Typing tool
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Typing tool
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Complete norovirus genomes
| MH218664 | GI.3 | |
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| GI.P3 |
ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS MH218664 7745 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GI isolate NORO_206_03_12_2015, complete genome.
ACCESSION MH218664
VERSION MH218664.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7745)
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 7745)
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..7745
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="NORO_206_03_12_2015"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="United Kingdom"
/collection_date="03-Dec-2015"
/note="genotype: GI.P3_GI.3"
gene 5..5404
/gene="ORF1"
CDS 5..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17650.1"
/translation="MKMASNDAIAVADVSNNNANTNNDNIGSRLMARIRGRMGPQRGE
TTTKITDANMALNLLRRSQTPSPSRQESPPKSQRDRPPRTASEVKKVLGWDVEPEHQE
STAKAWCDLTQEEKEEIMRNNEKLFDAGGITPSTLPSTFERADPVDSPIEQQPVTWSV
SGGVDIGVNDLTTVSGPFWNMCPLPPLDARNNGPAKEPLIGDMIEFYEGHIFHYAIYI
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYVPTNQQRLTYDQLKELENEPWPYAS
ITNNCYEFCCRVMALDDTWLERRLVSTGKFNHPTQDWSQDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKNILSKIKPLNVLNLLSNCDWTFMGVVELIVLLTELFDVFWTPPDIS
SFIASLLPEFHLQGPEDLARDLVPLILGGIGLAIGFTRDKVTKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQTEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLARTYMN
VLDNEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAEMTSRPRPVVIMMC
GPPGIGKTKAAEHLAGRLANEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQMRRTHPGDANAIKDLYKRDYSHLKMELAPQGGFDSQGNTPFGKG
IMKPTTLNRLLIQATALAMERQDEFQLQGAVYNFDEDRVSAFTSLARANGLGLLSMAT
LGKRLRSVKSMEGLRNALVGYKIGECDIIWNTRVYSIKSDGSAVTIKEKQTPTSPQNQ
AISTATLALSRLRAARALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTRTEQPML
EGKHKEHNCRVHRAEAAGHGPIGHDGVIERYGLCESEQEEEDEQTVELPTANKEGKNK
GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKIREEKSGNYSIQEYLEDRQRYEEELAE
VQAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVSGSEIRKRKPIDWTPP
KNDWSEDTRTVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGAKE
VFGEDLSNVAIHRVGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCTIMIKRDSGELLP
LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVC
GVHAAATKSGNTVVCAIQGGDGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWK
STPQPLPPGTYEPAYLGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
TVTNAIEQVMDTPVAWSYSDACMSLDKTTSSGHPHHKKKNDDWNGNSFVRELGDQAAH
ANSMYELGKSMKPVYTAALKDELVKPDKVYTKIKKRLLWGADLGTVIRAARAFGPFCE
AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKFHYDADYTAWDSTQNREIMMESFNIM
CKLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIMTLCA
LSEVTGLSPDVIQSQSYFSFYGDDEIVSTDIEFDPIRLTQVLKEYGLKPTRPDKTDGP
IIVRQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHEDPFETLVPHSQR
KVQLISLLGEAALHGEKFYRKIAGRVIQEVKEGGLEIYIPGWQAMFRWMRFHDLSLWT
GDRDLLPDYVNDDGV"
mat_peptide 5..1219
/gene="ORF1"
/product="p48"
mat_peptide 1220..2308
/gene="ORF1"
/product="NTPase"
mat_peptide 2309..2908
/gene="ORF1"
/product="p22"
mat_peptide 2909..3328
/gene="ORF1"
/product="VPg"
mat_peptide 3329..3871
/gene="ORF1"
/product="Pro"
mat_peptide 3872..5401
/gene="ORF1"
/product="RdRp"
gene 5388..7025
/gene="ORF2"
CDS 5388..7025
