Typing tool
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Typing tool
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Complete norovirus genomes
| MH218689 | GII.17 | |
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| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6716
ORF3: 6716..7495
LOCUS MH218689 7562 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_231_20_01_2016, complete genome.
ACCESSION MH218689
VERSION MH218689.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7562)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Norovirus transmission dynamics in a paediatric hospital using full
genome sequences
JOURNAL Clin. Infect. Dis. (2018) In press
PUBMED 29800111
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7562)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2018) Division of Infection and Immunity,
University College London, 90 Gower St, London, London WC1E 6BT,
United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 10.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7562
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_231_20_01_2016"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom"
/collection_date="20-Jan-2016"
/note="genotype: GII.P17_GII.17"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17725.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
PKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPKIVYKVGEGVSGLPNLTTVA
QPDAQNTAYSVPPLSQREAGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQEWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGKPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRSDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGPDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYTIESDGKNKVVVEKVQNATVQTNNELVGALH
HLRTARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVKRMNISNLWSKPPIEEGDEPEDE
GGCPRPRDEGDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGTSEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNSPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..1003
/gene="ORF1"
/product="p48"
mat_peptide 1004..2101
/gene="ORF1"
/product="NTPase"
mat_peptide 2102..2638
/gene="ORF1"
/product="p22"
mat_peptide 2639..3037
/gene="ORF1"
/product="VPg"
mat_peptide 3038..3580
/gene="ORF1"
/product="Pro"
mat_peptide 3581..5110
/gene="ORF1"
/product="RdRp"
gene 5094..6716
/gene="ORF2"
CDS 5094..6716
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17726.1"
/translation="MKMASNDAAPSNDGAAGLVPEDNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSARNAPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPTGRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFQFTYLVPP
SVESKTKPFTLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAEPSRSDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGFVFGV
ASQRNVGSDAPGSTRAHEVVISTYSPQFVPKLGSVNFKISSDDDFQLQPTKFTPVAIN
EEDDDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSFVPCAGGYNQGIVD
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6716..7495
/gene="ORF3"
CDS 6716..7495
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17727.1"
/translation="MAGALIAGLAGDMLTSSVGSLVNAGANAINQRIDFENNKQLQFA
SFQHDKEMLQAQVKATKQLQSEMIAIKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPNVPQSKPAKPRSIAPSSSSSSVYSMSTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTVEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa
61 cgacaaggag aaatcttcaa gtgacagctt gttttccaac atgactgtta cttttaagaa
121 agccctcggg gcgcggccta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc
181 accaaggcca ccgacaccgg aattggtgaa gagaataccc ccacccccac ccaatggcga
241 ggatgaacca aagatagtgt ataaggtggg agaaggtgtg tctgggctgc ccaacctaac
301 gactgtggca cagcctgacg cacaaaacac agcttatagt gttcccccac ttagccagag
361 agaagccggc gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga
421 gatctaccac tatgggctgt atgttgagcg ggggcatgta ctcggagtgc ataaaccacc
481 tgctgcaata agtcttgcca aaattgaatt aacacctctg tctctctact ggagagtggt
541 ttacactccc cagtatttga tagctccaga aactcttaag aacttgagtg gggagacttt
601 cccatacacg gcctttgaca acaactgtta tgccttctgt tgttgggttc tagacctcaa
661 cgactcctgg ctcagcagga gaatgatcca aagaacaact ggcttcttca gaccgtatca
