Typing tool
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Typing tool
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Complete norovirus genomes
| MH218658 | GII.7 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS MH218658 7542 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_197_04_11_2015, complete genome.
ACCESSION MH218658
VERSION MH218658.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7542)
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 7542)
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..7542
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_197_04_11_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="04-Nov-2015"
/note="genotype: GII.P7_GII.7"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17634.1"
/translation="MKMASNDATAAFGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSGQHCPTAKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFVASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN
VKTLEDLKIALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDSASQTVNEVQSAI
LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNESEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQVQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQIMRDQLRPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17632.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDTSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6701..7474
/gene="ORF3"
CDS 6701..7474
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17633.1"
/translation="MASAFLANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNNQNRQPLKVDSSPPSSSGSSVSSVRTQ
STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMNGALQTTYVTPPSSRAS
SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQS"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgctgccttt ggcagtcaaa actctgtcaa
61 tgacagcaac aacgccaccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
121 agttggattc aagaaaatgc tgggtgccgt tcccaagggc accaaagcac ccagcagtgg
181 tcaacattgc cccacagcta agatcgggcc taaaacatta acaattcccc ctgagccccc
241 aaatggtgaa gacaccgtac aatttgatgc aaagtcagaa actataattg gattgccgga
301 cttgacaaca gtgcaaaatg aacatgaaaa caccccatac actgtccctc cattaagtga
361 gagggagcac agaccggcca ccgaaccact tcccggcaca atattggaaa tgtgggatgg
421 cgagttttac cattattccg tgtacgtcag cgacggcaaa gctctggggg tccacaaacc
481 accggcagct ataagcctcg cgacgataga gctcaccccc atatcacttt actggaggcc
541 tgtttacact cccaattact tggtctcccc ggacacatta aagggtctcg ctggtgagaa
601 gttcccctat acggccttca gtaataactg ttataatttt tgttgttggg tgcttgagct
661 caacgacacg tggcttaaca gaagatgcat ttctagaacc actggcttct tcaagccata
721 ccagtcttgg aacagaaaac ctctcccaac cgttgatgat ggaaagatta aaaaggtggc
781 caacgcaatc ctctgtgcac tcggctcact gttctcaaaa ccaatcaaag acctgttagg
841 caaactcaag ccactgaatc tactgcactt gcttgcgtct tgtgattgga cgtttgcggg
901 tatagtggag acagtcatct tgatggcgga gcttttcaat gtcttttgga cccccccaga
961 tgtctctaat tttgtagcct ccctaatagg tgattttgaa ttgcaagggc ctgaggacct
1021 ggctgtggag ctcgtccccg tggttatggg tggcataggg atggttctcg gtttcaccgc
1081 cgagaagata ggtcgcatgt tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
1141 aggaaactat gcccttgaca tactcaaatt ggtcatgaag tggttcttcc cgaagaagga
1201 agagaaagct gagatggaaa ccttgagagc gattgaagat gccgtcctag atatggaagc
1261 tatagggaac aaccacctca caacccttct caaggacaaa gatagcctca cggctttcat
1321 gaagaccctg gatctggaag aggagaaggc aaggaaactg tccactaaat catcttcacc
1381 ggacatagtc ggcaccatca atgccatact ggctaggata gctgctgcta gatcccttct
1441 acataaggcc aaagaggaga tgttcagcag gattaggcca gtggttgtta tgatctcagg
