Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MH218661 | GII.7 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS MH218661 7538 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_200_25_11_2015, complete genome.
ACCESSION MH218661
VERSION MH218661.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7538)
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 7538)
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..7538
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_200_25_11_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="25-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="AWR17643.1"
/translation="MKMASNDATAAFGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSNQNCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
VQNEHENNPYTVPPLSEREYRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLD
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKS
VKTLEDLKAALRDVKFNECEIIYKNSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
LRLRQARARYYISCFQDLVYTLMQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEK
EVAQGGWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIKEERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRG
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="AWR17641.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKSEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDPSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6701..7474
/gene="ORF3"
CDS 6701..7474
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17642.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPMQSASYVNNQNRQLFKVDPSPSSSSGSSVSSVKTQ
STALSGTSRVDSSSQSTLSTRPSSRTSDWVRSQNERLSPFMNGALQTAYVTPPSSRAS
SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgctgccttt ggcagtcaaa actctgtcaa
61 tgacagtaac aacgccaccc cttctaacaa agaagaggtt ggtgcattct ccaacattaa
121 agttggattt aagaaaatgc tgggcgccgt acccaaaggt accaaagcgc ccagcagtaa
181 tcaaaattgc cccacagtta aaatcgggcc taaaacgtta acaattcctc ctgagccccc
241 aaatggtgaa gacaccgtac aatttgatgc aaagtcagaa actataattg ggctaccaga
301 cttgacaacg gtgcaaaacg aacacgaaaa caatccatac actgtccctc cattaagtga
361 gagggagtac aggccggcca ctgaaccact tcctggcaca atactggaga tgtgggatgg
421 tgagttttac cattactccg tgtacgtcag tgatggcaaa gctctggggg tccacaaacc
481 accggcggct ataagcctcg cgacgataga gctcaccccc atatcactct actggaggcc
541 cgtttacacc cccaactact tggtctctcc agacacatta aagggcctcg ctggtgagaa
601 gttcccctac acggccttca gtaataactg ttacaacttc tgctgttggg tgcttgatct
661 caacgacacg tggcttaata gaagatgcat ttccagaact accggcttct tcaaaccata
721 ccagtcttgg aatagaaaac ctctcccaac tgttgatgat ggaaagatca aaaaggtggc
781 caatgcaatc ctctgtgcac tcggttcgct gttttcaaaa ccaatcaaag acctattagg
841 caaactcaag ccattgaatc tactacactt gctcgcgtcc tgtgattgga cgtttgcagg
901 catagtggag acagtcatct taatggcgga acttttcaac gtattctgga ccccaccaga
961 tgtctctaat tttatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaagacct
1021 ggctgtagag ctcgtccccg tggttatggg tggcataggg atggttctcg gcttcaccgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
1141 agggaactac gcccttgaca tactcaaatt ggtcatgaaa tggttcttcc caaagaagga
1201 agagaaggct gagatggaaa ccttgagggc gattgaagat gccgtccttg atatggaagc
1261 tatagggaac aaccacctca cgacccttct caaggacaaa gacagcctca cagctttcat
1321 gaagaccttg gatctagaag aggagaaggc gagaaaactg tccactaaat catcttcacc
1381 ggacatagtc ggcaccatca acgccatatt agctaggata gctgctgcta gatccctact
1441 acataaggcc aaagaggaga tgttcagtag gatcagacca gtggtcgtca tgatctcagg
1501 cagacctggc attggaaaaa cccacatggc gaggcacttg gctaagagca tcgccaatac
