Typing tool
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Typing tool
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Complete norovirus genomes
| MH218730 | GI.3 | |
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| GI.P14 |
ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS MH218730 7737 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GI isolate NORO_91_26_02_2015, complete genome.
ACCESSION MH218730
VERSION MH218730.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7737)
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 7737)
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..7737
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="NORO_91_26_02_2015"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="United Kingdom"
/collection_date="26-Feb-2015"
/note="genotype: GI.Pf_GI.3"
gene 5..5404
/gene="ORF1"
CDS 5..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17848.1"
/translation="MMMASNDAIAVADVSNNNANTNNENIGSRLMARLRGRIGPQRGE
TTTRIKDANMALDLLRRSQTPSPSRQDHPPKDQRDRPPRTALEVKKSMGWDEEPQQQE
STAKAWCDLTREEKEEIMRNNEKLFDAGGIAPAVLPSTFERATPQESTGGCQTVVWSA
SDGVDIGVDDLKTVRGPHWNMCPLPPLEARIDGPAREPRIGDMIEFYEGHIFHYAIYV
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYTPTDQQRLTYDQLKELENEPWPYAS
ITNNCYEFCCKVMALDDTWLQRKLVTTGKFNHPTQDWSKDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKDILSKIKPLNLINLLSNCDWTFMGVVELIVLVAELFNVFWTPPDIS
SFIASLLPDFHLQGPEDLAKDLVPIILGGIGLAIGFTRDKITKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQTERTLRGIEDAVIDMEVLSSTNVTQLVRDKKSAKAYMN
ILDIEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAEMTSRIRPVVIMMC
GPPGIGKTKAAEHLASRLATEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQTRRAHPGDSNAIKDLYKKDFSHLKMDLAPQGGFDNQGNTPFGKG
VMKPTTLNRLLIQATALTMERQDEFQLQGKVYNFDEDRVAAFTNLARANGLGLISMAT
LGKKLRSVKTMEGLRNALVGYRVEECDIIWNTRIYSIKSDGKSVIVKEKQNQTSSQHQ
AVSTATLALSRLRAARAVAYASCLQSAVLSILQVAGSAVVVSRAVKRMFGTSTEQPAL
EGGEREHNCRVHRAQAAGRGPIGHDGIIERYGLCESEQEDENEQVVELPSANKEGKNK
GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKIREEKSGNYSIQEYLEDRQRYEEELAE
VQAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLISGTEIRKRKPIDWTPP
KNDWSEDTRSVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGVKE
VFGEALSNVAIHRVGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCTIMIKRDSGELLP
LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVC
GVHAAATKSGNTVVCAIQGGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWK
STPQPLPPGTYEPAYLGGKDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
TVTNAIEQVMDTPVAWSFSDACMSLDKTTSSGHPHHKKKNDDWNGSSFVRELGDQAAH
ANNMYELGKSMKPVYTAALKDELVKPDKVYNKIKKRLLWGADLGTVIRAARAFGPFCD
AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKYHYDADYTAWDSTQNREIMMESFNIM
CKLTANPSLAAVVAQDLLSPSEMDVGDYIISVKDGLPSGFPCTSQVNSINHWILTLCA
LSEVTGLAPDVLQSQSYFSFYGDDEIVSTDVEFDPNKLTQVLKEYGLKPTRPDKTDGP
IVVKQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHSQR
KIQLISLLGEAALHGEKFYRKIASRVIQEVKEGGLEIYIPGWQAMFRWMRFHDMSLWT
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="AWR17849.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEVSTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMSNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVRVLLAGNAFTAGKIIISCVPPGFAAQNVSIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDSTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFNFL