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17651.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFAAQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPNLPLNTLSNSRVPSLIKSMMVSRDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKIRGSVFHANGGNGYNLTELDGSPYHAFESPAPIGFPDLGECDWH
MEASPTTQFNTGEVIKQVNVKQESAFAPHLGTVQVDGLSDVSVNTNMIAKLGWVSPVS
DGHKGDVDPWVIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIAHGTNGLSVPC
TIPQEFVTHFVNEQAPTRGEAALLHYLDPDTNRNLGEFKLYPDGFMTCVPNSSGTGPQ
TLPINGVFVFVSWVSRFYQLKPVGTAGPARRLGIRRS"
gene 7025..7672
/gene="ORF3"
CDS 7025..7672
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17652.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQKN
SFIHDKEMMGLQVEASTALLQNSLGTRYNMLTKAGMTSADAARMVVGAPATRVVDWNG
TRIAAPMSTATTLRSGGFMTVPTVYRGNKDKQSIGGGFSNVNYDPSVPSSRTSQWVSS
QNSMRSTLEPFHPGALRTTWVTPPGSTSTSTISTVSTVPKFFNTERLPLFANRGK"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
61 taacaccaac aatgataaca ttggatcccg cctcatggcg aggatccgtg ggcgcatggg
121 cccacaacgt ggtgaaacaa ccacaaaaat aacagacgcc aatatggcgc ttaatctgct
181 acgccggtca caaacaccct ccccatcccg gcaagagagc cctcctaaga gccagagaga
241 ccgcccccct cgtactgctt ctgaggtgaa gaaagtgttg gggtgggatg ttgaaccaga
301 acaccaggaa agcacggcca aggcatggtg cgacctcacg caagaagaga aggaggagat
361 aatgcgcaat aatgaaaagc ttttcgatgc tggaggaatc accccatcaa ctttgcctag
421 cacgtttgaa agggccgacc cagttgatag ccccattgaa cagcaacctg tgacatggtc
481 tgttagtggt ggggtcgata ttggtgtcaa tgatttgacc accgtcagtg gcccattttg
541 gaatatgtgc cccctcccgc cactggatgc tcggaacaat ggccccgcta aggaacccct
601 cataggagat atgatagagt tctatgaggg tcatatattc cattatgcca tctatattgg
661 acaaggtaag accattgggg tccactcacc gcaagcagct ttctccatac caaggataac
721 catccatcct ctggtagcct ggtggcgcgt gtgctacgtt ccaactaacc agcagcgcct
781 cacttatgac cagctcaaag agttggagaa tgagccatgg ccctacgctt ccattacaaa
841 caattgctat gagttttgct gcagagtaat ggcacttgac gacacatggc ttgagaggag
901 gttagtcagc actggaaaat tcaatcaccc cacacaagat tggtcacagg ataccccgga
961 ttttcaccag gactcgaaac ttgagatggt aagagatgcc gtgctatcag ctattaatgg
1021 ccttgtgtca cagcccttta aaaacatttt gtcaaagatc aaaccattaa acgttctcaa
1081 tctcttgtca aattgcgatt ggaccttcat gggggttgtg gaactgattg tgctcctaac
1141 ggagttgttt gatgtgttct ggaccccacc agacatctca agtttcattg cctcactact
1201 acctgaattt cacctgcagg gcccagaaga cctagctagg gacttggtcc ctctcatcct
1261 aggtggcata ggcctggcca ttggctttac aagagacaaa gtgacgaaag tgatgaagag
1321 tgccgtcgat gggttgagat cagcgacaca gctcgggcag tacggactgg aaatattctc
1381 aatcatcaag aaatatttct ttggcgggga ccaaacggaa aagaccttgc ggggtattga
1441 ggatgcagtg atagacatgg aggtgttatc tagcaccaat gtgacacaat tggtcaaaga
1501 taagaaattg gccagaacct acatgaatgt gctagacaat gaagaggaaa aagcaaggaa
1561 actctcagtc cgtagtgctg atccgcacat agtgacctca gtcaacaatc tgatatcacg
1621 aatatctatg gcaagatcag ccttggccaa agcccaggct gagatgacat ctcgcccacg
1681 ccctgtggtc ataatgatgt gtggcccccc cggcatcgga aaaaccaagg ccgccgaaca
1741 cctggctggc cgattggcaa acgagattag accaggaggt aaagttggac ttgtgccccg
1801 ggaatccata gatcactggg acggatacca tggcgaggat gtcctactat gggatgacta
1861 tggcatgtca aagataacgg aggactgtaa taagctacaa gccatagctg acactgcacc
1921 cctatcactt aattgtgaca ggatagagaa caaaggcatg caattctcct cagatgcaat
1981 aatcataacc accaatgccc ctggcccggc cccggtggac tttgtcaacc taggccctgt
2041 gtgcaggcgg gtggactttt tagtttactg ttctgcccct gaaattgagc aaatgagaag
