Typing tool
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Typing tool
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Complete norovirus genomes
| MH218723 | GI.3 | |
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| GI.P13 |
ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS MH218723 7778 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GI isolate NORO_82_21_10_2014, complete genome.
ACCESSION MH218723
VERSION MH218723.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7778)
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 7778)
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..7778
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="NORO_82_21_10_2014"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="United Kingdom"
/collection_date="21-Oct-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="AWR17827.1"
/translation="MMMASNDAIAVADVSNNNANTNNENIGSRLMAKIRGRIGPQRGE
TTTKIKDADMALDLLRRSQTPSPCRQDSAPKAQRDRPPRTASEVKRALGWDAEPEHQE
STARAWCDLSKEEKEEIIRNNERLFDAGGVTPSTLPSTFERTDSSSVTDEQQPVTWSS
NGGVDLGINELTTVRGPFWNMCPLPPLEARNSGPAKEPLIGDMVEFYEGHIFHYAIYI
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYIPTSQQRLTYEQLKELENEPWPYAS
ITNNCYEFCCKVMALDDTWLQRRLVTSGKFNHPTQDWSQDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKNILSKIKPLNVLNLLSNCDWTFMGVVELVVLLAELFDVFWTPPDIS
SFIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQTEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLAKAYMN
VLDNEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAELTSRSRPVVIMMC
GPPGIGKTKAAEHLAGRLAAEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQTRRAHPGDTNAIKDLFKKDFSHLKMELAPQGGFDNQGNTPFGKG
VMKTTTLNRLLIQATALAMERQDEFQLQGAVYNFDEDRVAAFTNLARANGLGLISMAT
LGKKLRSVKSMEGLRNALLGYKIGECDIIWNTRVYSVKSDGSNVTIKEKQAPSSPQHQ
AISTATLALSRLRAARALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTRTEQPIL
EGKHKEHNCRVHRAEAAGHGPIGHDGIIERYGLCESEQEGEDDQTVELPTADREGKNK
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="AWR17828.1"
/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="AWR17829.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQSN
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 acgccggtca caaacaccat ctccatgtcg gcaagacagc gcccccaagg ctcaaaggga
241 ccgtcccccg cgaaccgctt cagaggtaaa aagggcgctg gggtgggatg ctgaaccaga
301 acaccaagaa agcacggcta gggcatggtg tgacctctca aaagaggaga aggaagagat
361 aatacgtaac aatgagaggc tttttgatgc tggaggtgtc actccatcga ccctgcccag
421 cacatttgag aggactgatt caagcagtgt cactgacgag 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 tcttgtgtca caacccttta agaacatcct gtctaaaatt aaaccattaa atgtgcttaa
1081 tcttttatca aactgtgatt ggaccttcat gggcgtcgtg gaactggtag tgctcctggc
1141 agaactgttt gatgtgttct ggaccccacc agatatttca agcttcattg catctttact
1201 acctgatttt catctacaag gcccagaaga cctagccagg gacttagtcc ccctcatact
1261 aggtggcata ggcttagcaa ttggttttac aagggacaaa ataacaaaag tgatgaagag
1321 cgccgttgat gggctgcggt cagcaacgca gctcggacaa tatggactgg agatattctc
1381 aattatcaag aaatacttct ttggagggga ccaaacagaa aagaccctgc gaggcattga
1441 agatgcggtg atagacatgg aagtgttgtc cagtaccaat gtgacacaac tggtcaaaga
1501 taagaagtta gccaaagctt acatgaatgt actggacaat gaggaggaaa aagcaagaaa
1561 gctctcagtc cgtagtgctg acccacatat agtgacctct gtcaacaacc tgatatcacg
1621 catctctatg gcaagatcag ctctggctaa agcccaagct gagttgacgt cccgctcacg
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 cccagttgac tttgtcaact taggccccgt
