Typing tool
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Typing tool
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Complete norovirus genomes
| MH218641 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS MH218641 7550 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_172_02_04_2015, complete genome.
ACCESSION MH218641
VERSION MH218641.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7550)
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 7550)
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..7550
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_172_02_04_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="02-Apr-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="AWR17583.1"
/translation="MKMASNDATTAFGSQNSVNDSINTTPSSKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVLGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPSYLVCPDTLKGLAGERFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYSERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRNILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17581.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGGSIGATRAHEVHIDTKNPRYTPKLGSVLMHSESTDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6722..7498
/gene="ORF3"
CDS 6722..7498
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17582.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPSSMKTTSYSGQFSSNPVHRQPTLPRSDSPKTKVNSDSASVYSSASTAPSQST
HSTALTAGSSSSRTTSYSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSHGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta atgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtatc aacaccaccc cttctagtaa agaagaggtt ggtgcattct ccaacatcaa
121 agttggtttt aagaaaatgc tgggtgctgt tcccaagggg accaaagcac ccagtagtga
181 tcagcactgc ccctcagtta aaatcgggac caagacatta acagttcctc ctgagccccc
241 aaatggtgaa gacactgtgc agtttgatgc gaagtcggaa actgtgctcg ggctaccaga
301 cttgacaaca gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
361 aagggagcac agaccagcca ctgaaccgct tcctggcaca atactggaga tgtgggatgg
421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt actggaggcc
541 tgtttacacc cccagctatc tggtctgtcc agacacgttg aagggccttg ctggtgagag
601 gttcccctac acggccttca gcaacaattg ttacaacttt tgttgctggg tgcttgagct
661 caatgacacg tggcttagca ggagaagcat ctctaggact accggcttct tcaaaccata
721 tcagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca agaaggtggc
781 caacgcaatt ctctgcgcac ttggatcact gttttcaaaa ccaatcaagg acctattggg
841 caaacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
901 catagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
961 tgtttccaat ttcatagcct ccctgatagg tgattttgaa ctgcaagggc ctgaggacct
1021 ggctgtggag cttgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctacgggcat gtaaagactt
1141 ggggaattat gcccttgaca tattgaagct ggttatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccctaagggc gattgaagat gccgtcctgg acatggaagc
1261 cataggaaac aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
1321 gaagactcta gatctagaag aggagaaggc aaggaagcta tccaccaaat catcctcgcc
1381 agacatcgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
1441 gcacaaggct aaagaagaaa tgtttagcag gatcagaccc gtggttgtca tgatctcggg
1501 tagacctggc ataggcaaaa cccacatggc aagacacttg gctaagagta tcgccaatac
1561 catgagcggc gaccagagag taggactcgt cccacgcaac ggggtcgatc attgggacgc
1621 ctacagggga gagagggtgg tcttatggga tgattatggc atgggaaacc ctgttaaaga
1681 tgccctaaca cttcaagagt tggccgacac gtgtccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt ttgacagcga tgtcatcata atcacgacca atttagtcaa
1801 tccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaaggatcg actttctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt caagagagat ttccccggcc aacctgacat
1921 gtggaaggac cattttaagt cagatttttc ccacataaaa ctgactctgg ccccacaggg
1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccttaaccca
2041 ggggtccctg actgcaaggg ttgcgggtct tgttcatgag aggagagacg agtttcagct
2101 ccaggggaac gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
2221 gagtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
2281 tgagataatt tacagaaact ccaaataccg agtctcttcc aatggtaaag gttctgtttc
2341 tgttgacaaa gtcgaagacc aaacatccca gactgcaaac gaagtgggtg cagcacttct
2401 tagactcagg caggcaagag ccaggtacta tgtcagctgc ttccaagatc tcgtttacac
2461 tctaatacag gtcgccggag catcattcgt cgtcaacagg atctctaaaa ggttctgctg
2521 ggagagatgg gtcaaaccaa ccgagactca ggaaacgagt gaatccgaaa aggaagtggc
2581 ccaaggcaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
2701 gtatgacgag ttcaagagaa tcagagaaga aaggaatggt aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtc gcccgggcaa cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag gcaaagaatc tttcgtccca caaagaaaca
2881 gaggaaggaa gaaaggggag tacttggttt ggtcactggc tcagacatca ggaagagaag
2941 accagacgat tttcaaccga agggtaacct gtgggcagac gacacaagga gtgtggacta