2101 gacccatcct ggtgatgcca atgccatcaa agacttatac aaaagggact actcacactt
2161 aaaaatggaa ttggcaccac aaggtggttt tgatagtcag ggtaacacac catttgggaa
2221 gggcatcatg aaacccacga ccctcaatag gctactcatt caggcaacag cattagctat
2281 ggagcggcaa gacgagttcc agctccaagg ggctgtctac aactttgatg aagacagggt
2341 gtccgccttc acaagcctgg cccgagctaa cggcttgggg cttttaagca tggcaacatt
2401 gggtaaaagg ctcagaagtg tcaaatctat ggagggcctg cgtaacgcat tggtgggcta
2461 caaaatagga gagtgtgata taatctggaa caccagagtg tattcaatta aaagtgatgg
2521 tagtgctgtc acaatcaagg aaaaacaaac cccaacttca ccccaaaacc aagccattag
2581 cacagccact cttgcactct ctaggttgcg ggccgctaga gctctcgcat acgcctcctg
2641 cctacagagt gcagtgctgt caatacttca agtagctggc tctgccctgg tggttagcag
2701 agccgttaag cgcatgtttg gcacgcgcac tgaacaacct atgttggaag gcaagcacaa
2761 agaacataac tgtagagtgc accgcgcaga ggcagctggc catggtccta ttgggcacga
2821 tggagtcatc gaacgctatg gcctctgtga gagtgagcaa gaagaagaag acgagcaaac
2881 agttgagcta cccactgcca ataaagaagg caaaaacaag ggcaagacca aaaagggccg
2941 tggacgaaaa tccaatttta atgctttctc aagacgaggc ctcagtgatg aagagtatga
3001 agaatacaag aagatcagag aagaaaagag tggcaattac agcatccagg agtacctcga
3061 ggaccgccaa cgatatgagg aagaacttgc tgaagtgcag gctggtgggg atggtggaat
3121 tggtgagact gaagcagaga ttcgccatcg ggttttctat aaatcaaaat ccggcatgag
3181 aaagcaacgc caagaagaac ggcgtcagtt gggtctcgtt agcggttctg agatccgcaa
3241 acgcaagccc atagactgga ccccccctaa gaatgattgg tcagaagaca ccaggactgt
3301 caactatgat gaacacatta gctttgaagc ccctccctca atttggagta gggtggtgaa
3361 gtttggcagt ggttggggtt tttgggtgag ctcaacagtg tttataacca cgacccatgt
3421 cataccacct ggggccaaag aagtctttgg tgaagacctc agtaatgtgg ccatccatag
3481 agttggtgaa ttcacccagt tccgtttctc caaaaagatg agacctgacc tcaccggtat
3541 ggttttagaa gaaggttgcc cagagggaac ggtgtgcacc ataatgatca agagagattc
3601 tggtgagttg ctgccgctcg ccgttcggat gggggcagtg gcatcaatga agatccaagg
3661 caaacttatg catgggcaat caggaatgtt actcaccggt gctaatgcca aaggcatgga
3721 ccttgggact atacccggtg attgtggagc accctatgtc cacaagaggg gaaatgactg
3781 ggtggtctgt ggggtacatg cagccgccac aaaatcaggc aacactgtgg tgtgcgccat
3841 acaaggtggc gatggtgaag ccactctaga aggtggcggt caaaacaagg gccactatgc
3901 agggcatccg atactaaggt atgggaatgg cccttcacta tcaaccaaaa caaaattttg
3961 gaaatcaacc ccccagcctt tgcctcctgg tacatatgag ccagcttacc ttggaggcag
4021 agaccccaga gttgaggggg gcccatcctt acagcaggtg ttaagggacc agttaaaacc
4081 atttgccgag ccccgtggca gattacccga agcgggcttg ttggaagctg cagttgaaac
4141 ggtcaccaat gctattgaac aggtcatgga cacaccggtg gcatggagct atagtgatgc
4201 ttgcatgtca ctagataaga caaccagttc cggccacccc catcacaaga agaaaaatga
4261 tgattggaat gggaattcat ttgtgagaga attgggtgac caggcggcac acgctaacag
4321 catgtatgag cttggtaagt ccatgaaacc tgtgtacaca gcagccctaa aggatgagct
4381 agtcaaacca gataaggtgt acacaaaaat taaaaagaga ctgctttggg gcgcggacct
4441 cggtaccgtc attcgcgctg ccagagcatt tggaccattt tgtgaggcca taaaacccca
4501 tgtaattaag ttgcctatta aggtgggtat gaatgccata gaggatggcc ccttgattta
4561 tgctgagcac tccaagtata aatttcatta tgatgctgac tatacagctt gggactcaac
4621 acaaaacaga gaaatcatga tggaatcttt taacattatg tgcaagctta cagccaatcc
4681 ctcattggcc gcagtggtgg cacaggatct actctcccca tctgaaatgg atgttggtga
4741 ctatgtgatc agtgtcaaag atggtttacc atctggcttc ccatgcactt cacaggtgaa
4801 cagtatcaac cactggataa tgaccctgtg tgcactgtca gaagtcactg gcttgtcccc
4861 agatgtgata cagtcacaat cctacttctc attttatggt gatgatgaaa tagtctcaac
