Typing tool
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Typing tool
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Complete norovirus genomes
| MH218692 | GII.7 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS MH218692 7502 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_236_29_01_2016, complete genome.
ACCESSION MH218692
VERSION MH218692.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7502)
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 7502)
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..7502
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_236_29_01_2016"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom"
/collection_date="29-Jan-2016"
/note="genotype: GII.P7_GII.7"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17736.1"
/translation="MKMASNDATAALGSQKSANDSNNATPSNKEEVGTFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTIDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGMVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYKSSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTEAQEVNEFEK
EAAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17734.1"
/translation="MKMASNDAAPSTDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDNSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6701..7474
/gene="ORF3"
CDS 6701..7474
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17735.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNNQSRQPLKVDSPPPSSSSSSVSSVKTQ
STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMEGALQTTYVTPPSSRAS
SISTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgctgccctt ggcagtcaaa aatctgccaa
61 tgacagtaat aatgccaccc cttctaacaa agaagaggtt ggtacattct ccaacattaa
121 agttggattc aagaaaatgc tgggtgccgt acccaaaggt accaaagcac ccagcagtga
181 tcagcattgc cccacagtta agatcggacc taaaacatta acaatccccc ctgaaccccc
241 aaacggtgag gataccgtac aatttgatgc aaagtcagaa actataattg ggctaccgga
301 cttgacaacg gtgcaaaacg aacacgaaaa tactccatac actgtccccc cattaagtga
361 gagggagcac aggccggcca ctgaaccact tcctggcaca atattggaga tgtgggatgg
421 tgagttttac cattactccg tgtacgtcag cgatggcaaa gctctgggag ttcacaaacc
481 accggcggct ataagtctcg cgacgataga gctcaccccc atatcactct actggagacc
541 cgtctacacc cccaactact tggtctcccc agacacatta aagggccttg ctggtgagaa
601 gttcccctac acggccttta gcaacaactg ttacaacttc tgttgttggg tgcttgagct
661 caacgacact tggcttaaca gaagatgcat ctccagaact accggcttct ttaaaccata
721 ccagtcttgg aataggaaac ctctcccaac tatcgatgat ggaaagatta aaaaggtggc
781 caacgcgatc ctctgcgcac tcggctcgct gttctcaaaa ccaatcaaag atctattagg
841 caaactcaag ccattgaatc tactacactt gctcgcgtct tgtgattgga cgtttgcggg
901 tatggtggag acagtcatct taatggcgga gcttttcaat gtcttctgga ctccgccaga
961 tgtctccaat ttcatagcct ccttgatagg tgattttgaa ttgcaagggc ctgaagattt
1021 ggctgtggag ctcgttcccg tggttatggg tggcataggg atggttctcg gcttcaccgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
1141 agggaactat gcccttgaca tactcaaatt agtcatgaaa tggttcttcc caaagaagga
1201 ggagaaagct gagatggaga ccttgagggc gattgaagat gctgtccttg atatggaagc
1261 tatagggaat aaccacctca caaccctcct caaggacaaa gacagcctca cagctttcat
1321 gaaaaccttg gatctagaag aggagaaggc gaggaaactg tccactaaat catcttcgcc
1381 ggacatagtc ggcaccatta acgccatact agctaggata gctgctgcta ggtccctact
1441 acataaggcc aaagaggaga tgttcagcag gatcagacca gtagtcgtca tgatctcagg
1501 cagacctggc attggaaaaa cccacatggc gagacacttg gctaagagca tcgccaacac
1561 catgagtggc gatcagagag tcggactcgt cccacgcaat ggtgtcgatc actgggacgc
