Typing tool
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Typing tool
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Complete norovirus genomes
| MH218640 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS MH218640 7550 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_171_09_03_2015, complete genome.
ACCESSION MH218640
VERSION MH218640.1
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_171_09_03_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="09-Mar-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="AWR17580.1"
/translation="MKMASNDATTAFGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFGIFWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKG
VKTLEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
EVARGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
TDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 5079..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17578.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAQRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESNDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6722..7498
/gene="ORF3"
CDS 6722..7498
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17579.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPPSASPKIKANSDSASVYSSTSTAPSQST
HSTALTVGSSSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtatc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
181 tcagcactgc ccctcagtta agatcgggac caagacatta acagttcccc ctgagccccc
241 aaatggtgaa gacaccgtgc agtttgatgc gaagtcggaa actgtgcgcg ggttgccaga
301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatat actgtccccc cattgagtga
361 aagagagcac agaccagcta ctgaaccgct tcctggcaca atactggaga tgtgggatgg
421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcataaacc
481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
541 cgtttacacc cccaactatc tggtctgccc agacacgttg aagggccttg ctggtgagaa
601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
661 caatgacacg tggcttagca ggagaagcat ctctaggacc accggcttct tcaaaccata
721 ccagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatt ctctgtgcac ttggatcact gttttcaaaa ccaatcaagg acctattggg
841 caaacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
901 tatagtagag acagtcatcc taatggcgga acttttcggc atcttttgga caccgccaga
961 tgtttccagt ttcatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
1021 ggctgtggag cttgtacccg tggtcatggg tggcatagga atggttctcg gctttactgc
1081 tgagaagata ggccgcatgc tatcgtccgc tgcatcaaca ctacgggcgt gcaaagactt
1141 ggggaactat gctcttgaca tattgaaact ggttatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccctgagggc gattgaggat gccgtcctgg acatggaagc
1261 tataggaaat aaccatctca cgaccctcct caaggacaag gatagcctca cggctttcat
1321 gaagactcta gatctagaag aagagaaggc aaggaagctg tccaccaagt catcctcgcc
1381 agacattgtc ggcaccatta atgccatact ggctagaata gctgctgcca ggtccctctt
1441 gcacaaggct aaagaagaaa tgttcagcag gatcagaccc gtggttgtca tgatctcggg
1501 tagacctggt attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
1561 catgagcggc gaccagagag tgggactcgt cccacgcaac ggggttgatc attgggacgc
1621 ctacagggga gagagggtgg ttttatggga tgattatggc atgggaaacc ctgtcaaaga
1681 tgccctaacg ctgcaagagc tggccgacac ctgcccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca atttagtcaa
1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagac tttcccggcc aacctgacat
1921 gtggaaggac cattttaagc cggatttttc ccacataaaa ctgactctag ccccacaggg
1981 tgggtttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
2041 ggggtccctg actgcaaggg ttgcaggtct tgtccatgag aggagagacg agtttcagct
2101 ccaggggaac gaccttcaaa catataactt tgataccaac agagtctctg catttaggaa
2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
2221 gggtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
2281 tgagataatt tacagaagct caaaataccg agtctcttcc aatggtaaag gttctgtctc
2341 tgttgacaaa gttgaggacc agacatccca gaccgcaaac gaagtgggtg cagcactcct
2401 tagactcaga caggcaagag ccagatacta tgtcagctgc ttccaagacc tcgtttacac
2461 tctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaaa ggttctgctg
2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaatccgaaa aggaagtggc
2581 ccgaggcaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcttga gtgatgagga
2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg tgcttggttt ggttactggc acagacatca ggaagagaag
2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacactagga gtgtggacta
3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