721 ggagtggaac agaaaacctt taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa
781 tgctgttctg tgtgctctct cctcactctt cactagaccc atcaaggaca tcattggaaa
841 gcttagacca ctgaatattc tcaatatact ggcaacttgt gactggactt ttgcaggcat
901 agtggaatct atgatccttc ttgctgaact ctttggggtg ttctggaccc ccccagatgt
961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggccccg aagacctagc
1021 cgtggaactc gtgcccgtgg taatgggagg aataggtttg gtgttaggat tcaccaagga
1081 aaagatcggc aagatgcttt catcagctgc gaccacgctt agggcctgta aggatctagg
1141 atcttatgga ttggagatac tcaaattggt catgaagtgg ttcttcccca agaaggagga
1201 ggctaatgaa ctagccatgg taagggccat tgaggacgca gtcctggatt tggaggcaat
1261 agaaaacaat cacatgacca cccttctcaa ggataaagac agcttggcca catacatgag
1321 aactcttgac ttggaagaag agaaagcaag gaaactgtcg accaaatcgg cgtcacctga
1381 catcgtgggt acaataaact cattattggc aaggatagca gccgccaggt cactagtcca
1441 caaggctaag gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtaa
1501 accgggtata ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact
1561 gtcaggcgac caaaggattg gactgatacc taggaatggc gtcgaccatt gggacgccta
1621 caagggagaa agggtggttc tgtgggatga ttatggtatg agcaacccta tacaggacgc
1681 actgaggctc caagaattgg ctgacacctg tcctctgacc ctaaattgtg acaggattga
1741 aaacaaagga aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc
1801 agcaccacta gattatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta
1861 tgcagacgca cctgacatag agaaggctaa gcgtgatttc cctggccaac cagatatgtg
1921 gaaggaccat tacagatcag acttcacaca catcaaactt cagctggcac cacagggagg
1981 ttttgataaa aatggcaaca ccccacacgg caaaggtgtg gtaaagtctc tgacgattgg
2041 ttctctgatc gccagggctt ctggtttact ccacgagaga atggatgaat tcgagctcca
2101 gggccctgac ttgccaacct tcaactttga ccgcaacaaa gtcgccgcct tcagacaatt
2161 agcagctgaa aacaaatatg gtctcatgga cacactgagg gtcggcaacc aactgaaaag
2221 tgtcaagacc ctggatgagc tgaagcaggc cataaagaac atcagtatca agaagtgcca
2281 gatagtgtat aatggatgca cctataccat agaatctgat gggaagaaca aggttgtggt
2341 tgaaaaggtg caaaatgcaa cagttcaaac taacaatgaa cttgtagggg cactccacca
2401 cctgagaact gcaaggataa gatattatgt taaatgcttc caagaagcca tttattctct
2461 actccaaatt gctggtgcag ccttcgtcac ctcacgcatc gtgaagcgca tgaacatctc
2521 aaacctctgg tcgaagccac ccatcgagga gggtgatgag cctgaagatg aaggaggatg
2581 ccccaggccc agggatgaag gtgacctcac tattgactct agggacatta aagtggaagg
2641 gaaaaagggc aagaacaaat ctggccgggg caagaaacat acagccttct catccaaggg
2701 tctcagtgat gaagagtacg acgagtacaa gagaatcaga gaggaaagga atggcaaata
2761 ctcaatagag gaatacctcc aagataggga cagatactat gaagagcttg ccattgctaa
2821 agccactgag gaggacttct gtgaagagga ggaaatcaaa attcgccaga gaatcttccg
2881 acccaccagg aagcagcgga aagaggagag ggccacgctt gggcttgtca caggatcgga
2941 aatcagaaag aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa
3001 caggagcgtg gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag
3061 gatagtcaac tttggcacag gctggggatt ctgggtttct ccaagtctct ttataacttc
3121 aacacatgtc ataccaaaag gaaccagtga ggcctttgga gtgcccataa accaaatcca
3181 aattcacaaa tctggagaat tttgccgctt gcggtttcca aaaccaatca gaccagacgt
3241 gagtggaatg atcttggaag agggtgcccc tgaaggcact gttgtgtcta ttctcattaa
3301 aaggacgaca ggggagctga tgcctctcgc agtcagaatg gggactcatg ccacaatgaa
3361 aatccagggc agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa
3421 aagcatggat ctaggcacaa cgccaggtga ctgcgggtgt ccatacatat acaaaagggg
3481 caatgacttc gtggtcattg gggtgcacac tgcagcagca cgtggaggca acacggtcat
3541 atgtgccaca caaggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac
3601 ttactgtgga gcccccattt tgggacctgg caattcacca aaattgagca caaaaacaaa
3661 attctggaga tcttctaacg caccgcttcc cccaggtact tatgaaccag catatcttgg
3721 tgggagagac ccgcgtgtga agggaggccc atctctgcaa caagttatga gagatcaact
3781 taaacctttt acagagccca gagggaagcc accaaaccca aatgtcctag agtcagcaaa
3841 gaagactatc atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc
3901 tcaagcttgt gcatccctcg acaagacaac ttccagtggg tacccacacc acgtccggaa
3961 gaatgactat tggagtggtg aatccttcac agggaaactt gcagaccagg cttcaaaagc
4021 aaatctcatg tatgaggaag gcaaacacat gcaaccagtc tacaccgcag cactcaaaga
4081 cgagctcgtg aaaactgaca aaatttatgg caagatcaag aaaagactcc tgtggggttc
