Typing tool
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Typing tool
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Complete norovirus genomes
| MH218642 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS MH218642 7524 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_173_08_05_2015, complete genome.
ACCESSION MH218642
VERSION MH218642.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7524)
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 7524)
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..7524
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_173_08_05_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="08-May-2015"
/note="genotype: GII.P7_GII.6"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17586.1"
/translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNIKVGFKK
ILGAVPKGTKAPSSDQHCPTVKIGTKTLTVPPEPPNGEDTVQFDVKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTEAQETSESEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17584.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPVLTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
AIDFKGTVFGVASQRDVSGQQVGATRAHEVHINTTDPRYTPKLGSILMYSESEDFVTG
QPVRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 6722..7498
/gene="ORF3"
CDS 6722..7498
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17585.1"
/translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHKSPAPSHAVSSKSRLQNDSVSVYSSPSSVSSQST
HSTVLSAGTGSSRSISTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
SSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtacc aacaccgccc cttccaataa agaagaggtt ggtgcattct ccaacatcaa
121 agtaggtttt aagaaaatac tgggtgctgt tcccaaggga accaaagcac ccagtagtga
181 tcagcactgc cccacagtta agatcgggac caagacatta acagttcccc ctgagccccc
241 aaatggtgaa gacaccgtac agtttgatgt gaagtcggaa actgtgcgtg ggctaccaga
301 cttgacaacg gtgcaaaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
361 aagggagcac agaccagcca ccgaaccgct tcctggcaca atattagaga tgtgggatgg
421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
541 cgtttacacc cccaactacc tggtctgtcc agacacgttg aaaggcctcg ctggtgagaa
601 gttcccctac acggccttca gcaacaattg ttacaacttc tgttgctggg tgcttgagct
661 caatgacacg tggcttagca ggagaagcat ctccaggacc accggcttct tcaaaccata
721 ccagtcttgg aataggaaac ccctcccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatt ctctgcgctc ttgggtcact gttttcaaaa ccaatcaagg acctattggg
841 caaacttaaa ccattgaact tgctgcactt actcgcatca tgtgattgga cgtttgcggg
901 tatagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
961 tgtttccagc ttcatagctt ccctaatagg tgattttgaa ttgcaagggc ctgaggacct
1021 ggctgtggag cttgtccccg tggtcatggg tggcatagga atggtcctcg gctttactgc
1081 tgagaagata ggccgcatgc tgtcgtcagc tgcatcaacg ctgcgggcat gcaaagactt
1141 ggggaattat gcccttgaca tattgaagct ggttatgaag tggttcttcc caaagaagga
1201 agagaaagcc gagatggaga ccctaagggc gattgaggat gccgtcctag acatggaagc
1261 tataggaaac aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
1321 gaagactctg gatctagaag aggagaaggc aaggaagctg tccaccaaat catcctcgcc
1381 agacatcgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
1441 acacaaggcc aaagaagaaa tgtttagcag gatcagacct gtggttgtca tgatctcggg
1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
1561 catgagcggt gaccagagag tagggctcgt cccacgcaac ggggtcgatc actgggacgc
1621 ctacagggga gagagggtgg tcttatggga tgattatggc atgggaaacc ctgtcaagga
1681 tgccctgaca ctgcaagagc tggctgacac ctgcccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacgacta atttagtcaa
1801 cccagcgccc ctcgattatg tgaacttcga ggcgtgctct agacgggtcg actttctggt
1861 ctatgcggag tcaccagaaa ttgagaaggt taagagagat tttcccggcc aacctgacat
1921 gtggaaagac cattttaagc cagacttttc ccacataaaa ctgactctag ccccacaggg
1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
2101 ccaggggaat gaccttcaaa catacaactt tgataccaac agggtctctg catttaggaa
2161 gctggccgca gacaacaagt acgggatcat ggagacaatg agagtgggca cagcgcttaa
2221 gagtgtcaag accttggaag atctgaaagt tgccctgagg gatgtgaaat tcaatgagtg
2281 tgagataatt tacaggaact ccaaatatcg agtctcttcc aatggtaaag gttctgtctc
2341 tgttgacaaa gttgaggacc aaacatccca gactgcaaac gaagtgggtg cagcactcct
2401 cagacttagg caggcaagag ccagatacta tgtcagctgc ttccaagatc ttgtctacac
2461 cctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaga gattctgctg
2521 ggagagatgg gtcaaaccaa ccgaggccca ggaaacgagt gaatccgaaa aggaagtagc
2581 ccaaggcaga tgggagattg aacccaagga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
2701 gtatgacgag tataagagaa ttagagaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg tgctcggttt ggtcactggc tcagacatca ggaagaggag
2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtggatta
3001 caacgagaga cttgatttcg aagctccccc gagtgtctgg tcaagaatag ttccattggg
3061 cactggctgg ggcttctggg tctcatccaa cctcctgatc acaacaacac acgtcctgcc
