Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC936421 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..5094
ORF2: 5075..6691
ORF3: 6691..7470
LOCUS LC936421 7519 bp RNA linear VRL 05-JUN-2026
DEFINITION Norovirus GII Hu/GII.17[P17]/TKY252280/2026/JP RNA, nearly complete
genome.
ACCESSION LC936421
VERSION LC936421.1
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JOURNAL Unpublished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 7519)
AUTHORS Asakura,H., Yokota,S., Iwasaki,N., Miseki,N., Shinkai,T. and
Chiba,T.
TITLE Direct Submission
JOURNAL Submitted (01-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 :: 151.47x
Sequencing Technology :: Illumina MiSeq
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7519
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/TKY252280/2026/JP"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan"
/collection_date="2026-01"
CDS <1..5094
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BHY91791.1"
/translation="NDASVAVAGKNNNNDNVKSSSDSLFSNMTVTFKKALGARSKQPP
PGETKQTLRPPRPPIPELVKKIPPPPPNGEDEPKVTYKVGEGVSGLPDLTTVAQPDAQ
NTAYSVPPLSQREVGEAREPLPGSILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA
KIELTPLSLYWRVVYTPQYLIAPETLKNLNGETFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDVIGKLK
PLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDALATYMRTLDLEEEKARKLSSKS
ASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAK
KVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAK
RDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKSGNTPHGKGVVKSLTIGSLIARASG
LLHERMDEFELQGPNLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDE
LKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNTTVQTNNELAGALHHLRSA
RIRYYVKCFQEAIYSILQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDKGGCPK
PRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFNPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSL
FITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTV
VSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
NAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKNDYWSG
ESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLST
MIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
QQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNH
EDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5075..6691
/codon_start=1
/product="capsid protein VP1"
/protein_id="BHY91792.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNQPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSEVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
CDS 6691..7470
/codon_start=1
/product="capsid protein VP2"
/protein_id="BHY91793.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSAPQSKPAKPKSLGSSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRRLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 aacgacgctt ccgttgccgt tgctggcaaa aacaacaaca acgacaatgt aaaatcttca
61 agtgacagct tgttttctaa catgactgtt acttttaaga aagccctcgg ggcgcggtct