4921 agatatagaa tttgacccaa ttagattgac acaagtattg aaggaatatg gtttgaagcc
4981 tacaagacct gacaaaactg atggcccaat tattgttaga caacaggtcg atggcctagt
5041 cttcctccgg cgcaccattt ctaaggatgc cattggatac cagggacgac tcgaccgtaa
5101 ctctattgaa aggcagcttt ggtggactcg tggaccaaac catgaggacc catttgagac
5161 actggtccca cattcacaga gaaaggtcca attaatatcc ttgctaggtg aagcagcact
5221 ccacggtgaa aagttctaca ggaagatagc tggtagggtc attcaagaag tcaaagaggg
5281 agggcttgaa atctacattc ctggttggca ggccatgttc cgctggatgc gattccatga
5341 tctaagtttg tggacaggag accgcgatct cctgcctgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc cggccagctg gtaccagagg
5461 caaacacagc tgagcctata tcaatggagc ccgtggctgg ggcagcaaca gctgccgcaa
5521 ctgctggcca agttaatatg attgacccct ggataatgaa caattatgta caagcccccc
5581 aaggtgaatt caccatatcg cctaataaca caccaggtga tattttgttt gatttacaat
5641 taggccccca ccttaaccct ttcttatctc atttggccca aatgtataat ggctgggttg
5701 gcaatatgaa agtgaaggtc ctattggctg gtaatgcttt cacggctggt aaaataatca
5761 ttagttgcat accccctggc tttgccgcac aaaatatttc tattgcccag gccaccatgt
5821 tcccccatgt tatagctgat gttagggttt tggagcccat tgaggtgcca ttggaagatg
5881 tgaggaatgt gctcttccac aacaatgaca acacgccaac tatgcggttg gtgtgcatgt
5941 tatacacccc cttgcgggcc agtggtagct cgtctggaac tgaccccttt gtgattgctg
6001 ggcgtgtttt gacatgccca agtcctgatt ttagcttttt gtttttggtc ccccccaatg
6061 tagagcaaaa gactaaacct ttcagtgtcc caaaccttcc attgaatacc ctttcaaatt
6121 cgagagtccc ttctctaatc aaatcaatga tggtgtccag ggaccatggg cagatggttc
6181 agtttcaaaa tggtagggtc accctagatg ggcagctgca aggcaccaca cccacatcag
6241 ctagtcagct gtgcaaaatc aggggcagtg tcttccatgc caatggtggg aatgggtaca
6301 acttaacaga actggatggg agcccatacc acgcatttga gagccccgca ccaatagggt
6361 ttccagatct aggtgaatgt gattggcaca tggaggcttc tcctaccacc caatttaata
6421 ccggagaagt tataaaacaa gttaatgtta aacaagagtc agcattcgcc ccccaccttg
6481 gcaccgtaca ggtagacggc ctgagtgatg tgagtgtcaa caccaacatg atagctaaat
6541 taggatgggt gtctcccgtc agtgatggac acaaagggga tgtcgacccg tgggtcattc
6601 cacgctacgg ttcaaccctg actgaggccg cccaattagc ccccccaata tatcccccag
6661 gctttggtga ggccattgtg tttttcatgt cagattttcc cattgcccat ggcaccaatg
6721 gcttgagtgt gccctgcact ataccccaag aatttgtcac ccattttgtc aatgaacagg
6781 cccctactag aggggaagca gccttgctac actatctgga ccctgatact aatagaaatc
6841 ttggtgagtt taaattatat cctgatggct ttatgacatg tgtgcctaac tccagtggca
6901 ctggtccaca aactcttcca atcaatggtg tctttgtctt tgtgtcctgg gtttctagat
6961 tttatcaatt aaagcctgtg ggaacagccg gcccggctcg taggcttggg attaggagat
7021 cataatggct caagccatat ttggagccat agcagcaaca gcagccggta gtgctgttgg
7081 tgctggtata caagctggaa ccgaagctgc cctacagcat caaagatttc agcaagatct
7141 gaccttacaa aagaattcct ttattcatga taaagagatg atgggcctac aggtagaggc
7201 ttcaactgca ctcctccaaa acagcttggg tacgaggtac aatatgttga ccaaagcagg
7261 gatgacatcc gcagacgcgg cacgtatggt agtgggggca cccgcgactc gtgtcgttga
7321 ctggaacggg actaggatcg ccgcacccat gtcgactgcg acgacactta ggtctggtgg
7381 tttcatgacc gtaccaactg tttatagggg taataaagat aaacaatcaa ttggtggtgg
7441 tttttctaat gtaaattatg atccctcagt cccctcttcc cgcacttctc aatgggtctc
7501 ttctcaaaat tcaatgcgtt ccactctgga accattccat ccaggtgctc tgagaaccac
7561 atgggttacc ccacctgggt caacttctac ttctacaatt tctacagttt ctactgtgcc
7621 aaaattcttt aatacagaaa ggttaccctt attcgcaaac aggggtaagt gattttgtaa
7681 tatgaattag tgggcatcat attcaatttg gaatcaatta gatatttaga ttggcagatg
7741 atgtt
//