Typing tool
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Typing tool
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Complete norovirus genomes
| MH218721 | GI.3 | |
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| GI.P13 |
ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS MH218721 7704 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GI isolate NORO_80_24_09_2014, complete genome.
ACCESSION MH218721
VERSION MH218721.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7704)
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 7704)
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..7704
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="NORO_80_24_09_2014"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="United Kingdom"
/collection_date="24-Sep-2014"
/note="genotype: GI.Pd_GI.3"
gene 5..5404
/gene="ORF1"
CDS 5..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17821.1"
/translation="MMMASNDAIAVADVSNNNANTNNENIGSRLMAKIRGRIGPQRGE
TTTKIKDADMALDLLRRSQTPSPCRQDSAPKAQRDRPPRTASEVKRALGWDAEPEHQE
STARAWCDLSKEEKEEIIRNNERLFDAGGVTPSTLPSTFERTDSSSVTDEQQPVTWSS
NGGVDLGINELTTVRGPFWNMCPLPPLEARNSGPAKEPLIGDMVEFYEGHIFHYAIYI
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYIPTSQQRLTYEQLKELENEPWPYAS
ITNNCYEFCCKVMALDDTWLQRRLVTSGKFNHPTQDWSQDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKNILSKIKPLNVLNLLSNCDWTFMGVVELVVLLAELFDVFWTPPDIS
SFIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQTEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLAKAYMN
VLDNEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAELTSRPRPVVIMMC
GPPGIGKTKAAEHLAGRLAAEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQTRRAHPGDTNAIKDLFKKDFSHLKMELAPQGGFDSQGNTPFGKG
VMKTTTLNRLLIQATALAMERQDEFQLQGAVYNFDEDRVAAFTNLARANGLGLISMAT
LGKKLRSVKSMEGLRNALLGYKIGECNIIWNTRVYSVKSDGSNVTIKEKQAPSSPQHQ
AISTATLALSRLRAARALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTRTEQPIL
EGKHKEHNCRVHRAEAAGHGPIGHDGIIERYGLCESEQEGEDDQTVELPTAGKEGKNK
GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAE
VQAGGDGGIGETEAEIRHRVFYKSKSGLRKQRQEERRQLGLVSGTEIRKRKPIDWTPP
KNDWSEDTRTVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGAKE
IFGENISNIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMIKRDSGELLP
LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYIHKRGNDWVVC
GVHAAATKSGNTVVCAIQGGEGEATLEGGDQNKGHYAGHPILRYGSGPSLSTKTKFWK
SNPQPLPPGTYEPAYLGGKDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
TVTNAIEQVMDTPVAWSYSDACMSLDKTTSSGYPHHKRKNDDWNGSSFVRELGDQAAH
ANSMYELGKSMKPVYTAALKDELVKPDKVYNKIKKRLLWGADLGTVIRAARAFGPFCE
AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKYHFDADYTAWDSTQNREIMMESFNIM
CKLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCA
LSEVTGLAPDVIQSQSYFSFYGDDEIVSTDIEFDSNRLTQVLKEYGLKPTRPDKTDGP
IIVRQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHTQR
KVQLISLLGEAALHGEKFYRKIASRVIQEVKEGGLEIYIPGWQAMFRWMRFHDLSLWT
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="AWR17822.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFVSQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPDLPLNVLSNSRVPSLIKFMMVSQDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKMRGTVYHASGGQGLNLTEIDGTPYHAFESPAPIGFPDIGDSDWH
INASPATAFGSGESVKRLDMEQGSSFAPHLGTVQLYYMPAMRANTDLICSLEWLSPPS
GGTPNKVNPWAIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIANGQDGLRVPC
TIPQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQ
TLPINGVFTFVSWVSRFYQLKPVGTTGPVRRLGIRRS"
gene 7025..7672
/gene="ORF3"
CDS 7025..7672
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17823.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQSN
TFKHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARVVVGAPATRVVDWNG
TRVSAPQSTATTLRSGGFMTIPTLYKGKQQQKPTEIGLSNPNYGSSVSSSRVADWVSS
QNSSRSSLGPYHPSALQTTWVTPPGSSSTSTISSVSTAPRYFNTDRLPLFANMRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
61 taacaccaac aatgaaaaca taggatctcg ccttatggca aagatccgtg ggcgtatagg
121 cccacaacgt ggtgaaacaa ccacaaagat caaagatgcc gacatggcgc tcgacctttt
181 gcgccggtca caaacaccat ctccatgtcg gcaagacagc gcccccaagg ctcaaaggga
241 ccgtcccccg cggaccgctt cagaggtaaa aagggcgctg gggtgggatg ctgaaccaga
301 acaccaagaa agcacggcta gggcatggtg tgacctctca aaagaggaga aggaagagat
361 aatacgtaac aatgagaggc tttttgacgc tggaggtgtc actccatcga ccctgcccag
421 cacatttgag aggactgatt caagcagtgt cactgacgaa caacaacctg tgacatggtc
481 ttctaatgga ggggttgacc ttggcatcaa tgaattgacc acagttcgtg gcccgttttg
541 gaacatgtgc cccctcccac cactagaagc ccgtaatagt ggccctgcta aggaacccct
601 tataggtgac atggtcgagt tctatgaagg acacatattc cattatgcca tttacatcgg
661 acagggcaag actattggag tccactcacc acaggccgct ttttccatac ccagaataac
721 catccaccca ctggtggcct ggtggcgtgt gtgttacatc cccactagcc aacaacgcct
781 tacctacgaa cagcttaagg agttggagaa tgaaccatgg ccctatgcct caatcaccaa
841 caactgttat gagttttgct gtaaagtgat ggcacttgat gatacctggc tccaaagaag
901 actggttact agtggaaaat ttaaccaccc tacacaggac tggtcacagg acaccccaga
961 tttccatcag gattcgaagc ttgaaatggt aagggacgct gtcttgtcgg ccatcaacgg
1021 tcttgtatca caacccttta agaacatcct gtctaaaatt aaaccattaa atgtgcttaa
1081 tcttttatca aactgtgatt ggaccttcat gggcgtcgtg gaactggtag tgctcctggc
1141 agaactgttt gatgtgttct ggaccccacc agatatttca agcttcattg catctttact
1201 acctgatttt catctacaag gcccagaaga cctagccagg gacttagttc ccctcatatt
1261 gggtggcata ggcttagcaa ttggttttac aagagacaaa ataacaaaag tgatgaagag
1321 cgccgttgat gggctgcggt cagcaacgca gctcggacaa tatggactgg agatattctc
1381 aattatcaag aaatacttct ttggagggga ccaaacagaa aagaccctgc gaggcattga
1441 agatgcggtg atagacatgg aagtgttgtc cagcaccaat gtgacacaac tagtcaaaga
1501 taagaagtta gccaaagctt acatgaatgt actggacaat gaggaggaaa aagcaagaaa
1561 gctctcagtc cgtagtgctg acccacatat agtgacctct gtcaacaact tgatatcacg
1621 catctctatg gcaagatcag ctctggctaa agcccaagct gagttgacgt cccgcccacg
1681 accagtggtt ataatgatgt gtggtcctcc tggtatcgga aagactaagg ccgctgagca
1741 cctagccggc cgactagctg ctgaaatcag acctggaggt aaagttggcc ttgtgccccg
1801 ggagtccata gaccattggg atggatatca tggcgaggac gtcttgctct gggatgacta
1861 tggcatgtca aagataacag aggattgtaa taagttacag gctatagctg atactgcacc
1921 actgtcactt aattgtgaca gaatagaaaa caaaggcatg caattctctt ctgatgcaat
1981 aattataacc accaatgccc ctggcccagc cccagtcgac tttgtcaact taggccccgt
2041 gtgcagacga gtggactttt tagtttactg ttctgcaccc gagattgaac aaacgcggag
2101 ggctcatcca ggtgacacca atgccatcaa ggatctgttt aaaaaggact tctcacactt
2161 gaaaatggaa ctggctccac agggcggctt tgatagtcag ggcaatacac cttttgggaa
2221 gggtgtcatg aaaaccacaa ccctcaatag gctactgata caggccacag cattagccat
