Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MH218650 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS MH218650 7550 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_182_19_09_2015, complete genome.
ACCESSION MH218650
VERSION MH218650.1
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_182_19_09_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="19-Sep-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="AWR17610.1"
/translation="MKMASNDATTAFGSQNSVNDSINTALSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPSVKIGAKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLRPLNLLHLLASCDWTFAGIVETVILMAELFGILWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDANRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17608.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGELLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCALDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESGDFDDG
QPTRFTPIGMGADDWRQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6722..7498
/gene="ORF3"
CDS 6722..7498
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17609.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQSTSPRSESPKIKVNSDSASVYSSVSTTPSQST
HSTALTAGSSSSRTTSSSAVASTISRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtatc aacaccgccc tttctaacaa agaagaggtt ggtgcattct ccaacatcaa
121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
181 tcagcactgc ccctcagtta agatcggggc caagacatta acagttcccc ctgagccccc
241 aaatggtgaa gacaccgtgc agtttgatgc gaagtcggaa actgtgcgcg ggttaccaga
301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
361 aagggagcac agaccagcta ctgaaccgct tcctggcaca atactggaga tgtgggatgg
421 cgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
541 cgtttacacc cccaactatc tggtctgccc agacacgttg aagggccttg ctggtgagaa
601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
661 caatgacaca tggcttagta ggagaagcat ctctaggacc accggcttct tcaaaccata
721 ccagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatt ctctgtgcac ttgggtcact gttttcaaaa ccaatcaagg acctattagg
841 caagcttaga ccattgaact tgctgcattt gctcgcatca tgtgactgga cgtttgcggg
901 tatagtagag acagtcatcc taatggcgga acttttcggc atcctttgga caccgccaga
961 tgtttccagt ttcatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
1021 ggctgtggag cttgtacccg tggtcatggg tggtatagga atggttctcg gctttactgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctacgggcgt gcaaagactt
1141 agggaattat gctctagaca tattgaaact agttatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccctaagggc gattgaggat gccgtcctgg acatggaagc
1261 tataggaaat aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
1321 gaagactcta gacctagaag aagagaaggc aaggaagctg tccaccaaat catcctcgcc
1381 agacattgtc ggcaccatta atgccatact agctagaata gctgctgcca ggtccctctt
1441 gcacaaggct aaagaagaaa tgttcagcag gatcagaccc gtggttgtca tgatctcggg
1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
1561 catgagcggc gaccagagag tggggctcgt cccacgcaac ggggttgatc attgggacgc
1621 ctacagggga gagagggtgg ttttatggga tgattatggc atgggaaacc ctgtcaaaga
1681 tgccctaaca ctgcaagagc tggccgacac ctgcccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca atttagtcaa
1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagac ttccccggcc aacctgacat
1921 gtggaaggac cattttaagt cagacttttc ccacataaaa ctgactctag ccccacaggg
1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
2041 agggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
2101 ccaggggaac gaccttcaaa catataactt tgatgccaac agagtctctg catttaggaa
2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
2221 gagtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
2281 tgagataatt tacagaaact ccaaataccg agtctcttcc aatggtaaag gttctgtctc
2341 tgttgacaaa gttgaggacc aaacatccca gactgcaaac gaagtgggtg cagcactcct
2401 tagactcaga caggcaagag ccagatacta tgtcagctgc ttccaagacc tcgtttacac
2461 tctaatacag gtcgccggag catcattcgt cgtcaacagg atctctaaaa ggttctgctg
2521 ggagagatgg gtcaaaccaa ccgagaccca ggagacaagt gaatccgaaa aggaagtggc
2581 ccaaggtaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcctga gtgatgagga
2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcggtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg tgcttggttt ggttactggt tcagacatca ggaagaggag
2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtggacta
3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
3061 cactggctgg ggtttctggg tctcatcaaa cctcttgatc acaacaacgc acgtcctacc