1561 catgagtggc gatcagagag tcggactcgt tccacgcaac ggtgtcgatc actgggacgc
1621 ctacagggga gagagggtgg tcttgtggga tgactacggc atggggagcc ctgttaaaga
1681 cgccctgaca ctgcaagagt tggccgacac atgtccagtc actttaaatt gtgataggat
1741 tgagaataag ggaaagatgt ttgatagcga tgtcatcata atcacgacca acctagtcaa
1801 ccccgcaccc ctcgactatg tgaacttcga ggcgtgttct aggagagttg acttcctggt
1861 ctatgcagag tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcctgacat
1921 gtggaaagac cattttaaac cagacttttc ccatattaag ttgactctag ccccccaggg
1981 tgggtttgat aagaatggca ataccccaca cggcaagggt accatgcggt ccttaaccca
2041 ggggtcccta actgcgagag tcgcaggcct tgtccatgag aggagggacg aattccagct
2101 ccaaggaaat gacctccaaa catacaactt tgacaccaac agagtctccg catttagaaa
2161 attggctgca gataacaagt atgggatcat ggagacgatg agagttggtg cagcgctcaa
2221 gagtgtgaag accttggaag atcttaaagc tgcattgagg gatgtgaaat tcaatgagtg
2281 tgaaataatt tacaaaaact ctaagtaccg agtctcttcc aacggcaaag gctcggtttc
2341 tgttgacaaa gttgaagaca atgcttccca gactgtgaac gaggtgcatt cagcacttct
2401 tagactcagg caggcaaggg ccagatacta catcagctgc ttccaagacc tcgtttacac
2461 tctcatgcag gttgcagggg catcattcgt cgtcagtagg atctccagaa ggttctgctg
2521 ggaaaggtgg gtcaaaccga ccgagaccca ggaagtgaat gagcccgaaa aggaagtggc
2581 ccaaggtgga tgggaaattg agcccaagga cacagaacca gaaggcaaga agggcaagaa
2641 caagaaagga aggggcaaga aacacacagc cttctctagc aaaggcctga gtgatgaaga
2701 gtatgatgag ttcaagagaa tcaaggaaga aaggaacgga aagtactcca ttgaggaata
2761 cctgcaggac cgagaccgct attatgaaga ggtggcagtt gctcgggcaa cagaggagga
2821 cttctgcgaa gaggaggaag ccaagataag acaaagaatt ttccgtccga caaggaaaca
2881 gaggaaggag gaaaggggcg tgcttggctt ggtcactggc tcagacatca gaaagaggag
2941 acccgatgac ttccaaccaa agggcaacct gtgggcagat gacaccagaa gtgtggacta
3001 caatgagagg cttgattttg aagcacctcc gagtgtttgg tcaagaatag tcccattagg
3061 cactggttgg gggttttggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
3121 taaagggatc aaggaactct ttggagttga aatcaagcaa atccaagttc ataagtctgg
3181 agagttttgc aggtttaggt ttccaagacc catcaggcca gatgtcacag gactcgtgtt
3241 ggaggaaggc gccccagagg gcactgtctg ttctgtactc gtaaaaagac ccacaggtga
3301 aatgatcccc cttgcagtga ggatgggcac gcacgcatcc atgaaaatac agggcaggac
3361 cgttggtggc caaatgggga tgctcctcac aggagcaaac gcgaagaaca tggatctcgg
3421 tactggtcct ggtgactgcg gttgccccta catctacaaa cgtggcaacg acatagttgt
3481 cgcgggtgtt cacaccgcag cagcccgggg gggcaacact gttatatgcg ccacccaagg
3541 gcaagacggg gaagcagtcc ttgagggaaa tgaggacctt ggcacctact gtggcgcccc
3601 aattctgggt cctggcaagg cgcccaaact cagcacgaag accaagttct ggcgctcatc
3661 accagatgcc ttgccacctg gcacatacga acctgcttac ctaggaggca aagaccctag
3721 ggtggaaaaa ggtccctccc tgcagcaagt catgagagac cagttgagac ccttcacaga
3781 acccaggggc aaaccgccca gacctgcagt cctagaggaa gccaaaaaga cagtgatgaa
3841 tgttttagaa caaaccattg accccgccaa gccatggtcc tactcccagg catgtgcctc
3901 acttgacaaa accacctcta gtggtagtcc ccaccacgtt aagaaaaatg accactggaa
3961 tggggagtcc ttcactggtc cccttgcaga tcaggcatct aaagccaacc tcatgtatga
4021 acaggccaaa catgtgcagc ccgtgtatac ggcagcgctt aaagatgagc ttgttaagac
4081 tgacaagatc tacaagaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat
4141 gatcaggtgc gccagggctt ttggtggtct catggacagc atgaaggcaa gttgtatagc
4201 tcttccttgc agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacagag
4321 gagcattctc tctgccgcta tggaagtaat ggtgcggttt tctgctgaac cagaactggc
4381 acaagtggtt gcagaggacc ttttggctcc tagccagctt gacgttggcg actttgtcat
4441 ctcagtccag gagggtctac catcaggagt cccatgcaca tcacaatgga attcaatagc