2281 ggagcgacaa gatgaattcc aactccaggg ggctgtctac aactttgacg aggatagagt
2341 ggccgccttc accaatctag ctcgagctaa tggcctgggg cttataagta tggcaacatt
2401 aggcaagaag ttgagaagtg ttaagtccat ggaaggcttg cgcaatgcac tactgggata
2461 caagattgga gagtgcaata taatctggaa caccagggtg tattcagtta agagtgacgg
2521 gagcaatgtc acaattaaag aaaagcaggc accgtcctca ccccaacatc aagctatttc
2581 cacagccacc ctggcgctct ctagactgcg ggctgccaga gcccttgcgt acgcttcctg
2641 cttacaaagt gcagtgttgt caatacttca ggttgccggc tctgccttag tggtgagcag
2701 ggctgtaaaa cgcatgtttg gcacacgcac cgaacagccc attctggagg gtaagcataa
2761 agaacacaac tgcagagtac accgtgcaga ggccgccggt catggcccca ttggccatga
2821 tggaatcatt gaacgttatg gtctgtgtga gagtgagcag gaaggagaag atgaccaaac
2881 tgtggagttg cccactgctg gcaaagaagg caagaacaaa ggcaaaacca aaaagggccg
2941 cggacggaaa tccaacttca atgcattctc taggcgtgga cttagtgatg aggaatacga
3001 ggagtacaag aaagtaagag aagagaaggg tggcaactac agcatacaag agtaccttga
3061 ggaccgccag cgctatgaag aagaactcgc tgaggtgcaa gctggtggag atggtggaat
3121 cggcgaaact gaagctgaga tccgccaccg tgttttctat aaatcaaagt ctggcttgag
3181 aaaacagcgg caagaggaac gccgccagtt aggcctcgtg agcggtactg aaatccgcaa
3241 acgcaaaccc atagactgga ccccccccaa aaatgattgg tcagaggaca ctagaactgt
3301 taattatgat gaacacatca gctttgaagc ccccccttca atctggagta gagtagttaa
3361 atttggcagt ggctggggtt tttgggtgag ttcaacagtg ttcatcacca caacacatgt
3421 tataccacct ggtgctaaag agatctttgg tgagaacatt agcaatattg ccatccatag
3481 agttggcgaa ttcactcaat tccgtttttc caagaaaatg aggcctgacc tctctggcat
3541 ggtcctggaa gagggatgcc ctgagggcac agtgtgcacc ataatgataa aaagagactc
3601 tggagaactg ttgccgctgg ctgttcgtat gggagcagtg gcctcaatga agatccaagg
3661 gaagctcatg catggacagt cagggatgtt gctcaccggt gccaacgcca agggcatgga
3721 ccttggcacc atacctgggg attgtggagc gccctatatc cataagagag ggaatgactg
3781 ggtggtttgt ggggtgcatg cagcagccac gaaatcaggc aataccgtgg tgtgcgccat
3841 acaaggtggt gaaggtgaag ccacgctaga gggtggcgat caaaataagg gtcattatgc
3901 aggacaccca atactaagat atggtagtgg cccttcattg tcaactaaaa caaagttttg
3961 gaaatcaaac ccccaacctc taccccctgg tacatatgaa ccagcctacc tcggtggcaa
4021 agaccccagg gttgaaggtg gtccatcttt gcagcaagtg ttgcgagacc agctaaaacc
4081 atttgctgaa ccccgtggca ggttgcctga agcaggattg ctagaagccg cggttgaaac
4141 tgtcaccaat gcaattgaac aggtcatgga cacacctgtg gcatggagtt acagcgacgc
4201 ctgcatgtcc ttggacaaaa caaccagttc tggctaccct catcacaaaa ggaagaatga
4261 tgactggaac gggagttcat ttgtgagaga attgggagac caggcagcgc atgctaatag
4321 catgtatgag cttggtaaat ctatgaaacc agtgtacaca gcagcactca aggatgagct
4381 tgttaagcca gacaaggtgt acaataaaat taagaaaagg ctactctggg gggcggacct
4441 cggcaccgtc atacgtgctg ctagggcttt tgggccattt tgtgaagcaa taaagcccca
4501 tgtgattaag ttgcccatta aagtgggcat gaatgccata gaagatggac ccttaattta
4561 tgcagaacac tccaaatata agtatcactt tgatgctgat tacacagcat gggactcaac
4621 acaaaacagg gagattatga tggagtcctt taacatcatg tgtaaactca ccgctaatcc
4681 ctccctggcc gcagtggtgg cacaggacct gctctctcct tctgagatgg atgtcggtga
4741 ttatgtgatc agtgtcaaag atggtctacc atctggcttt ccatgcacct cacaagtgaa
4801 cagtatcaac cattggatct acactttgtg cgccttatca gaggttactg gtttggctcc
4861 tgatgtaata cagtcacagt cttacttttc attttatggt gatgatgaaa tagtttcaac
4921 agatattgaa tttgactcaa acagactaac acaggtgcta aaagagtatg gcctaaaacc