1501 caggcctggc attggaaaaa cccacatggc gagacatttg gctaagagca tcgccaacac
1561 catgagtggc gaccagaggg tcgggcttgt tccgcgcaac ggcgtcgacc actgggatgc
1621 ctacagggga gagagggtgg tcttgtggga tgattacggc atggggagcc ccgttaagga
1681 cgctctaaca ctacaagagc tggccgacac atgcccagtc actttgaatt gtgacaggat
1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca acctagtcaa
1801 ccccgcgccc ctcgactatg tgaacttcga ggcgtgttct aggagggttg acttcctggt
1861 ctatgcagag tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcctgacat
1921 gtggaaagac cattttaaac cagacttctc tcacatcaag ctgactctag ccccccaggg
1981 tgggtttgac aaaaatggca acaccccaca cggtaaggga accatgcggt ccctaaccca
2041 ggggtccctg actgcgagag ttgcaggcct tgtccatgag aggagagatg aattccaact
2101 ccaaggaaat gacctccaaa catacaactt tgacaccaac agagtctccg cattcagaaa
2161 attggctgca gataacaagt atgggatcat ggaaacgatg agagtaggtg cggcactcaa
2221 gaatgtgaag accctggaag atcttaaaat tgcattgagg gatgtaaaat tcaatgagtg
2281 tgaaataatc tacagaaact ctaagtatcg ggtctcttcc aacggtaaag gctcagtttc
2341 tgttgacaaa gttgaggaca gtgcatccca gactgtaaac gaggtacaat cagcaattct
2401 caggctcagg caagcgaggg ccagatatta catcagctgc ttccaagatc tcgtctacac
2461 tcttatacag gttgccggag catcattcgt tgtcagcagg atctccagaa ggttctgctg
2521 ggaaaggtgg gtcaaaccga ccgagaccca ggaggtaaat gagtccgaaa aggaagtggc
2581 acagggcaga tgggaaattg agcccaagga tacagaacca gaaggcaaga agggaaagaa
2641 taagaaagga aggggtaaga aacacacagc tttctctagc aaaggcctga gtgatgaaga
2701 gtatgatgag ttcaagagaa tcagggaaga aagaaacgga aagtactcca ttgaggaata
2761 cctgcaagac cgggaccgct attatgaaga agtggcagtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaagagg ccaagataag acaaagaatt ttccgcccga caaagaaaca
2881 gaggaaggag gaaaggggtg tgcttggcct agtcaccggc tctgacatca ggaagagaag
2941 accagatgac ttccaaccaa aaggcaactt atgggcagat gacaccagaa gcgtggacta
3001 caatgagagg ctcgactttg aagcgccccc gagtgtttgg tcaagaatag tcccattagg
3061 cactggttgg ggattctggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
3121 taaagggatt aaggagctct ttggagttga aatcaagcaa gtccaagttc ataagtctgg
3181 agagttttgc aggttcagat tcccaagacc tatcagacca gatgtcacag gactcgtgct
3241 ggaggaaggc gccccagaag gcactgtctg ttctatactc ataaaaagac ccacaggtga
3301 gatgatcccc ttagcagtga ggatgggcac acatgcgtcc atgaaaatac agggcaggac
3361 tgttggtggc cagatgggaa tgcttctcac aggagcaaac gcgaagaaca tggacctcgg
3421 caccggtcct ggtgactgcg gttgtcctta catctacaaa cgcggcaacg acattgttgt
3481 cgcaggtgtt cataccgcag cagcccgagg aggcaacact gttatatgtg ccacccaagg
3541 gcaagatggg gaagcagtcc ttgaggggaa tgaggacctt ggcacctatt gtggcgcccc
3601 aattctgggc cctggcaagg cgcctaaact cagcacgaag accaagtttt ggcgttcatc
3661 accagatgcc ttaccacctg gcacgtatga acctgcttac ctagggggca aagaccctag
3721 agtggaaaaa ggtccttccc ttcaacaaat tatgagagat cagttgagac ccttcacaga
3781 acccaggggc aaaccaccta gacctgcagt tttggaagaa gccaaaaaga cagtgatgaa
3841 cgttctagag caaaccattg accccgctaa gccatggtcc tactcgcagg catgtgcctc
3901 actggataaa accacctcca gtggtagtcc ccatcatgtt aagaaaaatg accactggaa
3961 tggggagtcc ttcactggcc cacttgcaga tcaggcatct aaagccaacc tcatgtatga
4021 gcaggctaag catgtgcaac ccgtgtatac ggctgcgctc aaagatgagc ttgttaagac
4081 tgacaagatc tacaaaaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat
4141 gatcaggtgc gccagggcct ttggtggtct catggacagc atgaaggcaa gctgtatagc
4201 tctcccttgc agggtaggga tgaacatgaa tgaagatggc cctattatat ttgacaaaca
4261 ttctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacaaag
4321 gagcattctt tctgctgcca tggaagtgat ggtgcggttc tctgctgaac cagaattggc
4381 acaagtggtt gcagaggacc ttttagcacc tagccagctt gatgttggcg attttgtcat