3121 taaggggatt aatgaactct ttggagttga gatcaaacaa attcagattc ataagtctgg
3181 agagttctgt aggttcagat tcccaagacc aattagacca gatgtcacag ggctcgtgtt
3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatct atgaaaatac agggtaggac
3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggatcttgg
3421 caccggtcct ggtgactgcg gttgccctta catctacaaa cgtggcaatg atatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgctcc
3601 aatcttgggc ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgttcatc
3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccctag
3721 agtggaaaaa ggaccatccc tgcagcaagt catgagagac cagctaaaac cttttacaga
3781 acccaggggt aagccaccta gacctgcagt tttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagag caaaccattg accctgctaa accgtggacc tattcccaag catgtgcctc
3901 actggataag accacttcca gtggtagccc ccatcatgtt aggaaaaatg accattggaa
3961 tggggaatcc ttcactggcc ccctcgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactt aaagatgaac tagtcaaaac
4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gctgcatagc
4201 cctcccatgt agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaagca
4261 ttctaagtat aggtaccatt atgatgccga ctattccagg tgggactcaa cccagcaaag
4321 gagcattctc tcagccgcta tggaagtgat ggtgcggttc tctgctgaac cagagctggc
4381 gcaagtggtt gcagaggatc tcctggcacc cagccaacta gatgttggcg atttcgtcat
4441 ctcagtccag gagggtctgc catcaggggt cccatgtaca tcacaatgga attcaatagc
4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaagttga cacagaagct cagagagtat ggcctggtcc ccacccgacc
4681 tgacaaaact gaaggtcccc tcgtaataac tgaagatctc actggcctaa cgtttctgcg
4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag attcaatcct
4801 cagacagttg tactggacaa ggggccccaa ccatgagaac ccatatgaga gcatggtccc
4861 tcattcccag cgagccacac aacttatggc ccttctcggt gaggcctcac tgcatgggcc
4921 ccagttttac aagaaagtta gcaagatggt tattaatgag 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 gcctcaattg ctgctcctgt cgtcggtcaa caaaatataa
5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
5281 caaggaactc acctggtgag ttgcttctaa atcttgaatt aggccctgag ctcaaccctt
5341 atctgagtca cttgtcccgc atgtataatg gctatgctgg tggtatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt tgccgccgtc ccaccacatt
5461 tccctgttga aaacattagt gcagcccaaa tcacgatgtg cccccatgta attgttgatg
5521 taagacagct tgagccagtg cttttgcccc tccctgacat aaggaataga ttctttcatt
5581 ataatcagga aaatacctcc cggatgagac ttgtggctat gttgtataca ccccttagag
5641 caaattctgg tgaggatgtg tttacggtgt cttgcagagt tctgacccgc cctgcccccg
5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
5761 tccctattct gactcttgga gagctgtcca actccagatt ccccgctccg atagacatgt
5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcgctctag
5881 atggaacact tcaaggaacc acccaactgg tacccaccca aatttgctcc ttcaggggca
5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac ccaacagatg
6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gttgctagcc
6121 aaagaaacac cacagggaac tctataggag caacccgcgc ccatgaagtg cacatagaca
6181 ccacaaaccc tagatacacc ccaaagcttg gctctgtgtt gatgtattct gaatctggtg
6241 attttgatga tggacaaccc acccgcttta cccccattgg tatgggagcc gatgattggc
6301 gccaatggga attgcccgaa tattctggtc acctcactct taatatgaat ttggcccccg
6361 cagttgcccc tgctttccct ggtgagcgca ttctcttctt cagatcagtg gtgccgtctg
6421 ctggtggcta tgggtcaggt cacatagatt gcctcatccc acaggagtgg gttcagcatt
6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcagatat gtcaaccctg
6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
6601 attctggaaa taaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
6661 tcaatcaatt ctacacactc acccccatgg gaactgggca ggggcgcaga agagtccaat
6721 aatggcagga gctttcttag ctggattggc aggtgacgcc ataacaagtg gtgtcgggtc
6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
6841 gctccaattg gcatccttca aacatgacaa agagatgctg caatcacaag tactggccac
6901 taaacagctc cagcaggaga tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcaccg atgacaaaaa ttttggattg
7021 gaatggaaca aggtactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
7081 ttccagcaac cctgtgcata ggcaatccac ttcaccccgt tccgaatccc caaaaattaa
7141 ggttaatagt gattctgcta gtgtgtatag ttctgtatct actactcctt cacaatcaac
7201 tcactcaacg gctttgactg cggggtctag ctcatctagg acaacatcct cctctgcagt
7261 agcttccacc atatctagga ctagtgactg ggtgagagga caaaatgaaa ggcttagccc
7321 gtttatggat ggtgctctcc aaacaacttt tgtcacacca ccatcgagca aagcttcatc
7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
7501 aaaagattga ttaggtcttc tttctttctt cttttccttt tctttctttt
//