Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC369252 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..5098
ORF2: 5079..6701
ORF3: 6701..7480
LOCUS LC369252 7545 bp RNA linear VRL 28-JUN-2023
DEFINITION Norovirus GII NoV/Hu/JP/2015/GII.P17-GII.17/SA-165 genomic RNA,
nearly complete genome.
ACCESSION LC369252
VERSION LC369252.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
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
REFERENCE 2 (bases 1 to 7545)
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..7545
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="NoV/Hu/JP/2015/GII.P17-GII.17/SA-165"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan:Saitama"
/collection_date="2015"
/note="genotype: GII.P17-GII.17"
gene <1..5098
/gene="POL"
CDS <1..5098
/gene="POL"
/note="start codon is not identified"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBD04728.1"
/translation="SNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQP
PPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDA
QNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISL
AKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKL
RPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELA
KKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKA
KRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARAS
GLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLD
ELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRS
ARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPTEEGDEPEDRGGCP
KPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPS
LFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGT
VVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWS
GESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
TMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPN
HEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQES
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5079..6701
/gene="VP1"
CDS 5079..6701
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBD04729.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6701..7480
/gene="VP2"
CDS 6701..7480
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBD04730.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gtctaacgac gcttccgctg ccgttgctgg caaaaacaac aacaacgaca aggaaaaatc
61 ttcaagtgac agcttgtttg ctaacatgtc tgtcactttt aagaaagccc tcggggcgcg
121 gtctaaacaa ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa ggccaccgac
181 accggaattg gtgaagagaa tacctccacc cccacccaat ggcgaggatg aaccagggat
241 agtgtacaag gtgggagagg gtgtgtctgg gctgcccgac ctaacaactg tggtacaacc
301 tgacgcacaa aacacagctt atagtgttcc cccacttagc cagagagaag tcggcgaagc
361 taaagaaccg ctgcctggct ccattctgga aatgtgggat ggtgagatct accactatgg
421 gctgtatgtt gagcgggggc atgtgctcgg agtacacaaa ccacctgctg caataagcct
481 tgccaaaatt gaaataacac cgctgtctct ctactggaga gtggtctaca ctccccagta
541 tttgatagat ccaggaactc ttaagaactt gagtggagag actttcccat acacggcctt
601 tgacaacaac tgttatgcct tctgttgttg ggtcctagac ctcaacgact cctggcttag
661 caggagaatg atccaaagaa caactggatt cttcaaacct tatcaggatt ggaatagaaa
721 acccttacca accatggatg aaccgaaaat caagaaggcc gcgaatgctg tcctatgcgc
781 tctctcctca ctcttcacca gacccattaa ggacatcatt ggaaagctta gaccactgaa
841 cattcttaat atactggcaa cctgcgattg gacttttgca ggcatagtgg aatccttgat
901 ccttcttgct gaactctttg gggtgttctg gacaccccca gatgtgtctg cgatgattgc
961 tcccttactc ggtgactacg agatgcaagg ccccgaagac ctggccgtgg aacttgtgcc
1021 cgtggtgatg ggaggaatag gtttggtgtt aggattcacc aaagaaaaga tcggcaagat
1081 gctttcatca gctgcgacca cacttagggc ctgcaaggat ctaggatctt atggattgga
1141 gatactcaaa ttggtcatga agtggttctt ccccaagaag gaggaggcta acgaactagc
1201 catggtgagg gccattgagg atgcagtcct ggatttggag gcaatagaaa acaatcacat
