4921 cctcatttta cagcaaggtt agcaaattag tcatatctga acttaaagag ggaggaatgg
4981 atttttatgt gcccagacaa gagtcaatgt tcagatggat gaggttctca gatctaagca
5041 catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgaatgac
5101 gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaacaa cgagaccctt
5161 cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca aaataatata
5221 attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt cacagtgtca
5281 cccagaaact ctcctggaga aattttatta aatttagagt tgggccctga tttgaaccct
5341 tatttggctc atttgtcaag gatgtacaat gggtatgctg gtggagtgga agttcaggtt
5401 ctcctggcag ggaacgcgtt cactgccgga aagatcctct tcgccgccgt cccgccaaat
5461 ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacattt aatagtagat
5521 gttaggactc ttgaaccaat tatgatccca ctccctgatg ttaggaatac attcttccat
5581 tatagtaacc agcctaacag ccgcatgaga ttagtggcta tgctctatac cccactcaga
5641 tctaatggct caggtgatga tgtctttact gtctcttgca gggttttgac taggcctact
5701 cccgattttg agttcactta tttagtgcca ccttctgttg aatctaaaac taagcctttt
5761 tccttaccta ttttaaccct ttctgagctc acaaattcga ggtttccagt ccccatcgat
5821 tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg caggtgtaca
5881 cttgatggtg agttacaagg cacaacccag ttgctcccaa ctggcatctg tgcattcaga
5941 ggacgggtga cagcacaaat taaccaacgt gacaggtggc acatgcaact gcaaaacctc
6001 aatggtacaa catatgaccc aactgatgat gtgccagccc cgctgggtac acctgacttc
6061 aagggcgtcg tgtttgggat ggtaagccaa agaaatgtgg gtaatgatgc gcctggctca
6121 accagagccc aacaggcgtg ggtttcaacc tatagccccc aatttgtccc caaattaggt
6181 tctgtcaatc ttagaattag taataatgat gatttccaat tccagccgac aaaattcaca
6241 ccagtgggcg tcaatgatga cgatgatgac cacccgttca gacagtggga actaccaaac
6301 tattcagggg agcttacctt gaatatgaat cttgcccccc cagttgctcc aaattttcct
6361 ggtgaacaat tgttattctt cagatctttc gtgccatgct caggaggtta caaccaaggt
6421 attatagatt gtcttattcc ccaagaatgg atccaacatt tctatcagga atcagcaccc
6481 tcccagtcag acgtggccct aatcaggtat gtcaaccccg atacgggacg tacactgttt
6541 gaagcaaaat tgcacagatc tggttacatt actgtggctc actctggaga ctatcctctt
6601 gttgttccgg ctaatggaca ctttagattt gattcttggg taaatcagtt ttactcactc
6661 gccccaatgg gaactgggaa tgggcgaagg agggctcagt aatggctggg gctttcattg
6721 caggattggc aggtgacatg ctcacgtcat ctgtgggctc ccttgtgaac gcaggggcaa
6781 acgccatcaa ccaaaagata gactttgaaa acaacaaaca actccagtct gcttcctttc
6841 agcatgataa agagatgctc caagcgcagg tgagggcaac caagcagctg caatctgaaa
6901 tgatagccct aaaacagggg gttttggccg caggcggctt ttcccccact gatgcagcaa
6961 ggggatccat tggtgcaccc atgacaaagg tgcttgactg gtctggcact cgatactggg
7021 cgcccaattc cacaaagaca actggctatt cgggacaatt tacctcttca cctgtgcata
7081 tgtctagccc aaatgctcca caatcaaaac ctgcaaagcc taggtctcta gctccttcct
7141 cttcttctag cagtgtctat agtatgtata ctcaatctac tcatttggca tctggctctt
7201 ctagtaatgc ttcttctgcc tccacaaaat tgacaaattt aagctctggc tcctctcaaa
7261 acagaacagc agagtgggta aatcaacaga gaagtcttag ccctttcatg agtggcgcac
7321 ttaacatctc acatgtcacg ccaccctcaa gtagggcttc cagttctggg acggtctcga
7381 ccgtgcccaa ggaagttttg gactcctgga cgtctgcgtt taacacacac agacagccgc
7441 tcttcgcaca cctcagagtg aggggggagt cacgtgttta gtgaaaagaa ataattggct
7501 ataatgtgat ttctttctaa atttg
//