121 aagcagccgc ccccgggaga aacaaaacaa acactaagac caccaaggcc gccgataccg
181 gaattggtga agaagatacc cccacccccc cccaatggcg aggatgaacc aaaggtaacg
241 tataaggtgg gagaaggtgt gtctgggctg cccgacttga caaccgtggc acaacctgac
301 gcacagaaca cagcctatag tgtcccccca cttagccaga gagaggtcgg cgaagctaga
361 gaaccgttgc ctggctccat tctggaaatg tgggatggtg agatctacca ctatgggctg
421 tatgttgagc gggggcttgt gctgggagtg cacaaaccac ctgctgcaat aagccttgcc
481 aaaattgagt taacaccgct gtctctctac tggagagtgg tctacactcc ccagtacttg
541 atagctccag agaccctcaa gaatttaaat ggagagactt tcccatatac ggcctttgac
601 aacaactgtt atgccttctg ttgttgggtt ctagacctca acgactcctg gcttagcaga
661 agaatggtcc aaagaacaac cggattcttc agaccgtatc aggactggaa cagaaaaccc
721 ttaccaacca tggatgaacc aaaaatcaag aaggccgcga atgctgttct gtgtgctctc
781 tcctcactct tcactaggcc catcaaagat gtcattggaa agcttaaacc actaaacatt
841 atgaacatac tggcaacttg tgattggact tttgcgggca tagtggaatc catgatcctt
901 cttgctgaac tctttggggt gttctggacg cccccagatg tgtctgcaat aattgctccc
961 ttactcggtg actacgagat gcaaggcccc gaagacctgg ccgtggaact tgtgcccgtg
1021 gtaatgggag gaataggttt ggtgttagga ttcaccaagg aaaagatcgg caagatgctt
1081 tcatcagctg caaccacact cagggcctgt aaggacctag gatcttatgg gttggagata
1141 ctcaaactgg tcatgaagtg gttcttcccc aagaaggagg aggccaacga gttagccatg
1201 gtgagggcca ttgaggatgc agttctggat ctggaggcaa tagaaaacaa ccacatgacc
1261 actctcctta aggacaaaga cgccctggcc acatacatga ggactcttga cttggaagaa
1321 gaaaaagcaa ggaaactatc ttccaaatcg gcgtcacctg acatcgtggg cacagtaaac
1381 gcattattgg caagaatagc agccgccagg tcactggtcc acaaggctaa ggaggagctc
1441 tcgagcagac agagacctgt tgttgtaatg atatcaggta ggccaggtat aggaaagacc
1501 catctggcca gagagctagc caagaaggtt gcgtcaacat tgtcaggcga ccaaaggatt
1561 ggactgatac ccagaaatgg cgtcgaccat tgggacgcct acaaaggaga gcgggtggtt
1621 ctgtgggatg actatggcat gagcaaccct atacaggacg cactgaggct ccaagaattg
1681 gctgacacct gtcctctgac cctaaattgt gacagaattg aaaacaaagg aaaagtgttc
1741 gacagtgacg ccataatcat aacgaccaac cttgcaaacc cagcaccatt ggattatgtc
1801 aactttgagg cttgttccag acgcatagac ttcttggtgt atgcagacgc acctgacatc
1861 gagaaggcta agcgtgactt tcctggccaa ccagatatgt ggaaagacca ttacagacca
1921 gacttctcac acattaaact tcagctcgca ccacagggag gctttgataa gagtggcaac
1981 accccacatg gcaaaggcgt ggttaagtct ctgacgattg gctctctgat cgccagggct
2041 tctggcttgc tccatgagag aatggatgaa ttcgagctcc aaggccccaa cttaccaacc
2101 ttcaatttcg accgtaacaa agtcgccgcc ttcagacaat tggcagctga aaataaatac
2161 ggtcttatgg acacactgag ggtcggcaac caactgaaaa gtgtcaaaac cctggatgag
2221 ctgaagcagg ccataaagaa catcaccatc aagaagtgcc agatagtgta caatggatgc
2281 acctacacca tggaatctga tgggaggaac aaggttgtgg tcgaaaaggt tcaaaataca
2341 acagtccaaa ccaacaatga acttgcagga gcactccacc acctgagatc tgcaagaata
2401 aggtattatg tcaaatgttt ccaagaagct atttactcta tactccaaat tgctggtgca
2461 gccttcgtca ccacgcgcat cgtgaggcgc atgaacatct caaacctctg gtcgaagcca
2521 cccgtcgaag agggtgatga gcctgaagac aaaggggggt gccccaagcc cagggatgaa