FLVPPNVEQKTKPFSVPNLPLNVLSNSRVPSLIRSMMVSQDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKIRGTVFHATGGQGLNLTEVDGAPYHAFESPAPIGFPDIGECDWH
INASPANAFTNGAIIQRLDVVQDSTFAPHLGTIQLHHMLNLSANVSLMCSLEWLSPPS
GGASKKVNPWTIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSNFPIANGSDGLSVPC
TIPQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQ
TLPINGVFTFISWVSRFYQLKPVGTTGPVRRLGIRRS"
gene 7025..7672
/gene="ORF3"
CDS 7025..7672
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17850.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQNN
TFRHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARMVVGAPATRVVDWNG
TRISAPQSTATTLRSGGFMTIPTLYKGKQQQKPTEIGLSNPNYGSSASSSRVADWVSS
QNSSRSSLGPYHPSALQTTWVTPPGSSSTSTISSVSTAPRYFNTERLPLFANMRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
61 taacaccaac aatgaaaata tcgggtctcg tcttatggcg agactccgcg gacgcatagg
121 tccgcaacgt ggtgaaacca ctacaagaat aaaggatgct aacatggcgc ttgacctcct
181 gcgccgttca caaacacctt ccccatcccg acaagaccac cccccaaaag atcagaggga
241 tcgtccaccg cgcaccgccc tagaggtgaa aaagtcaatg ggatgggacg aagagccaca
301 acaacaagag agcaccgcta aggcgtggtg tgatctcaca agagaagaga aagaggagat
361 aatgcgtaac aatgaaaagc tcttcgacgc tgggggaatt gctcccgcag ttttaccaag
421 cacattcgag agagctacac cacaagaaag cactggtgga tgccagacag tagtctggtc
481 tgccagtgac ggtgtggaca ttggtgtgga tgacctgaaa acagtccgtg gccctcattg
541 gaacatgtgc cccttaccac ccttagaggc gcgcattgac ggtcctgcga gagagccccg
601 tataggggat atgattgagt tttatgaggg tcatatcttt cattatgcca tttacgttgg
661 gcaagggaag actattggcg tccactcacc acaagcagcc ttctccatac ctagaataac
721 catccatccc ttagtagctt ggtggcgtgt gtgctataca cccactgacc agcagaggct
781 cacctatgat caattgaaag aattggagaa tgagccgtgg ccctatgcct caattaccaa
841 caattgctat gagttttgct gtaaagtgat ggcccttgat gatacttggc tccaacggaa
901 attagttacc actggaaaat tcaaccaccc cacacaggat tggtcaaaag acacccccga
961 tttccatcag gattcaaaac ttgagatggt ccgggatgct gtgttgtcgg ccatcaatgg
1021 cctcgtgtca cagccattta aggacatttt gtcaaagatc aaacccctca atctgattaa
1081 tctgttgtca aattgtgatt ggacttttat gggggttgtg gaattaatag tgcttgtggc
1141 tgaattattc aatgtatttt ggacaccacc agacatatct agttttattg catcattatt
1201 gcctgacttc caccttcagg gtccagagga tttggcaaaa gatctggtcc ctattatact
1261 aggtggaatc ggtcttgcaa ttggcttcac aagagacaaa atcactaagg tcatgaagag
1321 tgccgttgat ggactgcgct cagcaacaca acttgggcaa tacgggttag aaatattttc
1381 aattataaag aaatacttct ttggaggtga ccagacagag aggaccctac ggggcatcga
1441 agatgctgtg atagacatgg aagtgttgtc cagcacaaat gtgacacaat tagtcaggga
1501 taaaaagtca gccaaggcat acatgaacat attggacatc gaggaggaaa aagccagaaa
1561 actttctgtc cgtagtgctg acccacacat agtaacctca gttaataatt tgatatcccg
1621 catctccatg gcaagatcag ccttggccaa ggcccaggca gagatgacgt cccgcatacg
1681 tccagtggtg atcatgatgt gcggtccccc aggcattggc aaaacaaaag ctgctgagca
1741 tctagctagc cggttggcca ctgagattag accaggtggc aaggtgggcc tcgtaccacg
1801 tgaatccata gaccactggg atggttacca tggtgaagag gtcttgttgt gggacgacta
1861 cggcatgtca aaaataacgg aagattgcaa caaattgcag gccattgctg acactgcacc
1921 actatcgcta aattgtgaca ggatagaaaa caagggcatg caatttgtct ccgatgcaat
1981 aattataact accaatgccc ccggcccggc cccagttgat tttgtcaatt taggacccgt
2041 gtgtagacga gtggacttct tggtctactg ctctgcacct gaaattgagc agacccgcag
2101 ggcccatcca ggcgactcca atgccataaa agacctatac aagaaagatt tctcacactt
