Typing tool
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Typing tool
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Complete norovirus genomes
| MH218656 | GI.2 | |
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| GI.P2 |
ORF1: 5..5371
ORF2: 5355..6995
ORF3: 6995..7630
LOCUS MH218656 7740 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GI isolate NORO_188_01_10_2015, complete genome.
ACCESSION MH218656
VERSION MH218656.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7740)
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 7740)
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..7740
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="NORO_188_01_10_2015"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="United Kingdom"
/collection_date="01-Oct-2015"
/note="genotype: GI.P2_GI.2"
gene 5..5371
/gene="ORF1"
CDS 5..5371
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17628.1"
/translation="MMMASKDVVATNVASNNNANNTSATSRFLSRFRGLGGGASPPSP
IKIKSTEMALGLIGRTTPESTGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVK
SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERIRDDSPPGEQVKWSARDGVNI
GVERLTTVSGPEWNLCPLPPIELRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV
GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF
EFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL
VSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL
LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE
IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEE
EKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG
KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK
LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY
CSAPEVEQIRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGAMKPTT
INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLR
GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNGVNIKEERNILTQQQQSVCAAS
VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE
HKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGR
GRKNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDER
EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI
AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA
SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS
GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY
EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD
TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM
KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPI
KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAS
VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV
IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV
FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA
SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN
DDGV"
gene 5355..6995
/gene="ORF2"
CDS 5355..6995
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17626.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6995..7630
/gene="ORF3"
CDS 6995..7630
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17627.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDTSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 gtgaatgatg atggcgtcga aagacgtcgt tgcaactaat gttgcaagca acaacaatgc
61 taacaacact agtgctacat ctcggttttt atcgagattt aggggcttag gaggtggcgc
121 aagcccccct agccctataa aaatcaaaag tacagaaatg gctctggggt taattggcag
181 aacgacccca gaatcaacgg ggaccgctgg tccaccgccc aaacaacaga gagaccgacc
241 tcctagaact caggaggagg tccagtatgg tatggggtgg tccgacaggc ccattgatca
301 aaacgtcaaa tcatgggaag agcttgacac cacagttaag gaagagatcc tagacaacca
361 caaagaatgg tttgacgctg gtggtttggg cccttgcaca atgcctccaa catatgaacg
421 gatcagggat gacagtccac ctggtgaaca ggttaaatgg tccgcacgtg atggagtcaa
481 cattggagtg gaacgcctca caacagtgag tgggcctgag tggaatcttt gccccttacc
541 ccccattgaa cttaggaaca tggaaccagc tagtgaaccc actattggag atatgataga