4441 ctcagtccag gagggtctac catcaggagt cccatgtaca tcacaatgga attcaatagc
4501 acactggatc ctaactttga gtgcaatggc agaagtatca ggtctctcac cagatgtcgt
4561 ccaagctcac tcttgttttt ccttttatgg ggacgatgag atcgtcagta ctgatatcaa
4621 ccttgacccc atgaagttga cacagaaact cagagagtat ggcctggttc ccactcggcc
4681 tgataaaact gaaggtcccc tcgtcataac tgaagacctc accggcctga cattccttcg
4741 taggtcgatt gctcgggacc cagctggttg gtttggaaag ctggaccaag actcaatcct
4801 taggcagctg tactggacaa gggggcccaa ccatgagaac ccgtacgaga gcatggttcc
4861 tcattctcag cgggccacac aactcatggc ccttcttggt gaggcctcac tacatggtcc
4921 ccagttttac aagaaagtta gcaagatggt catcaatgag attaagagtg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 cagctccatc taacgatggt gcagcaggcc tcgtaccaga gatcaacaat gaggtcatgc
5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
5221 ttgatccctg gataagaaat aattttgtac aagctcctgc aggtgagttt acagtctccc
5281 ctagaaattc ccctggtgaa attttgcttg atttggagtt gggaccagaa ctgaacccct
5341 atctcgctca tctggcccgt atgtataatg ggcacgctgg tggcatggaa gtgcaaattg
5401 tgttggctgg gaatgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
5461 tcccatatga aaatttgtca ccttcacaaa tcacaatgtg ccctcatgtt ataattgatg
5521 ttagacaatt agaaccagtt ctattaccta tgccagatat tagaaacaat ttcttccatt
5581 acaatcaggg caatgaccca aaattgagat tgatagccat gctctacacc cctttaaggg
5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggtcctcact aaaccgtcac
5701 ctgattttga attcacattt ttggtccccc ctacggttga atctaagacc aaacagttca
5761 cattgcccat cctcaaaata tcagagatga ccaactcaag attcccagtt ccagtggaaa
5821 tgatgtacac agccaggaat gagaaccaag ttgtccagcc acagaatggt agggtcacac
5881 ttgatggcga gctattaggc accacaccct tgttggctgt caacatctgc aaattcaagg
5941 gggaggttat agctaagaat ggggatgtga gatcctatag gatggacatg gaaattacca
6001 acactgatgg caccccaatt gaccccacag aagacacacc tggtcccatt ggttcacctg
6061 actttcaagg tatactcttt ggcgttgcca gtcaacgcaa caagaatgag cagaaccctg
6121 ccacgagagc ccatgaagcc aacattaaca ctggtgggga ccaatatgcc cccaaattgg
6181 cccaagtgaa attcttttca gagtcccagg atttcgaggt gcaccagccc acagttttca
6241 ccccagttgg tgtggcaggc gacacctccc accctttcag acagtgggtc ttgcctcgat
6301 acggtgggca tctcaccaac aacacccatt tggctccagc agtggccccc ttattcccag
6361 gtgagcagat tctattcttt agatcacaaa tacccagctc gggtggccat gaattgggct
6421 acatggactg ccttgtcccg caagaatggg tccaacactt ctaccaagaa gctgccacag
6481 ctcagtctga ggtggcactc atacggttca tcaacccaga cactggcaga gtcctctttg
6541 aggccaagtt gcacaagcaa ggctttataa ccgtggctca cactggtgat aacccaattg
6601 tcatgccacc aaatgggtac tttagatttg aagcctgggt taatcagttt tactcactcg
6661 cccccgtggg aactgggaat gggcgcagga ggatccaata atggccagtg ctttccttgc
6721 aaatttggct ggaggcgttg cctccaatgg aattagttca ctcataaatg ctggggctaa
6781 tgctattaat caaaaggttg agtttgatta caacaaacaa ctccaaaatg catccttctc
6841 ccatgataag gaaatgctcc aagcccaaat tgaagccacc aaacgtctgc aacaagaaat
6901 gattgacata aaacaagggg tgctgacagc tgcgggattc tcccctacgg atgccgcgag
6961 gggttctgtc ggcgcgccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
7021 gcctggtgcc atgaggacaa caggctattc agggactttt actcacttgc ctcctgtgca
7081 gtctgcttca tatgttaata atcaaaatag acaacctctt aaagtagatt cttctcctcc
7141 ttcttcgagt ggttcttctg tctcttctgt cagaacacaa tcaactaccc tctcaggcac
7201 ttcaagggtg ggctcctcat ctcagtcaac cctgtcgacc aggccgagca caaggacatc
7261 tgattgggtg cgcagccaga atgaaaggtt gagtcccttc atgaatggag cgttgcaaac
7321 aacgtatgta acgccaccgt ccagtagggc atcaagtgtc agcacagtct cgactgtgcc
7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cactcttcgc
7441 ccatttgcgt agacgagggg agtcacagag ttagtgaaaa gattggttag gaaagttgat
7501 tagtttgttt ttctttctac tgttccttta attctttctt tt
//