1261 gaccaccctt ctcaaggata aagacagcct ggccacatac atgaggactc ttgacttgga
1321 agaagagaaa gcaaggaaac tgtcaaccaa atcggcgtca cctgacatcg tgggtacaat
1381 aaacgcatta ttggctagga tagcagccgc caggtcactg gtccacaagg ctaaggagga
1441 gctctcgagc agacagagac ctgttgttgt aatgatatca ggtagaccag gtataggaaa
1501 gacccatctg gccagagagc tagccaagaa agttgcgtca acactgtcag gcgaccaaag
1561 gattggactg gtacctagaa atggcgtcga ccattgggac gcctacaagg gagaaagggt
1621 ggttctgtgg gatgattatg gtatgagcaa ccctatacag gacgcactga ggctccaaga
1681 attggctgac acctgtcctc tgaccctaaa ttgtgatagg attgaaaaca aaggaaaagt
1741 gttcgacagt gatgccataa ttataacaac caaccttgca aacccagcac cactagacta
1801 tgtcaacttt gaggcctgct ctagacgcat agacttcttg gtgtatgcag acgcacctga
1861 cattgagaag gctaagcgtg acttccctgg ccaaccagat atgtggaaag accatttcag
1921 accagacttc tcacacatta aacttcagct ggcaccacag ggaggttttg acaaaaatgg
1981 caacacccca catggtaaag gtgtggtgaa gtccctgacg attggttctc tgatcgccag
2041 ggcctccggc ttgctccacg agagaatgga tgaattcgag ctccaaggct ctgacctgcc
2101 aaccttcaat tttgaccgca acaaagtcgc cgccttcaga caattagcag ctgaaaacaa
2161 atatggtctt atggacacac tgagggtcgg caaccaactg aaaagtgtta agaccctgga
2221 tgagctgaag caggccataa agaacatcag tatcaagaag tgtcagatag tgtataatgg
2281 atgcacctat accatggaat ctgatgggag gggcaaggtt gtggttgaaa aggtacaaaa
2341 cgcaacagtt caaaccaaca atgaacttgt aggggcgctc caccacctga gatctgcaag
2401 gataagatac tatgttaaat gtttccaaga agccatttac tctctactcc aaattgctgg
2461 tgcagccttc gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc tctggtcgaa
2521 gccacccacc gaggagggtg atgagcctga agacagagga ggatgcccca agcccaggga
2581 tgaagatgac ctcactattg actctagaga cattaaagtg gaagggaaga agggcaagaa
2641 caagtctggc cggggcaaga aacacacagc cttctcttcc aagggcctca gtgatgaaga
2701 gtacgatgag tacaagagaa tcagagagga gaggaatggc aaatactcaa tagaggaata
2761 cctccaagat agggacagat actatgaaga gcttgccatt gctaaggcca ctgaggagga
2821 cttctgtgag gaggaggaga tcaaaatccg ccagagaatc ttccgaccca ccaggaagca
2881 gcggaaagag gaaagggcca cgcttgggct tgtcacagga tcggaaatca gaaagaggaa
2941 tccagatgac tttaaaccaa aaggaaaatt gtgggctgat gacaacagga gcgtggatta
3001 caatgagagg atagattttg aggctccccc gagtgtttgg tctaggatag tcaactttgg
3061 cacaggctgg ggattctggg tttctccaag tctctttata acttcaacac acgtcatacc
3121 aaaaggaatc actgaggcct ttggagtgcc cataaaccaa atccaaattc acaaatctgg
3181 agaattttgc cgcttgcggt ttccaaagcc aattagacca gacgtgagtg ggatgatctt
3241 ggaagagggc gcccctgaag gcactgttgt gtctattctc atcaaaagga caacagggga
3301 gctgatgcct cttgcagtca gaatggggac tcatgccaca atgaaaatcc aaggtagaac
3361 ggtgggtggt cagatgggta tgcttctcac tggctcaaat gctaaaagca tggatctagg
3421 cacaacgcca ggtgactgcg gatgtccata catatacaaa aggggcaatg accttgtggt
3481 cattggggtg cacactgcag cagctcgtgg aggcaacacg gtcatatgtg ccacacaggg
3541 aagtgaaggt gaagccactc ttgaaggagg tgacaacaag ggtacctatt gtggagcccc
3601 cattttggga cctggcaatg caccaaaatt gagcacaaag acaaaattct ggagatcctc
3661 taacgcaccg cttcccccag gtacttatga accagcatac cttggtggga gagacccgcg
3721 cgtgaaggga ggcccatctc tgcaacaagt tatgagagac caacttaaac cttttacaga
3781 gcccagaggg aagccaccaa acccaaatgt cttagagtca gcaaagaaga ctatcatcaa
3841 tgttctggaa caaaccattg acccccctca aaagtggtca tatgcccaag cttgtgcatc
3901 cctcgacaag acaacctcca gtggataccc gcaccacgtc cggaagaatg actattggag
3961 tggtgaatcc ttcacaggaa aacttgcaga tcaggcttca aaagcaaatc tcatgtatga
4021 ggaaggcaag cacatgcaac cagtttacac cgcagcactc aaagacgagc tcgtgaaaac
4081 tgacaaaatt tatggcaaaa tcaagaaaag actcctgtgg ggttctgacc tctccacaat
4141 gattcgatgc gccagagcat ttggtggtct catggatgaa ttcaaagcaa attgtattac
4201 actccctatc agagttggta tgaatatgaa tgaagatggt cccataatat ttgagaaaca
4261 ctccaggtac aggtaccact atgatgctga ttactcccgc tgggactcca cacaacagcg
4321 ggcagtgctg gaagcggcac ttgaaatcat ggtgagattt tctgctgagc cacagctggc
4381 acaaatagtg gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg atttcaaaat