1621 ctacagggga gagagagtgg tcttgtggga tgactacggt atggggagcc ctgttaaaga
1681 cgccctgaca ctgcaagaat tggccgatac gtgtccagtc actttaaatt gtgataggat
1741 cgagaataag gggaagatgt ttgatagtga tgtcatcata atcacgacca acctagtcaa
1801 ccccgcgccc ctcgactatg tgaacttcga ggcgtgttcc aggagagttg atttcctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt caagagagat ttccctggcc agcctgacat
1921 gtggaaagat catttcaagc cagacttttc ccacattaag ctgactctag cccctcaggg
1981 cggttttgac aaaaatggca acaccccaca cggtaagggc accatgcggt ccttgaccca
2041 ggggtcccta actgcgagag ttgcaggcct tgtccatgag aggagggatg agttccagct
2101 ccaaggaaat gacctccaaa catacaattt tgacaccaac agagtctccg catttaggaa
2161 attggccgca gacaacaagt atgggatcat ggagacgatg agagttggca cagcactcaa
2221 gagtgtgaag accttggaag atctcaaagt tgcattgagg gatgtaaaat tcaatgagtg
2281 tgaaataatt tacaagagct ctaagtaccg agtctcttcc aacggtaaag gctcagtctc
2341 tgttgacaaa gttgaagaca atgcttccca gactgtgaac gaggtacact cagcactcct
2401 cagactcagg caggcaaggg ccagatacta catcagctgc ttccaagacc tcgtctacac
2461 tcttatacag gttgccgggg catcatttgt tgtcagtagg atctccagaa ggttctgctg
2521 ggaaaggtgg gtcaaaccga ccgaggccca ggaggtgaat gagttcgaaa aggaagcggc
2581 ccaaggtaga tgggaaattg agcccaagga cacagaacca gaaggcaaga agggtaagaa
2641 caagaaagga aggggcaaga aacacacagc cttctctagc aaaggtctga gtgatgaaga
2701 gtatgacgag ttcaagagga tcagggaaga aagaaatgga aagtactcca ttgaggaata
2761 cctgcaggac cgagaccgct attatgaaga agtagcagtt gctcgggcaa cagaggagga
2821 cttctgtgaa gaggaagagg ccaagataag acaaaggatt ttccgcccga caaggaaaca
2881 gaggaaggag gaaaggggcg tgcttggctt ggtcaccggc tcagacatca gaaagaggag
2941 accagacgat ttccaaccaa aaggtaacct gtgggcagac gacaccagaa gtgtagacta
3001 caatgaaagg cttgattttg aagcaccccc gagtgtctgg tcaagaatag tcccattagg
3061 cactggttgg gggttttggg tttcatccaa ccttttgatc acaacaacac acgtcctgcc
3121 taaagggatt aaggaactct ttggagttga aatcaaacaa attcaaattc ataaatctgg
3181 agagttttgc aggtttagat tcccaagacc tatcaggcca gatgttacag gactcgtgct
3241 ggaggagggc gccccagagg gcactgtctg ttctgtactc gtgaaaagac ccacaggtga
3301 aatgatcccc cttgcagtga ggatgggcac acacgcatcc atgaaaatac agggcaggac
3361 cgttggtggc cagatgggaa tgcttctcac aggagcaaac gcaaagaaca tggatcttgg
3421 caccggccct ggtgactgcg gttgccccta catctacaaa cgtggcaacg acattgttgt
3481 tgcgggcgtc cacaccgcag cagcccgggg aggcaacact gtaatatgtg ccacccaagg
3541 gcaagatggg gaagcagtcc ttgagggaaa tgaggatctt ggtacctact gtggtgcccc
3601 aattctgggc cctggtaagg cgcctaaact cagcacgaag accaagttct ggcgctcatc
3661 accagatgcc ctgccacctg gcacatatga acctgcttac ctaggaggca aagaccctag
3721 agtggaaaaa ggcccctccc tgcaacaagt catgagagac cagttgaggc cctttacaga
3781 acccagaggc aagccaccta gacctgcaat cttagaggaa gccaaaaaga cagtgatgaa
3841 tgttctagag caaaccattg accctgccaa gccatggtcc tattcgcagg catgtgcctc
3901 attggacaaa actacctcta gtggtagtcc ccaccacgtt aagaaaaatg accactggaa
3961 tggggagtcc ttcactggtc cccttgcgga tcaggcttct aaagccaacc tcatgtatga
4021 gcaggccaaa catatgcagc ccgtgtatac ggccgcactt aaagatgagc ttgttaagac
4081 tgataagatc tacaagaaga taaagaagag gcttctatgg gggtcagacc ttggcacaat
4141 gatcaggtgc gccagggctt ttggtggtct catggacagc atgaaggcaa gttgtatagc
4201 tcttccttgc agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacaaag
4321 gagcattctc tctgccgcta tggaagtgat ggtgcggttt tctgctgaac cagaattggc
4381 acaagtggtt gcagaggacc ttttggcacc tagccagctt gatgttggcg actttgtcat
4441 ctcagttcag gagggcctgc catcaggagt cccatgcaca tcacaatgga attcaatagc
4501 gcactggata ctcactttga gtgcgatggc agaagtgtca ggtctctcac cagatgttgt