4981 cacaagacct gataaaactg atggtccgat cattgtaagg caacaggttg atggcttggt
5041 tttccttcgg cgcaccatct cgaaggatgc catcgggtac cagggtcggc ttgatcgcaa
5101 ttccattgaa agacagctct ggtggacccg agggcccaat catgatgatc catttgaaac
5161 cttggtccca cacacacaga ggaaggtcca attaatatcc ctattaggtg aggccgcact
5221 ccatggtgag aaattttata gaaagatagc cagtagggtg atccaggagg ttaaagaagg
5281 aggattggaa atttacatcc ctgggtggca ggccatgttc cgctggatgc gattccatga
5341 tttgagtttg tggacaggag accgcgatct cctgcccgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc cggccagctg gtaccagagg
5461 caaatacagc tgagcctata tcaatggagc cagtggctgg ggcagcgaca gctgccgcaa
5521 ccgctggcca agttaacatg attgacccct ggattatgaa taattatgtg caagccccac
5581 aaggtgaatt caccatatca ccaaacaaca caccaggtga tattctattt gatttacaat
5641 taggccctca cctcaacccc tttctatccc atttggctca aatgtacaat gggtgggtag
5701 gtaacatgaa agtgaaagtt ctattggcag gtaatgcttt cacggcagga aaaattatta
5761 ttagttgtat accccctggt tttgtctcac agaatatatc tatagctcaa gctacaatgt
5821 tcccccacgt tatagctgat gtcagggtcc tggagcccat tgaggtccca ttggaggatg
5881 tgaggaatgt gttgttccac aataatgata acacaccaac catgagactg gtatgcatgc
5941 tctacacccc cttgcgtgcc agcggaagct catctgggac agaccccttt gtgattgctg
6001 ggcgtgtgtt gacctgccct agccctgatt ttagcttctt attcttggtg ccccccaatg
6061 tagaacaaaa gactaaacct tttagtgttc cagatctccc actcaatgtt ctatcaaatt
6121 caagggtgcc gtcactgata aaattcatga tggtgtcaca ggaccatgga cagatggtac
6181 aatttcagaa tggcagggtc acactggatg gacagctcca gggcaccaca ccaacatcgg
6241 ccagccagct ctgcaagatg cgggggacgg tttaccatgc ctccggtggt caagggctca
6301 atttaactga gattgatggc accccctatc atgcatttga aagcccagct cccattggtt
6361 tccctgacat aggagacagc gattggcata tcaacgcttc acccgccacc gctttcggca
6421 gtggcgaaag cgtcaaaaga ctagatatgg aacagggctc ttcatttgcc ccacatttgg
6481 gtactgtaca gctatactac atgccagcta tgagagctaa cactgacctg atctgctcat
6541 tggagtggct atccccgcct agcggaggca ctccaaacaa agtcaaccct tgggccattc
6601 cacggtatgg ttcaacttta actgaagctg ctcagctagc cccaccaatt tacccccctg
6661 gctttggaga agctatagtt ttctttatgt ctgattttcc tatagcaaat ggtcaagatg
6721 ggttaagagt gccctgcact ataccccaag aatttgtaac ccattttgtc aatgaacaag
6781 caccaacccg tggggaagct gcccttcttc attatgttga ccccgacaca catcgcaatt
6841 tgggtgagtt taagttatac cctgaaggat ttatgacttg tgtaccaaat tctagtggta
6901 gtggtcccca aacgctgcct atcaatggag tcttcacttt tgtctcttgg gtttcccgtt
6961 tctatcaatt aaagcctgtg ggaacgaccg gaccggttcg taggctagga atcaggagat
7021 cataatggcc caggcaatat ttggagcaat agctgcgacg gctgctggta gcgctgtggg
7081 tgcaggcatt caggctggta ctgaggccgc actccaacat cagcggttcc agcaggattt
7141 aacgttgcag agcaacactt tcaaacatga caaagaaatg ctagggctac aggttggtgc
7201 ctccactgct cttttgcaaa acagcctcaa cacccgctac aacatgctca caaatgctgg
7261 tctctcgtcc tcagatgcag cacgcgtggt ggttggcgcg ccagctacac gtgttgttga
7321 ctggaacggc accagggtgt cagcaccaca atctacagct accacgttga ggtctggtgg
7381 gttcatgaca atcccaactc tgtacaaggg caaacaacag cagaaaccaa ctgaaattgg
7441 cttatctaac ccaaattatg gttcatctgt ctcgtcttct agggttgctg attgggtttc
7501 ctctcaaaat tcttctcgct catccttggg cccgtatcac cccagtgctt tgcagacaac
7561 atgggtgacc ccacccggtt ctagttctac ttctactatt tcttctgtgt ctactgcacc
7621 tagatatttc aatactgata ggttgcctct attcgcaaat atgaggaaat aatttttgta
7681 atatgaaaga tcggaaggcg tcgt
//