4441 cgctatcaat gaaggcctac catctggcgt gccttgcacc tcacaatgga attctattgc
4501 ccactggtta cttaccttgt gtgccctttc tgaagtgaca ggattaggtc ctgacatcat
4561 acaagctaac tccatgtact ctttctatgg tgatgatgag attgtgagca cagacataaa
4621 attggaccca gagaaattga ccgcaaagct caaagaatat ggccttaaac ccactcggcc
4681 cgacaaaact gaggggccgt tggtgattag tgaggacctg aatgggttga ctttcctccg
4741 ccgaacagtc acccgtgatc cagcaggttg gtttggaaag ttggaccaaa actccatcct
4801 caggcagttg tactggacaa gaggacccaa ccatgaagac cccagtgaga ccatgatacc
4861 acacgcacaa agacctgtgc agctcatggc actactagga gaatcctccc tacatggacc
4921 ctcattttac agcaaggtta gcaaattagt catatctgaa cttaaagagg gaggaatgga
4981 tttttatgtg cccagacaag agtcaatgtt cagatggatg aggttctcag atctaagcac
5041 atgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg
5101 ccgctccatc taatgatggt gctgctggtc tcgtaccaga gggcaacaac gagacccttc
5161 ccctagaacc agttgcgggc gcagctatag ccgcacccgt cactggccaa aataacataa
5221 ttgacccctg gattagaaca aattttgtgc aagcaccaaa tggagagttc acagtgtcac
5281 ccagaaactc tcctggagaa gttttattaa acttagagtt gggccctgat ttgaaccctt
5341 atttggctca tttgtcaagg atgtacaatg ggtatgctgg tggagtggaa gttcaggttc
5401 tcctggcagg gaacgcgttc actgccggaa agatcctctt cgccgccgtc ccgccaaatt
5461 tcccagtgga attcttaagc ccagcccaga tcacaatgct cccacattta atagtagatg
5521 ttaggactct tgaaccaatt atgatcccac tccctgatgt taggaataca ttcttccatt
5581 atagtaacca gcctaacagc cgcatgagat tagtggctat gctctatacc ccactcagat
5641 ctaatggctc aggtgatgat gtctttactg tctcttgcag ggttttgact aggcctactc
5701 ctgattttga gttcacttat ttagtgccac cttctgttga atctaaaact aagccttttt
5761 ccttacctat tttaaccctt tctgagctca caaattcgag gttcccagtc cccatcgatt
5821 cgcttttcac cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc aggtgtacac
5881 ttgatggtga gttacaaggc acaacccagt tgctcccatc tggcatctgt gcattcagag
5941 gacgggtgac agcacaaatt aaccaacgtg acaggtggca catgcaactg caaaacctca
6001 atggtacaac atatgaccca actgatgatg tgccagcccc gctgggtaca cctgacttca
6061 agggcgtcgt gtttgggatg gtaagccaaa gaaatgtggg taatgatgcg cctggctcaa
6121 ccagagccca acaggcgtgg gtttcaacct atagccccca atttgtcccc aaattaggtt
6181 ctgtcaatct tagaattagt gataatgatg atttccaatt ccagccgaca aaattcacac
6241 cagtgggcgt caatgatgac gatgatggcc acccgttcag acaatgggaa ctaccaaact
6301 attcagggga gcttaccttg aatatgaatc ttgccccccc agttgctcca aattttcctg
6361 gtgaacaatt gttattcttc agatctttcg tgccatgctc aggaggttac aaccaaggta
6421 ttatagattg tcttattccc caagaatgga tccaacactt ctatcaggaa tcagcaccct
6481 cccagtcaga cgtggcccta atcaggtatg tcaaccccga tacgggacgt acactgtttg
6541 aagcaaaatt gcacagatct ggttacatta ctgtggctca ctctggagac tatcctcttg
6601 ttgttccggc taatggacac tttagatttg attcttgggt aaatcagttt tactcactcg
6661 ccccaatggg aactgggaat gggcgaagga gggctcagta atggctgggg ctttcattgc
6721 aggattggca ggcgacatgc tcacgtcatc tgtgggctcc cttgtgaacg caggggcaaa
6781 cgccatcaac caaaagatag actttgaaaa caacaaacaa ctccagtctg cttcctttca
6841 gcatgataaa gagatgctcc aagcgcaggt gagggcaacc aagcagctgc aatctgaaat
6901 gatagcccta aaacaggggg ttttggccgc aggcggcttt tcccccactg atgcagcaag
6961 gggatccatt ggtgcaccca tgacaaaggt gcttgactgg tctggcactc gatactgggc
7021 gcccaattcc acaaagacaa ctggctattc gggacaattc acctcttcac ctgtgcatat
7081 gtctagccca aatgctccac aatcaaaacc tgcaaagcct aggtctctag ctccttcctc
7141 ttcttctagc agtgtctata gtatgtatac tcaatctact catttaacat ctggctcttc
7201 tagtaatgct tcttctgcct ccacaaaatt gacaaattta agctctggct cctctcaaaa
7261 cagaacagca gagtgggtaa atcaacagag aagtcttagc cctttcatga gtggcgcact
7321 taacatctca catgtcacgc caccctcaag tagggcttcc agttctggga cggtctcgac
7381 cgtgcccaag gaagttttgg actcctggac gtctgcgttt aacacacaca gacagccgct
7441 cttcgcacac ctcagagtga ggggggagtc acgtgtttag tgaaaagaaa taattggcta
7501 taatgtgatt tctttctaaa tttggctaat ttgtatcttt taaaa
//