4141 tgacctctcc accatgattc gatgcgccag agcgtttggt ggtctcatgg atgagctcaa
4201 agcaaattgt atcacactcc ctatcagagt tggtatgaat atgaatgaag atggccccat
4261 aatatttgag aaacactcca ggtacaggta ccactatgac gctgattact cccgttggga
4321 ctccacacaa cagcgggcag tgctggaagc agcacttgaa atcatggtga gattttctgc
4381 tgagccacag ctggcacaaa tagtggcaga ggacctgcta tcaccaagtg tggttgatgt
4441 gggcgatttc aaaatcgcta tcaatgaagg tttaccatca ggtgtgcctt gcacctcaca
4501 atggaattct attgctcact ggttactcac cctgtgtgcc ctttctgaag tgactggatt
4561 aggccctgac atcatacaag ccaactccat gtactctttc tatggtgatg atgagattgt
4621 gagcacagat ataaaattgg acccagagaa attgactgca aaactcaaag aatatggcct
4681 taaacccact cggcctgaca aaactgaggg gccgctggtg attagtgaag acctgaatgg
4741 gttgactttc ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga
4801 ccaaaactcc atcctcaggc aattgtactg gacaagagga cccaaccatg aagaccccag
4861 tgagaccatg ataccacacg cacagaggcc tgtgcagctc atggcactac taggagaatc
4921 ctccctacat ggaccctcat tttacagcaa ggtcagcaaa ctggtcatat ctgaacttaa
4981 agagggggga atggattttt atgtgcccag acaagagtca atgttcaggt ggatgaggtt
5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga
5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagaggaca
5161 acaacgagac ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg
5221 gccaaaacaa cataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag
5281 agtttacagt gtcagccaga aacgctcctg gagaagtttt attaaatcta gagttgggcc
5341 ctgatttaaa cccttattta gctcatttgt caaggatgta caatgggtat gctggtggag
5401 tggaagttca ggttctcctg gcagggaacg cgttcactgc cggaaagatc ctcttcgccg
5461 ccgtcccgcc aaatttccca gtggaattct taagcccagc ccagattact atgctcccac
5521 atttaatagt agatgtcagg actcttgaac caattatgat cccactccct gatgttcgga
5581 atacattctt ccattataac aatcagccca ccggccgtat gagattagtg gctatgctct
5641 atacccctct tagatctaat ggctcaggtg atgatgtctt tactgtttct tgcagggttt
5701 tgactaggcc cactcctgat tttcagttca cttatttagt gccaccttct gttgaatcta
5761 agaccaagcc ttttacctta cctattttaa ccctttctga gctcacaaat tcgaggttcc
5821 cagtccccat cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa
5881 atggcaggtg cacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca
5941 tctgtgcatt cagaggacgg gtgacagcag aacctagccg tagtgacagg tggcacatgc
6001 aactgcaaaa tctcaatggc acaacatatg acccaactga tgatgtgcca gccccgctgg
6061 gtacacctga cttcaagggc ttcgtgtttg gggtggcaag tcaaagaaat gtgggtagtg
6121 atgcgcctgg ctcaaccagg gctcatgagg tggtgatttc aacctatagt ccccaatttg
6181 tccccaaatt aggttctgtc aattttaaaa ttagcagtga tgatgatttc caattgcagc
6241 cgacaaaatt cacaccagtg gccatcaatg aagaagatga tgaccacccg ttcagacaat
6301 gggaactacc agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg
6361 cgccaaattt ccctggtgaa caattattat tcttcagatc ttttgtgcca tgcgcaggag
6421 gttataacca aggtattgta gattgtctta ttccccaaga atggatccaa catttctatc
6481 aggaatcagc gccctcccag tcagacgtgg ctctaatcag gtatgtcaac cccgacacgg
6541 ggcgcacact gtttgaagca aaattgcaca gatctggtta cattactgtg gctcactctg
6601 gagactatcc tcttgttgtt ccggctaatg gatactttag atttgattct tgggtaaatc
6661 agttttactc actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc
6721 tggagctttg attgcaggat tggcaggcga catgctcacg tcatctgtgg gctccctggt
6781 gaacgcaggg gcaaacgcca tcaaccaaag gatagatttt gaaaacaaca aacaactcca
6841 gtttgcttcc tttcagcatg ataaagagat gctccaagcg caggtgaagg caaccaagca
6901 gctgcaatct gaaatgatag ccataaaaca aggggtttta gccgcaggcg gcttttcccc
6961 cactgatgca gcaagggggg ccattggtgc acccatgaca aaggtgcttg attggtctgg
7021 cactcgatac tgggcaccca attccacaaa gacaactggt tattcgggac aattcacctc
7081 ttcacctgtg catatgccta gcccaaatgt tccacaatca aaacctgcaa agcctaggtc
7141 tatagctcct tcctcttctt ctagtagtgt ctatagcatg tctactcaat caactcatct
7201 aacatctggc tcctctagta atgcttcttc tgcctccaca aaattaacaa acttaagctc
7261 tggctcctct caaaacagaa cagtagagtg ggtgaaccaa cagaggagtc ttagcccttt
7321 catgagtggc gcactcaata tctcacatgt cacaccaccc tcaagtaggg cttccagttc
7381 tgggacggtc tcaaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac
7441 acacagacag ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa
7501 agaaataatt ggctataatg tgatttcttt aataaatttg gctaatttgt atcttttaaa
7561 aa
//