2581 gatgacctca ctattgactc caaagacatt aaagcagaag gtaagaaggg caagaacaaa
2641 tctggccggg gcaagaaaca cacagctttc tcatccaagg gcctcagtga tgaagagtac
2701 gatgagtaca agagaatcag ggaggagaga aatggcaagt actcaataga agaatacctc
2761 caggataggg atagatacta tgaagagctt gccattgcta aggccactga ggaagacttc
2821 tgtgaagagg aggaaatcaa aattcgccag agaatcttcc ggcccaccag gaagcagcgg
2881 aaagaggaaa gagccacgct tgggctcgtc acaggatcgg aaatcagaaa gaggaaccca
2941 gatgatttta atccaaaagg aaaattgtgg gctgatgaca acaggagtgt ggattacaat
3001 gagaggatag attttgaggc tcccccaagt gtttggtcta ggatagtcaa ctttggtaca
3061 ggatggggat tctgggtctc cccaagtctc ttcataactt caacacatgt cataccaaaa
3121 ggaattactg aggcctttgg agttcccatt aaccaaattc aaattcacaa atctggagag
3181 ttttgccgct tgcggtttcc aaaaccaatc aggccagacg tgagtggaat gatcttggaa
3241 gagggtgccc ctgaaggcac tgttgtttcc attctcatca agaggacgac aggggaactg
3301 atgcctctcg cagtcagaat gggaactcat gccacaatga aaatccaagg tagaacggtg
3361 ggcggtcaaa tgggcatgct tctcactggc tcaaacgcca aaagcatgga cctaggcaca
3421 acaccaggtg actgtgggtg cccatacata tacaaaaggg gcaatgactt cgtggtcatt
3481 ggggtgcaca ctgctgcagc ccgtggaggt aacacggtca tatgtgccac acaggggagt
3541 gaaggcgaag ccaccctcga aggaggtgac aacaagggca cctattgtgg agcccccatc
3601 ttgggtcctg gcaacgcacc aaaattgagc acaaaaacaa aattctggag atcttctaac
3661 gcgccgctcc cgccaggcac ctacgaacca gcataccttg gtggaaaaga cccgcgtgtg
3721 aagggaggcc catctctaca acaggttatg agagaccaac tcaaaccttt tacagagccc
3781 agagggaagc caccaaaacc aagtgtccta gaatcagcaa agaagaccat cattaatgtt
3841 ctggaacaaa ccattgaccc ccctgaaaag tggtcgtatg cccaagcttg tgcatccctc
3901 gacaagacaa cctccagtgg atacccgcat cacgtccgga agaatgacta ctggagtggt
3961 gaatccttca cggggaaact tgcagaccag gcctcaaaag caaatctcat gtatgaggaa
4021 ggtaagcaca tgcaaccagt ttacaccgca gcactcaaag acgagctcgt gaaaactgac
4081 aaaatttatg gcaagatcaa gaaaagactc ctgtggggct ctgacctatc caccatgatt
4141 cgatgcgcca gggcatttgg tggcctcatg gacgagctca aagcaaattg tatcacactc
4201 cctatcagag ttggtatgaa catgaatgaa gatggtccca taatatttga aaagcactcc
4261 aggtacaggt atcactatga tgctgattat tcccgctggg attccacaca acagcgggca
4321 gtgctggaag cggcacttga aatcatggtg agattttctg ctgagccaca gttggcacaa
4381 atagtggcag aggacctgct atcaccaagt gtggttgatg tgggcgattt caaaattact
4441 attaatgaag gcctaccatc tggcgtgcct tgcacttcac aatggaattc tattgctcac
4501 tggttactca ccctatgtgc actgtctgaa gtgacaggac taggccctga catcatacaa
4561 gccaactcca tgtactcttt ctatggtgat gatgagattg tgagcacaga cataaaatta
4621 gacccagaga aattgactgc aaaactcaaa gaatatggtc ttaaacccac ccggcctgac
4681 aagactgagg ggccactggt aattagtgag gacctgaatg ggttgacttt cctccgccga
4741 acagtcaccc gcgatccagc gggttggttt ggaaagttgg accaaaactc catcctcaga
4801 cagctgtact ggacaagggg acccaaccat gaagacccca gtgagactat gataccacac
4861 gcacagagac ctgtgcagct catggcattg ctaggagaat cctccctaca tggaccctca
4921 ttttacagca aggttagcaa actggttata tctgaactta aagagggagg aatggatttt
4981 tatgtgccca gacaagagtc aatgttcagg tggatgaggt tctcagatct aagcacatgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc
5101 tccatctaat gatggtgctg ctggtctcgt accagagggc aataacgaga cccttcccct
5161 agaaccagtt gcgggcgcag ccatagccgc acccgtcact ggccaaaata atataattga
5221 cccctggatt agaacaaatt ttgtgcaagc accaaatgga gagttcacag tgtcacccag
5281 aaactctcct ggagaaattt tactaaacct agagttgggc cctgatctga acccttattt
5341 ggctcatttg tcaaggatgt ataatggata tgctggtgga gttgaagtcc aggttctcct
5401 ggcagggaac gcgttcactg ccgggaagat cctcttcgcc gctgtcccgc caaattttcc
5461 ggtggaattc ttaagcccag cccagattac aatgctccca catataatag tagatgttag
5521 gactcttgaa ccaattatga tcccattacc tgatgttagg aatacattct tccactataa
5581 taatcagccc aacagccgca tgagattagt ggctatgctc tacacccctc ttagatctaa
5641 tggctcaggt gatgatgttt tcactgtttc ttgcagggtt ttgactaggc ctactcctga
5701 ttttgagttc acttatctag tgccaccctc tgttgaatct aagactaaac ccttttcttt
5761 acccattcta accctttctg agctcacaaa ttcgaggttc ccggtcccca tcgattcgct
5821 tttcaccgcc caaaataatg tgttgcaggt gcagtgtcaa aatggcaggt gcacacttga
5881 cggtgagcta caaggcacaa cccagttgct cccatctggc atctgtgcgt tcaggggacg
5941 ggtgacagca gaaactgaca atcctgacaa gtggcacatg caactgcaaa accttaatgg
6001 cacaacatat gacccaactg atgatgtgcc agccccactg ggtacacctg acttcaaggg
6061 cgtcgtgttt gggatggcaa gccaaagaaa tgtgggtaac gacgcgcccg gctcaaccag
6121 gtcccatgag gcggtgattt caacctacag ccccaggttt gttcctaaat taggctctgt
6181 taatttcaaa agcaatgacg atgatttcca actgcagcca acaagattca caccagtggg
6241 cattaatgat gatggcaacc aaccattcag acaatgggaa ctaccagatt attcaggagt
6301 gcttaccttg aacatgaacc tcgccccccc tgttgctcca aatttccctg gcgaacaatt
6361 actattcttc agatcttctg tgccatgttc aggaggttac aaccaaggta ttatagattg
6421 ccttatcccc caagaatgga tccaacactt ctaccaggaa tcagcacctt ctcagtcaga
6481 agtggcccta atcaggtacg tcaaccccga cacgggtcgt acactgtttg aggcaaaatt
6541 gcataggtca ggctatatca ctgtggctca ttctggagac tatcctcttg ttgttccggc
6601 taatggatac tttagatttg actcttgggt aaatcagttt tactcactcg ccccaatggg
6661 aactgggaat gggcgaagga gggctcagta atggctggag ctttcattgc aggattggcg
6721 ggtgacatgc tcacgtcatc cgtgggctcc ctggtgaacg caggggcaaa cgccatcaat
6781 caaaagatag actttgaaaa caacaaacaa ctccagtctg cttcctttca acatgataaa
6841 gagatgctcc aagcgcaggt gaacgcaacc aagcagctgc aatctgagat gatagcccta
6901 aaacaggggg ttttggccgc aggcggcttt tcccccactg atgcagcgag gggggccatc
6961 ggtgcaccca tgacaaaggt gcttgactgg tctggcactc gatactgggc tcccaattcc
7021 acaaagacaa ctggttattc ggggcaattc acctcttcac ctgtgcacat gcccagcccg
7081 agtgccccac aatcaaaacc cgcaaagccc aagtctctag gttcttcttc ttcttctagt
7141 agtgtttata gtatgtccac ccaattaact tctctaacat ctggctcttc tagtaatgct
7201 tcttctgctt ctacaaaatt gacaaatttg agctccggct cttctcaaaa cagaacagca
7261 gagtgggtga accaacagag aaggctcagc cctttcatga gtggcgcgct caatatctcg
7321 catgtcacgc caccttcaag tagggcctcc agttctggga cggtctcaac cgtgcccaag
7381 gaagttttgg actcctggac atctgcattc aacacacaca gacagccgct cttcgcacac
7441 ctcagagtga ggggggagtc acgtgtttag tgaaaagaaa taattggcta taatatgatt
7501 tcttcaaaat ttaaatttg
//