Typing tool
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Typing tool
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Complete norovirus genomes
| MH218687 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS MH218687 7546 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_229_12_01_2016, complete genome.
ACCESSION MH218687
VERSION MH218687.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7546)
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 7546)
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..7546
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_229_12_01_2016"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="12-Jan-2016"
/note="genotype: GII.P7_GII.6"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17721.1"
/translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGTKTLTVPPEPPNGEDIVQFDAKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVHPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRKSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAERIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKKDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQASQTANEVGAAL
LRLRQARARYYVSCFQDLIYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
EVAQGRWEVEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLLYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17719.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFQFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGGSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6722..7498
/gene="ORF3"
CDS 6722..7498
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17720.1"
/translation="MAGAFLAGLAGDAITNGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLSRSDSPKIKANSDSASVYSSASTVSSQST
HSTALTAESKPSRPTSSSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta atgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtacc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
181 tcaacactgc cccacagtta agattgggac caaaacatta acagttcccc ctgagccccc
241 aaatggtgaa gacatcgtac agtttgatgc gaagtcggaa actgtgcgtg ggctaccaga
301 tttgacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccctc cattgagtga
361 aagggagcac agaccagcca ctgagccgct tcctggcaca atactggaga tgtgggatgg
421 tgaattctac cattactccg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
481 ccctgcggca ataagcctcg cgacgataga actcacaccc atatctcttt attggaggcc
541 cgtttacact cccaactatc tggttcaccc agatacgttg aaaggccttg ctggtgagaa
601 gttcccctac acggctttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
661 caatgataca tggctcagca ggaagagcat ctccaggacc accggtttct tcaaaccata
721 tcagtcttgg aacaggaagc cccttccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatt ctctgcgcac ttggatcact attttcaaaa ccaatcaagg acttattggg
841 taaacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
901 tatagtagag acagttatcc taatggcgga acttttcaac atcttttgga caccgccaga
961 tgtttccagc ttcatagcct ccctgatagg tgattttgaa ttgcaggggc ctgaggacct
1021 ggctgtggag cttgtccctg tggtcatggg tggcatagga atggttctcg gcttcactgc
1081 tgagaggata ggccgcatgt tgtcgtccgc cgcatcaaca ctacgggcat gtaaagattt
1141 ggggaattac gcccttgaca tactgaaact ggttatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccttaagggc gatcgaggat gccgtcctgg acatggaagc
1261 cataggaaac aaccacctca caaccctcct caaggacaag gatagcctca cggccttcat
1321 gaagactctg gatctagaag aggagaaggc aaggaaactg tccaccaagt catcctcgcc
1381 agacatcgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
1441 acataaggct aaagaagaga tgtttagcag gatcagaccc gtggtcgtca tgatctcggg
1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaatac
1561 catgagcggc gaccagagag tggggctggt cccacgcaat ggggtcgacc actgggacgc
1621 ctacagggga gagagggtgg ttttatggga cgattatggc atgggaaacc ctgtcaaaga
1681 tgccctaaca ctgcaagagt tggctgacac ctgcccagta accctaaact gtgacaggat
1741 tgagaacaag ggaaagatgt tcgacagtga tgtcatcata atcacaacca atctagtcaa
1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
1861 atatgcagag tcaccagaaa ttgagaaggt taagaaagac ttccccggcc aacctgacat
1921 gtggaaggac cattttaagc cagacttctc ccacataaaa ctgaccctag ccccacaggg
1981 cgggtttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccttaaccca
2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag agaagagacg agtttcagct
2101 ccaggggaac gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
2161 gctggccgca gacaacaagt atgggatcat ggagacaatg agagtgggca cggcgcttaa
2221 gagtgtcaag accttggaag atctgaaagt cgccctgagg gatgtgaagt tcaatgagtg
2281 tgagataatc tacaggaact ccaaataccg agtctcttcc aatggtaaag gctctgtctc
2341 tgttgacaaa gttgaggacc aagcatccca gactgcaaac gaagtgggtg cagcactcct
2401 cagacttagg caggcaagag ctagatacta tgtcagctgc ttccaagatc tcatctacac
2461 tctaatacag gtcgctggag catcattcgt tgtcaacagg atctctaaaa ggttctgttg
2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaatccgaaa aggaagtggc
2581 ccaaggtaga tgggaagttg aacccaagga cacagagcca gaaggtaaga agggtaaaaa
2641 caagaaggga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgacgagga
2701 gtatgatgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcaa cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaacgaatc ttccgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg ttcttggttt ggtcactggc tcagacatca ggaagaggag