4561 tcaagctcac tcttgttttt cattttatgg ggacgatgag atcgtcagca ctgatatcaa
4621 ccttgacccc atgaagttaa cacaaaaact cagggagtat ggcctggttc ccacccggcc
4681 tgacaaaact gaaggtcccc tcgtcataac tgaagacctc actggcctga cgttccttcg
4741 taggtcgatt gctcgggacc cagctggctg gtttggaaaa ctagaccaag attcaatcct
4801 caggcaactg tactggacaa gggggcctaa ccatgagaac ccgtacgaga gcatggttcc
4861 tcattcccag cgggccacac aactcatggc ccttcttggt gaggcctcgt tgcatggtcc
4921 tcaattttac aagaaagtta gcaaaatggt catcaatgaa attaagagtg gtggtctgga
4981 gttttacgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
5041 gtgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 cagccccatc tactgatggt gcagcaggcc tcgtaccaga gatcaacaat gaggtcatgc
5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
5221 ttgatccctg gataagaaat aattttgtac aggctcctgc aggtgagttt acagtttccc
5281 ctagaaattc ccctggtgag attttgcttg atttggagtt ggggccagaa ctgaacccct
5341 atctcgctca tctggcccgt atgtacaatg ggcacgctgg tggcatggaa gtgcaaattg
5401 tgctggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cccccagggt
5461 tcccatatga aaatttgtca ccttcacaga tcacaatgtg ccctcatgtt ataattgatg
5521 ttagacaatt agaaccagtt ctattaccta tgccagatat tagaaataac ttcttccatt
5581 acaatcaggg caatgacccg aaattgagat tgatagctat gctctatacc cctctaaggg
5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggtcctcact aaaccgtcac
5701 ctgattttga attcacattt ttggtccccc ctacggttga atctaagacc aaacagttca
5761 cattgcccat cctcaaaata tcagagatga ccaactcaag atttccagtg ccagtggaaa
5821 tgatgtatac agccaggaat gagaaccaag ttgtgcaacc acagaatggt agggtcacac
5881 ttgatggtga actattaggc accacaccct tgctggctgt caacatctgc aagttcaagg
5941 gggaggttat tgctaagaat ggagatgtga gatcctatag gatggacatg gaaattacca
6001 acactgatgg cactccaatt gaccccacgg aagacacacc tggtcccatt ggttcacctg
6061 actttcaagg tatacttttt ggcgttgcca gccaacgcaa caagaatgaa caaaaccccg
6121 ccacgagagc ccatgaagcc aacattaata ctggtgggga ccaatatgcc cccaaattgg
6181 cccaagtgaa attcttttca gagtcccagg atttcgaggt gcaccagccc acagttttca
6241 ccccagttgg tgtggcaggc gacaactccc accctttcag acagtgggtc ctgcctcgat
6301 acggcggaca tctcaccaac aacacccact tggctccagc ggtggccccc ctgtttccag
6361 gtgagcagat tctgttcttt agatcacaaa tacccagctc aggcggccat gaattgggct
6421 acatggactg ccttgtccca caagaatggg tccaacactt ctatcaagaa gctgccacag
6481 ctcagtctga agtggcactc ataaggttca ttaacccaga cactggcaga gtcctctttg
6541 aggccaagtt acacaagcaa ggctttataa ctgtggctca tactggtgat aacccaattg
6601 tcatgccacc aaatgggtac ttcagatttg aagcctgggt caatcagttt tactcactcg
6661 cccccgtggg aactgggaat gggcgcagga ggatccaata atggctagtg ctttctttgc
6721 aaatttggca ggaggcgttg cctccaatgg aattagttca cttataaatg ctggggctaa
6781 tgctattaac caaaaggttg agtttgatta taataaacaa ctccaaaatg catccttctc
6841 tcatgataaa gaaatgctcc aagctcaaat tgaagccacc aaacgtctgc aacaagagat
6901 gattgacata aaacaagggg tgctgacagc tgcgggattc tctcccacgg atgccgcgag
6961 gggttcagtc ggcgcaccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
7021 acctggtgcc atgaggacaa ctggctattc agggactttt actcatttgc cccctgtgca
7081 gtctgcttca tatgtcaaca atcaaagtag acaacctctt aaagtagatt ctcctcctcc
7141 ttcttcgagt agttcttctg tttcttctgt taaaacacaa tcaactaccc tctcaggcac
7201 ctcaagggtg ggctcatcat ctcagtcgac cctgtcgacc aggccgagca caaggacatc
7261 tgattgggtg cgcagccaga atgaaaggtt gagtcccttc atggaaggag cgttgcaaac
7321 aacgtatgta acgccaccat ccagtagggc atcaagtatc agcacagtct cgaccgtgcc
7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cactcttcgc
7441 ccatttgcgt aggcgagggg agtcacagat ttagtgaaaa gattggttag gaaagttgat
7501 ta
//