3121 taaggggatt aaggaacttt ttggagttga agtcaaacag atccaaattc ataagtctgg
3181 agagttctgc aggttcagat tcccgagacc aattagacca gatgtcacag ggctcgtgtt
3241 ggaggagggt gctccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
3301 gatgatccct ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
3361 cgtcggtggt cagatgggaa tgcttctcac aggggcaaat gcgaagaaca tggatcttgg
3421 caccggccct ggtgactgcg gttgtcctta catctacaaa cgtggcaatg atatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
3541 gcaagatggg gaggcagtcc ttgagggaaa tgagaacctt ggaacttact gcggtgcccc
3601 aattttgggt ccaggcaagg cgcccaaact tagcacaaag accaagttct ggcgttcatc
3661 accagacgct ctgccgccag gcacttatga gcctgcctac ttgggaggca aggaccctag
3721 agtagaaaaa ggaccatccc tgcagcaagt catgagagac cagctaaaac ctttcacaga
3781 acccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagaa caaactattg accctgctaa gccatggacc tactcccaag catgcgcctc
3901 actggacaag accacctcca gtggtagccc tcatcatgtc aggaaaaatg accattggaa
3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgagc tagtcaaaac
4081 tgacaagatc tataagaaga taaagaaaag gctcttgtgg gggtcggatc ttggtacaat
4141 gatcaggtgt gccagggctt ttggtggtct catggatagc atgaaggcaa gttgcataac
4201 cctcccatgt agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgaac cagagctggc
4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg actttgtcat
4441 ctcagtccag gagggtctgc cgtcaggggt cccatgcaca tcacaatgga attcaatagc
4501 acattggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaagttga cacagaaact cagagagtat ggtctagtcc ctactcgacc
4681 tgacaaaact gagggtcccc ttgtaataac tgaagacctc accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggatc cagctgggtg gtttggaaaa ttagaccaag actcaatcct
4801 caggcagttg tactggacaa ggggccccaa tcatgagaac ccatatgaga gcatggtccc
4861 ccattcccag cgggccacac agcttatggc ccttctcggt gaggcttcac tgcatggccc
4921 ccagttttat aagaaggtca gcaagatggt cattaacgaa atcaaaagtg gtggtctgga
4981 attctatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
5161 cacttgagcc ggtagtggga gcttcaatcg cagctcctgt cgtcggccaa caaaacataa
5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggtgagttc accgtctcgc
5281 cgaggaactc gcctggtgaa atgctattaa atcttgaatt aggcccagaa ctcaaccctt
5341 acctaagcca tctgtcccgt atgtataatg ggtatgctgg tggcatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgctgtg ccaccacatt
5461 tccccgtaga aaacatcagt gcagctcaaa taactatgtg cccccatgta attgttgatg
5521 tgagacaact tgagccagta ctcctacccc ttcctgacat aaggaatagg ttctttcatt
5581 acaatcagga ggacaccccc cggatgagac ttgtggctat gctttacact cccctgaggg
5641 ccaactctgg tgaagatgtg tttactgtct cttgtagggt cttgacccgt cctgcccctg
5701 attttgaatt cactttcttg gtaccaccaa ctgttgaatc aaagactaaa ccttttacac
5761 tacccgtatt aactcttggt gagctatcta attccagatt cccagcccca atagatatgt
5821 tgtacactga tccaaatgag ggaattgtgg tccaaccaca aaatggtagg tgcactcttg
5881 atggcacttt gcaaggcacc acacaactgg tccccaccca aatttgtgct ttcaggggca
5941 cactaattgg ccaaacatca agatcttcag actcaaccga ctcagcccct cggaggaggg
6001 atcacccact ccacgtgcaa ttaaagaacc ttgatggcac gcagtatgac cctactgatg
6061 aagtgccagc agtccttggt gccattgatt tcaaggggac tgtctttggg gtggccagtc
6121 agagagacgt gtcaggacaa caagtgggag caactcgagc ccatgaagtg cacatcaaca
6181 caaccgatcc taggtataca ccaaaactgg ggtccattct catgtactca gagtcggaag
6241 actttgtgac tggacagccg gtccgcttca cacccatagg aatgggtgac aacgactggc
6301 atcagtggga gctgcccgac tattctggac acctaaccct aaacatgaac ctcgccccag
6361 cagttgctcc tgcattcccg ggtgagagga ttcttttctt caggtcaatt gtcccgtctg
6421 ctggtggcta cggctctggg caaatagact gcctcatacc acaggagtgg gttcagcatt
6481 tctaccaaga agctgcacca tcccaatctg ccgtggcact cattaggtat gtcaaccctg
6541 acacaggcag aaacatcttt gaggctaaat tgcacaggga aggtttcatc accgtggcta
6601 attctggcaa caaccctatt gttgtccccc ctaatgggta ttttaggttt gaggcttggg
6661 tgaatcaatt ttacactttg acccccatgg gaactggtca ggggcgtagg aggaatcaat
6721 aatggctagt gcttttcttg caggtcttgc tggtgacgtc ataacaaatg gcgttggatc
6781 tctaataaat gctggagcta atgcagttaa tcagaaagtt gaatatgatt ttaataaaca
6841 gcttcaaatg gcatcattta aacatgataa agagatgtta caatcacaag tgttggcaac
6901 caagcagttg cagcaggaga tgatgaacat taggcagggg gtgttgaccg ctggcggctt
6961 ctcccccgcg gatgctgcta gaggggctgt caatgcccca atgacaaaga ttctggactg
7021 gaatggcacc aggtattggg caccaaacag catgaaaacc acaagttatt caggacagtt
7081 ctctagcagc cctgttcata agtcccctgc tccttcccat gctgtttcat caaagagtag
7141 attgcaaaat gattctgtta gtgtatatag ttccccttct tctgtttctt cacaatcaac
7201 ccattcaaca gtgctgtcag caggaactgg gtcttccagg tccatctcca catctacagc
7261 tacccccacc ttgtctagaa ccagcgactg ggttagggga cagaatgaga ggcttagccc
7321 gtttatggat ggtgctctcc aaactgcctt tgtcacacct ccatcgagca aagcttcttc
7381 aaatggtacg gtctcaaccg ttcccaaagc tgttttggac tcctggaccc ctatgtttaa
7441 cacacatagg cagcctctct tcgcccatct gcgcaggcga ggggagtcac aagtttagtg
7501 aaaagagtga ttaggttttt cttc
//