2161 gaaaatggac ctagccccac aagggggttt tgataaccag ggtaacacgc cctttggcaa
2221 gggtgtaatg aagcccacca cccttaatcg gttgctaatc caagccactg ccctaactat
2281 ggaaagacaa gatgagttcc agctccaagg taaggtttac aactttgatg aagacagagt
2341 ggctgcgttc accaacttag cccgcgctaa tggattaggg cttatcagta tggcaaccct
2401 tggcaagaaa ctaagaagtg ttaaaaccat ggaaggattg cgtaatgcac tagttgggta
2461 tcgggtggag gagtgcgaca taatttggaa caccagaatc tactcaatca agagtgacgg
2521 taagagtgtg atagtcaagg agaagcaaaa ccagacctcg tcccaacacc aagctgtcag
2581 cacggccacc ctcgcacttt ccaggttgcg agctgcccga gcggtagcat atgcgtcctg
2641 tctgcagagc gccgtcttat ccatactcca ggtggctggt tctgcggtgg tggtgagcag
2701 agcagtaaaa cgcatgtttg gcacgagtac cgaacagccc gcactggagg gtggggagag
2761 agaacacaac tgcagggttc accgggcaca ggccgcaggc cgcggtccca tagggcatga
2821 tgggatcatt gagcgctatg gtttgtgtga gagcgagcaa gaggatgaaa atgaacaagt
2881 tgtggaacta ccatcagcca acaaggaagg taaaaataag ggcaaaacca agaaaggccg
2941 tggccgcaag tccaatttca atgctttctc acgacgtgga cttagtgatg aagagtatga
3001 ggaatacaag aagatcaggg aagaaaagag tggcaattac agcatacagg aataccttga
3061 agaccgccaa cgttatgaag aagaactcgc cgaagtgcaa gcaggtgggg atggtggaat
3121 cggtgagact gaggcagaaa ttcgccaccg ggttttctac aagtcaaaat ctggtatgag
3181 gaagcaacgc caagaggaaa ggcgacagtt agggcttatc agtggaactg agatccgtaa
3241 acgcaagcct atagattgga ccccccctaa aaatgactgg tctgaggata ccagatcggt
3301 taattatgat gagcacatca gttttgaagc ccccccctca atttggagta gagttgtcaa
3361 atttggtagt ggctggggat tttgggtgag ctcaacagtg ttcatcacca caacccatgt
3421 cataccacct ggagttaaag aagtgttcgg ggaagccctt agcaatgttg ccatccatag
3481 agttggtgag ttcacccagt tccgtttctc caagaaaatg agacctgacc ttacaggtat
3541 ggtcctggaa gaaggatgcc cagagggtac ggtgtgcact atcatgataa agagggactc
3601 tggtgagcta ctaccgctcg ccgtgcgtat gggggcagtg gcctcaatga agattcaagg
3661 gaagctcatg catggtcagt caggaatgct gctcactggt gccaacgcta agggtatgga
3721 ccttggtacc atacctggag actgtggggc gccttatgtc cataagagag gtaatgattg
3781 ggtggtgtgt ggagtgcacg cagcagccac gaaatcaggc aacacagtgg tgtgcgcgat
3841 ccaaggtggt gagggtgaag ccacactaga gggtggtggt caaaacaaag gtcactatgc
3901 tggacaccca atactgaggt atgggaatgg accttctcta tcaaccaaaa caaagttctg
3961 gaaatcaacc ccccaacctc taccccctgg tacctatgaa ccagcctatc taggtggcaa
4021 agatccaagg gtcgacgggg ggccatcttt gcaacaagtg ctcagagatc agttaaagcc
4081 attcgctgaa ccccgaggca ggttgccaga agctggacta ctagaggcag cagtggagac
4141 agtcactaat gcaatagaac aggtcatgga cacgccagtg gcatggagtt ttagcgatgc
4201 ctgtatgtct ctagataaga ccactagttc tggtcacccc caccacaaaa agaagaatga
4261 tgattggaat gggagctcat ttgtgcgtga attgggagac caggctgcac acgctaataa
4321 catgtacgag ctcggaaaat ccatgaaacc agtctacact gcagccctca aagatgagct
4381 tgtgaagccg gacaaagtgt acaacaaaat taagaaaagg ctgttgtggg gagcggacct
4441 tggtaccgtc atccgagctg ccagagcatt tggccctttc tgtgatgcta taaaacccca
4501 tgtcattaag ttacctatca aggtaggcat gaatgccata gaggatggcc cattgatcta
4561 cgcagagcac tccaagtata aatatcatta tgatgctgac tacacagctt gggactcaac
4621 tcaaaacagg gaaattatga tggaatcctt taacatcatg tgcaagctca cagccaatcc
4681 ctctttggct gccgtggttg ctcaagattt gctctctcca tccgaaatgg acgtaggaga
4741 ctacataata agtgtcaaag atggtttgcc atcaggcttt ccatgcacat cacaggttaa
4801 cagcatcaat cattggatcc tcactctttg tgctttgtca gaggtcactg gcctcgctcc
4861 tgatgttctt cagtcacaat cctacttctc cttctatggt gatgatgaaa ttgtctccac
4921 agatgttgag tttgatccaa acaaattaac acaagtgctc aaggaatatg gtctcaaacc