3061 cactggctgg ggcttctggg tctcatcaaa cctcctgatc acaacaacgc acgtcctacc
3121 taaggggatt aatgaactct ttggagttga gatcaaacag attcagattc ataagtctgg
3181 agagttctgc aggttcagat tcccaagacc aattagacca gatgtcacag ggctcgtgtt
3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
3361 cgttggtggc 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 aatcttgggt ccaggcaagg cgcccaaact cagcacgaag accaagttct ggcgttcatc
3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccctag
3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagctaaaac ctttcacaga
3781 gcccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagag caaaccattg accctgctaa accgtggacc tattcccaag catgtgcctc
3901 actggacaag accacttcca gtggtagccc ccatcatgtc aggaaaaatg accattggaa
3961 tggagaatcc ttcactggcc ccctcgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgaac tagtcaaaac
4081 tgataagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gctgcatagc
4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ttctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgctgaac cagagctggc
4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg atttcgtcat
4441 ctcagtccag gagggcctgc catcaggagt cccatgcaca tcacaatgga attcaatagc
4501 acactggatc ctaaccttga gtgcaatggc agaagtatcg ggtctctcac cagatgttgt
4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaagttga cacagaagct cagagagtat ggcctggtcc ccacccgacc
4681 tgacaaaact gagggtcccc tcgtaataac tgaagacctc accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaag ttggaccaag actcaatcct
4801 cagacagttg tactggacaa gaggccccaa ccatgagaac ccatatgaga gcatggtccc
4861 tcattcccag cgggccacac aacttatggc ccttctcggt gaggcctcac tgcatggtcc
4921 ccagttttac aagaaagtta gcaagatggt tattagtgag 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 cgtcggccaa caaaatataa
5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
5281 caaggaactc acctggtgag atgcttctaa atcttgaatt aggccctgag ctcaaccctt
5341 atctgagtca cttgtcccgc atgtacaacg gctatgctgg tggtatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt tgccgccgtc ccaccacatt
5461 tccctgttga gaacattagt gcagcccaaa tcacaatgtg cccccatgta attgttgatg
5521 taagacagct tgagccagtg cttttgcccc tccctgacat aaggaataga ttctttcatt
5581 ataatcagga aaataccccc cggatgagac ttgtggctat gttgtataca ccccttagag
5641 caaattctgg tgaggatgtg tttacggtgt cttgcagagt tctgacccgc cctgcccccg
5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
5761 ttcctattct gactcttgga gagctgtcca actctagatt ccccgctccg atagacatgt
5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactctag
5881 atggaacact tcaggggacc acccaactgg tacccaccca aatttgctcc tttaggggca
5941 cgctaattag ccagacgtcg aggtctgcag attcaactga ttcagctcaa cgggtgagga
6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac cctacagatg
6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagcc
6121 aaagaaacac cacagggaac tctataggag caacccgcgc ccatgaagtg cacatagaca
6181 ccacaaaccc tagatatacc ccaaagcttg gctctgtgtt gatgtattct gaatctaatg
6241 attttgatga tggacaaccc acccgcttca cccccattgg catgggagcc gatgattggc
6301 accaatggga attgcccgaa tattctggtc acctcactct taacatgaat ttggcccccg
6361 cagttgcccc tgcttttcct ggcgagcgca ttctcttctt cagatcagtg gtgccgtctg
6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggagtgg gttcagcatt
6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcagatat gtcaaccctg
6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
6661 tcaatcaatt ctacacactc acccccatgg gaactggaca ggggcgcaga agagttcaat
6721 aatggcagga gctttcttag ctggattagc aggtgacgcc ataacaagtg gtgtcgggtc
6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
6841 gctccaattg gcatccttca aacatgacaa agagatgttg caatcacaag tactggccac
6901 taaacagctc cagcaggaga tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
6961 ttcccctaca gacgccgcga gaggtgctgt gaacgcgccg atgacaaaaa ttttggattg
7021 gaatggaaca aggtactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
7081 ttccagcaac cctgtgcata ggcaacccac tttaccccct tctgcatccc caaaaattaa
7141 ggctaatagt gattctgcta gtgtatatag ttctacatct actgctcctt cacaatcaac
7201 tcactcgacg gctttgactg tggggtctag ctcatctagg acaacatcct cttctgcagt
7261 agcttccacc ctatctagga ctagtgactg ggtgagagga caaaatgaaa ggcttagccc
7321 gttcatggat ggtgctctcc aaacagcttt tgtcacacca ccatcgagca aagcttcatc
7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
7441 cacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
7501 aaaagattga ttaggttttc tttctttctt ctttcccttt tctttctttt
//