2041 gtgcagacga gtggactttt tagtttactg ttccgcaccc gagattgaac aaacgcggag
2101 ggctcatcca ggtgacacca atgccatcaa ggatctgttt aaaaaggact tctcacactt
2161 gaaaatggag ctggctccac agggcggctt tgataatcag ggcaacacac cttttgggaa
2221 gggtgtcatg aaaaccacaa ccctcaatag gctactgata caggccacag cattagccat
2281 ggagcgacaa gatgaattcc aactccaggg ggctgtctac aactttgacg aggatagagt
2341 ggccgccttc accaatctag ctcgagctaa tggtctgggg cttataagta tggcaacatt
2401 aggcaagaag ctgagaagtg ttaagtccat ggaaggcttg cgcaatgcac tactgggata
2461 taagattgga gagtgcgata taatctggaa caccagggtg tattcagtta agagtgacgg
2521 gagcaatgtc acaattaaag aaaagcaggc accgtcctca ccccaacatc aagctatttc
2581 cacagccacc ctggcgctct ctagactgcg ggctgccaga gcccttgcgt acgcttcctg
2641 tttacaaagt gcagtgttgt caatacttca ggttgccggc tctgccttag tggtgagcag
2701 ggctgtgaaa cgcatgtttg gcacacgcac cgaacagccc attctggagg gtaagcataa
2761 agaacacaac tgcagagtac accgtgcaga ggccgccggt catggcccca ttggccatga
2821 tggaatcatt gaacgttatg gtctgtgtga gagtgagcag gaaggagaag atgaccaaac
2881 tgtggagttg cccaccgctg acagagaagg 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 ttcacccaat tccgtttctc caagaaaatg aggcctgacc tctctggtat
3541 ggtcctggaa gagggatgcc ctgagggcac agtgtgcacc ataatgataa aaagagactc
3601 tggagaactg ttgccgctgg ctgttcgaat gggagcagtg gcctcaatga agatccaagg
3661 gaagctcatg catggtcagt cagggatgtt gctcaccggt gccaacgcca agggcatgga
3721 ccttggtacc 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 caaagttctg
3961 gaaatcaaac ccccaacctc taccccctgg tacatatgaa ccagcctacc tcggtggcaa
4021 agaccccagg gttgaaggtg gtccatcttt gcagcaagtg ttgcgagacc agttaaaacc
4081 atttgctgaa ccccgtggca ggttgcctga agcaggattg ctagaagccg cggttgagac
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 ctagagcttt tgggccattt tgtgaagcaa taaagcccca
4501 tgtgattaag ttgcccatca 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 agtgttaaag atggtctacc atctggcttt ccatgcacct cacaagtgaa
4801 cagtatcaac cattggatct acactttgtg cgccttatca gaggttactg gtttggctcc
4861 tgatgtaata cagtcacagt cttacttttc attttatggt gatgatgaaa tagtttcaac
4921 agatattgaa tttgactcaa acagactaac acaggtgcta aaagagtatg gcttaaaacc
4981 cacaagacct gataaaactg atggtccgat cattgtaagg caacaggttg atggcttggt
5041 tttccttcgg cgcaccatct cgaaggatgc catcgggtac cagggtcggc ttgatcgtaa
5101 ttccattgaa agacagctct ggtggacccg agggcccaat catgatgatc catttgaaac
5161 cttggtccca cacacgcaga 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 gcaacatgaa agtgaaagtt ctattggcag gtaatgcttt cacggcagga aaaattatta
5761 ttagttgtat accccctggt tttgtctcac agaatatatc tatagctcaa gctacaatgt
5821 tcccccacgt tatagctgat gtcagggtcc tggaacccat tgaggtccca ttggaggatg
5881 tgaggaatgt gttgttccac aacaatgata 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 gggcactaca ccaacatcgg
6241 ccagccagct ctgcaagatg cgggggacgg tttaccatgc ctccggtggt caagggctca
6301 atttaactga gattgatggc accccctatc atgcatttga aagcccagct cccattggtt
6361 tccctgacat aggagacagc gattggcata tcaacgcttc acccgccacc gcttttggca
6421 gtggcgaaag cgtcaaaaga ctagatatgg aacagggctc ttcatttgcc ccacatttgg
6481 gtactgtaca gctatactac atgccagcta tgagagccaa 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 caccgcaatt
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 ctgaggctgc actccaatat 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 atatgaaatg tgggcatcat attcaattgg atttgattaa ttattaattt ggtttaatta
7741 ttgatttggt ttaatttgga ttttgatgtt aaaaaaaa
//