4501 gcactggatc ctgactttga gtgcaatggc agaagtgtca ggtctctcac cagatgttgt
4561 ccaagctcac tcctgctttt cattttacgg ggacgatgag atcgtcagta ctgatatcaa
4621 tcttgacccc atgaagttga cacagaaact cagggagtat ggtctggtcc ccacccggcc
4681 tgataaaact gaaggccccc tcgttataac tgaagacctc accggcctga cattcctccg
4741 taggtcgatt gctcgggacc cagctggttg gtttggaaaa ctggaccaag actcaattct
4801 cagacagcta tactggacaa gggggcctaa ccatgagaac ccgtatgaga gcatggttcc
4861 tcattctcag cgggccacac agctcatggc ccttcttggt gaggcctcgc tgcatggtcc
4921 ccagttttac aagaaagtta gcaagatggt catcaatgag attaagagcg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 cagctccatc taatgatggt gcagcaggcc tcgtgccaga gatcaacaat gaggtcatgc
5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
5221 ttgatccctg gataagaaat aattttgtac aagctcctgc aggtgagttt acagtttccc
5281 ccagaaattc ccctggtgaa attttacttg atttggagtt gggaccagag ttgaacccct
5341 atctcgctca tttggcccgt atgtacaatg ggcacgctgg tggcatggaa gtgcaaattg
5401 tgttggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
5461 tcccatacga aaatttgtca ccttcacaaa ttacaatgtg cccccatgtt ataattgatg
5521 ttagacaatt agaaccagtc ctattaccta tgccagatat tagaaataat ttcttccatt
5581 acaatcaggg caatgatcca aaattgaggt tggtagctat gctctacact cctttaaggg
5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggttctcact aaaccgtcac
5701 ctgattttga attcacattt ttggttcccc ctacagttga atccaagacc aagcaattca
5761 cattgcccat cctcaaaata tcagagatga ccaactcaag attcccagtg ccggtggaaa
5821 tgatgtacac agcaaggaat gagaatcaag ttgtccagcc acagaatggt agggtcacac
5881 tcgatggcga actattgggc accacaccct tgttggctgt caacatctgt aaattcaagg
5941 gagaggtcat agctaagaat ggagatgtga gatcctatag gatggacatg gaaatcacca
6001 acactgatgg caccccaatt gaccccactg aagatacacc tggtcccatt ggatcacctg
6061 attttcaagg tatactcttt ggcgttgcca gtcaacgcaa caagagtgag caaaatcctg
6121 ccacgagagc ccacgaagcc aacatcaata ctggtgggga ccaatatgcc cccaaattgg
6181 cccaagtgaa attcttctca gagtcccagg atttcgaggt gcatcagccc acagttttca
6241 ccccagttgg tgtggcaggt gacccttccc accctttcag acagtgggtc ctgcctcgat
6301 atggtggaca tctcaccaac aatacccact tggctccagc agtggcccct ctattcccag
6361 gtgagcagat tctgttcttt agatcacaaa tacctagttc aggcggccat gaattgggtt
6421 acatggactg ccttgtccca caagaatggg tccaacactt ctatcaagaa gctgccacag
6481 ctcagtctga ggtggcactc ataaggttca tcaacccaga cactggtaga gtcctctttg
6541 aggccaagct acacaagcaa ggctttataa ctgtggctca cactggtgac aacccaattg
6601 ttatgccacc aaatgggtat ttcagatttg aagcctgggt caatcagttt tactcactcg
6661 cccccgtggg aactgggaat gggcgtagga ggatccaata atggctagtg ccttctttgc
6721 aaatttggca gggggcgttg cctccaatgg aattagttca ctcataaatg ctggggctaa
6781 tgctattaac caaaaggttg agtttgatta taataaacaa ctccaaaatg catccttctc
6841 ccacgataag gaaatgctcc aagcccaaat tgaagccact aaacgcttgc aacaagagat
6901 gattgacata aaacaagggg tgctgacggc tgcgggattc tctcccacgg atgccgcgag
6961 gggttctgtc ggcgcgccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
7021 tcctggtgcc atgaggacaa caggctactc agggaccttc actcacttgc ctcctatgca
7081 atctgcttca tatgttaata atcagaatag acaacttttt aaagtggatc cttctccctc
7141 ttcttcaagt ggttcttctg tttcttctgt taaaacacaa tcaactgctc tctcaggcac
7201 ttcaagggtg gactcttcat ctcagtcaac cctgtcgacc aggccgagct caaggacatc
7261 tgattgggtg cgtagccaaa atgaaagatt gagccccttt atgaatggag cattgcaaac
7321 agcgtatgta acgccaccat ctagcagggc atcaagtgtc agcacagtct cgaccgtgcc
7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cgctcttcgc
7441 ccacctgcgt aggcgagggg agtcacagat ttagtgaaaa gattaattag gaaagtttga
7501 ttagttttct tttctattat tcctttaatt tttctttt
//