2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtagacta
3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
3061 cactggctgg ggcttttggg tctcatccaa cctcctaatc acaacaacac acgtccttcc
3121 taaggggatt aaggaacttt ttggagtcga aatcaagcag attcaaattc acaagtctgg
3181 agagttctgc aggttcaggt tcccgagacc aatcagacca gatgtcacag ggctcgtgtt
3241 ggaggaaggt gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
3301 gatgatcccc ctggcagtga ggatgggcac gcacgcatcc atgaaaatac agggtagaac
3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggaccttgg
3421 caccggtcct ggtgactgcg gttgtcctta catctacaaa cgtggcaacg atatagttgt
3481 cgcgggtgtc cacaccgcgg cagcccgggg tggcaacact gtcatatgtg ccactcaagg
3541 gcaagatggg gaggcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
3601 aattttgggt ccaggcaaag cgcccaaact tagcacgaag accaagttct ggcgttcatc
3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggca aagaccccag
3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagttaaagc ccttcacaga
3781 acccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagaa caaaccattg accctgctaa gccatggacc tattcccaag catgtgcctc
3901 actggacaag accacctcca gcggtagccc ccatcatgtc aggaaaaatg accattggaa
3961 tggtgaatcc ttcacaggcc cccttgcaga ccaagcatcc aaagccaacc tcttgtacga
4021 acaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgagt tagttaagac
4081 tgacaagatc tacaaaaaga taaagaaaag gctcttatgg gggtcggacc ttggtacaat
4141 gatcagatgt gccagggcct tcggcggcct catggatagc atgaaggcaa gctgcataac
4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
4261 ttctaaatat aggtaccact atgatgctga ctattcaagg tgggactcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgagc cagagctggc
4381 acaagtggtt gcagaggacc tcctagcacc cagccaactg gatgttggcg actttgtcat
4441 ctcagtccag gagggtctgc catcaggggt cccatgtaca tcacaatgga attcaatagc
4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cggatgttgt
4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaagttga cacagaaact cagagaatat ggcctggtcc ccacccgacc
4681 tgacaaaact gagggtcccc tcgtaataac tgaagacctc accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag actcaatcct
4801 cagacagttg tactggacaa ggggccccaa ccatgagaac ccatatgaga gcatggtccc
4861 tcactcccag cgggccacac agctcatggc ccttctcggt gaggcttcac tgcatggccc
4921 ccagttttac aagaaggtta gcaagatggt catcaatgaa atcaaaagtg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaccaat gaggttatgg
5161 cacttgagcc ggtggtggga gcctcaatag ctgctcctgt tgtcggccaa caaaatataa
5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
5281 caaggaactc acctggtgag atgcttctaa accttgaatt aggccctgag ctcaaccctt
5341 acctgagtca tttgtcccgc atgtataatg gctatgctgg tggtatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt tgccgccgtc ccaccacatt
5461 tccctgttga gaatattagt gcagcccaaa ttacaatgtg cccccatgta attgttgatg
5521 ttagacagct tgagccagtg cttttgcccc tccctgacat aaggaataga ttctttcatt
5581 ataatcagga aaacactccc cgaatgagac ttgtggctat gttgtacaca cctcttagag
5641 caaattctgg tgaggatgtg ttcacagtgt cttgcagagt cctgacccgc ccagcccctg
5701 acttccagtt cacatttttg gtaccaccaa ctgtggagtc aaagactaag ccctttacac
5761 tccctatctt gactcttgga gagctgtcca actccagatt ccccgctccg atagacatgt
5821 tgtatactga tcccaatgag gcaattgtgg tacaaccaca aaatggcagg tgcactctag
5881 atggaacact tcaagggacc acccagctgg tgcccaccca aatttgctcc tttaggggca
5941 cgctgattag ccagacgtcg aggtccgcag attcaacaga ttcagcccca cgggtgagga
6001 accaccctct ccacgtacag ctgaagaacc tcgatgggac accatatgat ccaacagatg
6061 aggtgccggc agttctgggc gctatagatt ttaaaggaac tgtgtttggg gtcgctagtc
6121 aaaggaacac cacagggggc tctataggag cgacccgcgc ccatgaagtg cacatagaca
6181 ctacaaaccc tagatacacc ccaaagcttg gctctgtact gatgtattct gaatccactg
6241 attttgatga cggacaaccc acccgcttca cccccattgg tatgggagcc gatgattggc
6301 accaatggga attgcccgaa tattctggtc accttactct taatatgaac ctggcccccg
6361 cagttgcccc tgctttcccc ggtgagcgca ttctcttctt cagatcagtg gtgccgtctg
6421 ctggcggcta tgggtcaggt cacatagatt gcctcatccc acaggaatgg gttcagcatt
6481 tctaccaaga ggccgctcca tcacagtctg cggtggctct tattagatat gtcaaccctg
6541 acactgggag gaacatcttt gaggcaaaat tgcatagaga agggttcatc actgtagcaa
6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
6661 tcaatcaatt ctacacactc acccccatgg gaactggaca ggggcgcaga agagttcaat
6721 aatggcagga gctttcttag ctggattggc aggtgacgcc ataacaaatg gtgtcgggtc
6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgatt tcaataaaca
6841 gctccaattg gcatccttca aacatgataa agagatgttg caatcacaag tactggccac
6901 taaacagctc cagcaggaaa tgatgaatat aaggcaaggg gtcttgtccg ctggcggctt
6961 ttcccctaca gatgccgcga gaggtgccgt aaacgcgccg atgacaaaaa ttttggattg
7021 gaatggaaca aggtatttcg ccccaaatag catgaagaca accagttatt cgggccagtt
7081 ttccagtaat cctgtgcata ggcaacccac tttgtcccgt tctgactccc ccaaaattaa
7141 ggctaatagt gattctgcta gtgtttatag ttctgcatct actgtttcct cacaatcaac
7201 tcactcaacg gctttgactg cggagtctaa accatctagg ccaacatcct cttccacagc
7261 aacttctact ctatctagaa ctagtgactg ggtgagaggg caaaatgaga ggcttagccc
7321 gtttatggat ggtgctctcc aaacaacttt tgtcacacca ccatcgagca aggcttcatc
7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
7441 cacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
7501 aaaagattga ttaggttttc tttctctttt cttttccttt tctttc
//