4981 caccaggcca gacaaaactg atgggcctat tgtggttaaa cagcaagtgg atggtctggt
5041 tttcctccgg cgcaccatct caaaagatgc catcgggtac caagggcggc ttgaccgcaa
5101 ctctattgaa agacaactct ggtggactcg aggccccaat catgatgacc cttttgaaac
5161 cttggtgcca cattcacaaa gaaagatcca gctaatatct ctactaggtg aagcagcgct
5221 ccatggcgaa aagttctaca gaaagatagc aagcagggtt atccaagaag tgaaggaagg
5281 tgggctagaa atctacatcc ctggatggca agccatgttc cgctggatgc gattccatga
5341 tatgagtttg tggacggggg atcgcgatct cctgcccgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc tggtcagctg gttccagagg
5461 ttagtacagc tgaacctata tcaatggaac ctgtggctgg tgcagctaca gcagcagcaa
5521 ccgcaggtca agttaatatg attgacccct ggattatgag taattatgtt caagctcctc
5581 aaggagaatt cacaatctcc cctaataata ctcctggaga catattgttt gatttacaat
5641 taggccctca tctgaatcca ttcctatcac acctggccca gatgtataac gggtgggtag
5701 gcaacatgaa ggttagggtc ctactcgctg gtaatgcctt cacggcgggt aagataataa
5761 tcagttgtgt ccccccagga tttgcagctc aaaatgtttc tatagcccaa gccactatgt
5821 ttccccatgt tattgcagat gtgcgagtgc tcgaaccaat tgaagttcct ttggaggatg
5881 tgaggaatgt gcttttccat aacaatgatt ctaccccaac tatgagattg gtttgcatgt
5941 tgtacacccc tctccgcgct agtggtagct cttctggcac tgatccattc gttatagctg
6001 gccgggtcct tacctgtcct agtcctgatt ttaatttctt attccttgtg cctcccaatg
6061 ttgaacagaa aactaaacca tttagtgtac ccaatcttcc tctcaatgtt ctatcaaatt
6121 ctagggtccc ttctttgata agatccatga tggtttccca agaccacggg cagatggtac
6181 agttccagaa cggtagggtt acattagatg ggcagctcca aggcactacc cccacttcag
6241 ctagtcagct ctgcaagatc cgagggacgg ttttccatgc aactggtggt caagggctca
6301 acttgactga ggttgatggg gccccctacc atgcatttga gagccctgcc ccaattggtt
6361 ttcctgatat aggtgaatgt gattggcaca ttaatgcatc tcctgctaat gcttttacaa
6421 atggtgccat catacaaaga cttgatgtgg tccaagattc cacttttgct ccccatttag
6481 gcactatcca gttacaccac atgctgaatt tgagtgctaa tgttagcctg atgtgttcac
6541 ttgagtggct ttctcctcca agtggcggtg cttcaaagaa agtgaaccca tggaccattc
6601 ctcggtatgg ctcaacttta actgaggctg ctcagttggc ccctccaata tacccccctg
6661 gctttggtga ggcaattgtt ttcttcatgt ctaattttcc catagctaat ggttcagatg
6721 gtctaagtgt cccttgcacc ataccacaag aatttgtaac ccattttgtc aatgaacaag
6781 caccaacacg tggggaagct gctctccttc attatgttga ccctgacaca catcgcaatc
6841 taggtgagtt caaattatac cctgaaggat tcatgacttg tgtgccaaat tctagtggta
6901 gtggtcccca aacactgcct atcaatggtg tcttcacttt catctcttgg gtttcccgtt
6961 tctatcaatt aaagcctgtg ggaacgaccg gaccggttcg taggcttgga atcaggagat
7021 cataatggcc caagcaatat ttggagcaat agctgcgacg gctgctggta gtgctgtggg
7081 tgcgggcatt caggctggta ctgaggctgc actccaacac cagcgtttcc agcaggactt
7141 aacgttgcag aataacacct ttagacatga taaggaaatg ttagggttgc aggttggtgc
7201 ttccactgcc ctcttacaaa atagccttaa cacccgctac aacatgctca ccaatgctgg
7261 cctctcgtcc tcggacgcag ctcgcatggt ggttggcgca cctgctacgc gtgttgtaga
7321 ttggaatggc accaggatat cagcaccaca gtccactgcc accactctga ggtctggcgg
7381 gtttatgaca atcccaactc tatacaaggg taaacagcag cagaagccaa ctgaaattgg
7441 cctatctaat ccaaattatg ggtcgtctgc ctcatcttca agggttgctg attgggtttc
7501 ttctcaaaat tcttcccgct cgtccttggg tccatatcac cccagtgcat tgcaaacaac
7561 atgggtgaca ccacctggct caagttcgac ttctactatc tcttctgtgt ctaccgcacc
7621 tagatatttt aatactgaaa ggttgcctct attcgcaaac atgaggaaat aattttgtaa
7681 tatgaaatgt gggcatcata ttcaattgga tttgattaat attaatttgg tttaatt
//