3001 cagcgagaga cttgactttg aggctccccc gagtgtctgg tcgagaatag tcccattggg
3061 cactggttgg ggtttctggg tctcatcaaa cctcctgatc acaacaacgc acgtcctgcc
3121 taaggggatt aaggaacttt ttggagttga aatcaaacag attcaaattc ataagtctgg
3181 agagttctgc aggttcagat tcccgagacc aatcagacca gatgtcacgg ggctcgtgtt
3241 ggaggaaggc gccccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
3301 gatgatcccc ctggcagtga ggatgggcac gcacgcatcc atgaaaattc agggtaggac
3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggatcttgg
3421 caccggtcct ggtgactgcg gttgtcctta catctacaaa cgtggcaatg atatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gttatatgtg ccactcaagg
3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
3601 aatcttgggt ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgctcatc
3661 accagacgct ttgccgccag gcacctatga gcctgcctac ttgggaggta aggaccccag
3721 agtagaaaaa gggccatccc tgcagcaagt tatgagggac cagctaaaac ctttcacaga
3781 acccaggggc aagccaccta gacctgcagt cttagaagag gccaaaaaga cagtgatgaa
3841 tgtcctagaa caaaccattg accctgctaa gccgtggacc tattcccaag catgtgcctc
3901 actggacaag accacttcca gtggtagccc ccatcatgtc aagaaaaatg accattggaa
3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactt aaagatgaat tagtcaaaac
4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gttgcatagc
4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
4261 ttctaagtat aggtatcatt atgatgctga ctattccagg tgggactcaa ctcagcaaag
4321 gaacatcctc tcggccgcta tggaggtgat ggtgcggttc tctgctgagc cagagctggc
4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggtg attttgtcat
4441 ctcagtccag gagggtctgc catcaggggt tccatgcaca tcacaatgga attcaatagc
4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
4561 tcaagcccac tcctgtttct cattttacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaaattga cacagaaact cagagagtat ggcctggtcc ccactcgacc
4681 tgacaaaact gagggtcccc ttgtgataac tgaagatctt accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag actcaatcct
4801 cagacagttg tactggacaa ggggccccaa tcatgagaac ccatatgaga gtatggtccc
4861 tcattcccag cgggccacac agctcatggc acttctcggt gaggcttcac tgcatggccc
4921 ccagttttac aagaaggtta gcaagatggt catcaatgag atcaaaagtg gtggtctgga
4981 attctatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaccaat gaggttatgg
5161 cacttgagcc ggtggtggga gcctcaatcg ctgctcctgt cgtcggccaa caaaatataa
5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttc accgtttcac
5281 caaggaactc acctggtgag atgcttctga atcttgaatt aggccctgag ctcaacccct
5341 atctgagtca tttgtcccgc atgtataacg gctatgctgg tggtatgcag gttcaggtgg
5401 tcctagctgg gaacgcgttc acagctggta aaatcatctt tgccgccgtt ccgccacatt
5461 tccctgttga gaacattagt gcagcccaaa ttacaatgtg ccctcatgta attgttgatg
5521 taagacagct tgagccagtg cttttgcccc tccccgatat aaggaacaga ttcttccatt
5581 ataatcagga aaatacctcc cggatgagac ttgtggctat gttgtacaca ccccttagag
5641 ctaattctgg cgaggatgtg ttcacggtgt cttgcagagt tctgacccgt cctgcccccg
5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccttttacac
5761 tccctattct aactcttgga gagctgtcca attccagatt ccccgctccg atagatatgt
5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactcttg
5881 atggaacact tcaagggacc acccagctgg tacccaccca aatttgctcc ttcaggggca
5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatacgac ccaacagatg
6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagtc
6121 aaagaaacac cacagggggc tctataggag caacccgcgc ccatgaagtg cacatagaca
6181 ccaaaaaccc tagatacacc ccaaagcttg gctctgtgtt gatgcactct gaatctactg
6241 attttgatga tggacaaccc acccgcttta cccccattgg catgggagcc gatgattggc
6301 accaatggga attgcccgaa tattctggtc accttaccct taacatgaac ttggctcccg
6361 cagttgctcc tgctttccct ggtgagcgca ttctcttctt cagatcagta gtgccgtctg
6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggaatgg gtccagcatt
6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcaggtat gtcaaccctg
6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcta
6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
6661 tcaatcaatt ctacacactc acccccatgg gaactgggca ggggcgcaga agagttcaat
6721 aatggcagga gctttcttag caggattggc aggtgacgcc ataacaagtg gtgtcgggtc
6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
6841 gctccaattg gcatccttca agcatgacaa agagatgttg cagtcacaag tactggccac
6901 taaacagctc cagcaggaaa tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcgccg atgacaaaaa ttttggattg
7021 gaatggaaca aggtacttcg ccccaagtag tatgaagaca accagttatt cgggccagtt
7081 ttccagtaac cctgtacata ggcaacccac tttacctcgt tctgattccc caaaaaccaa
7141 ggttaatagt gattctgcta gtgtgtatag ttctgcatct actgctcctt cacaatcaac
7201 ccactcaacg gctctgactg cggggtctag ctcatctagg acaacatcct attctgcagt
7261 agcttccact ctatctagga ctagtgactg ggtgagggga caaaatgaga ggcttagccc
7321 gtttatggat ggcgctctcc aaacaacttt tgtcacgcca ccatcgagca aggcttcatc
7381 acatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
7501 aaaagattga ttaggttttc tttctttctt cttttccttt tctttctttt
//