601 attctacgaa ggccacatct atcattactc catatacatt gggcaaggca aaacagtcgg
661 cgtccattct ccacaggcgg cattttcagt ggctagagtg accatccagc ccatagccgc
721 ttggtggaga gtttgttaca taccccaacc caagcataga ctgagttacg accaactcaa
781 ggaactggag aatgagccat ggccatacgc ggccataacc aataattgtt ttgaattctg
841 ctgtcaagtc atgaaccttg aggacacgtg gctgcaaagg cgactggtca cgtcgggcag
901 attccaccac cccacccagt cgtggtcaca gcagacccct gagttccaac aagatagcaa
961 gttagagttg gttagggacg ccatattagc tgcagtgaat ggtcttgttt cgcagccctt
1021 taagaacttc ttgggtaaac tcaaacccct caacgtgctt aacatcctgt ctaactgtga
1081 ttggaccttc atgggggtgg tggaaatggt catactatta cttgaactct ttggtgtgtt
1141 ctggaacccg cctgatgtat ccaattttat agcgtccctt cttcctgatt tccatcttca
1201 gggacctgaa gacttggcac gagatctagt cccagtgatt cttggtggta taggattagc
1261 cattgggttc accagggaca aagtcacaaa ggtcatgaag agtgctgtgg atggtcttcg
1321 agctgccaca caactgggac agtatggatt agaaatattc tcactgctca agaaatactt
1381 ctttgggggg gaccagactg agcgtaccct caaaggcatt gaggcagcag tcatagatat
1441 ggaggtactg tcgtccactt cagtgacaca gctagtgagg gacaaacagg cagcaaaggc
1501 ctatatgaac atcttggaca atgaagaaga gaaggccagg aagctctctg ctaaaaacgc
1561 tgacccacat gtgatatcct caacaaatgc cctaatatcg cgcatatcca tggcacgatc
1621 tgcattggcc aaggcccagg ctgagatgac cagtcgaatg cgaccagttg tcattatgat
1681 gtgtggccca cctgggattg ggaagaccaa ggctgctgag cacctagcta agcgtctagc
1741 caatgagatc agaccaggtg gtaaggtggg gttggttccc cgtgaagctg tcgaccactg
1801 ggacggttat catggtgagg aagtgatgct gtgggatgac tatggcatga caaaaataca
1861 agacgattgt aataaactcc aggccattgc tgattcggcc cccctcacat taaattgtga
1921 taggattgaa aataaaggaa tgcagttcgt ttcagatgca atagtcatca ccaccaacgc
1981 cccaggcccc gcccctgtgg actttgtcaa ccttggacca gtgtgtagac gggtcgactt
2041 tttggtgtac tgctctgccc cagaggtgga acagatacgg agagtcagcc ctggcgacac
2101 atcagcactg aaagactgct tcaagccaga tttctcacat ttaaaaatgg agctggcccc
2161 acaaggtggg tttgataatc aagggaacac accgtttggc aggggcgcca tgaagccaac
2221 aaccattaat agactcctca tacaagccgt ggccctcacc atggaaaggc aggatgagtt
2281 ccagttgcag gggaagatgt atgactttga tgatgacagg gtgtcagcgt tcaccaccat
2341 ggcacgtgac aatggcctgg gcatcttgag catggcgggt ctgggtaaga agttacgcgg
2401 tgtcacaacg atggagggct tgaagaatgc cctgaaggga tacaaaatta gtgcgtgcac
2461 aataaaatgg caggctaaag tgtactcact agagtcagat ggcaatggtg tcaacattaa
2521 agaggagagg aacatcttaa cccaacaaca acagtcagtg tgtgctgcct ctgtcgcgct
2581 cactcgcctc cgggctgcgc gtgcggtggc atacgcgtca tgcatccaat cggctataac
2641 ttccatacta caaattgctg gctcagccct agtggttaac agagcagtga agagaatgtt
2701 tggcacgcgc actgccaccc tgtcccttga gggccccccc agagaacaca aatgcagggt
2761 ccacatggcc aaggctgcag gaaaggggcc tattggccat gatgatgtgg tagaaaagta
2821 tgggctttgt gaaactgagg aggacgaaga agtggcccac actgaaatcc cttctgccac
2881 catggagggc aagaataaag ggaagaacaa gaaaggacgt ggtcggaaga acaactataa
2941 cgccttctcc cgcaggggac tcaatgatga agagtacgaa gagtacaaga agatacgcga
3001 ggagaaaggt ggcaattata gcatacagga gtacctagag gataggcaaa ggtatgaaga
3061 agaactagca gaggttcaag caggtggaga tggaggaatc ggggaaactg aaatggagat
3121 ccgccacaga gtgttctaca aatccaagag tagaaagcat caccaggaag agcgacgcca
3181 gctagggctg gtgacaggat ccgacattcg gaagagaaaa ccaatcgact ggaccccacc
3241 caagtcagca tgggcagatg atgagcgtga agtggactac aatgagaaga tcagttttga
3301 ggcgcccccc actttatgga gcagagtgac aaagtttggg tctggatggg gtttctgggt
3361 tagctctaca gtcttcataa ccacaacgca cgtcatacca accagtgcga aggaattctt
3421 tggtgaaccc ctaaccagca tagccatcca cagggctggt gagttcactc tattcaggtt
3481 ctcaaagaaa attaggcctg acctcacagg tatgatcctt gaggagggtt gccccgaggg
3541 cacagtgtgt tcagtactga taaaaaggga ctctggtgaa ctactgccat tggctgtaag
3601 aatgggcgca atagcatcaa tgcgtataca gggccgcctt gtccatgggc agtccggcat
3661 gttgctcacc ggggctaatg ctaagggcat ggaccttgga accatcccag gagactgtgg
3721 ggctccttat gtctataaga gagccaacga ctgggtggtc tgtggtgtac acgctgctgc
3781 caccaaatca ggcaacaccg ttgtgtgcgc tgttcaggcc agtgaaggag aaaccacgct
3841 tgaaggcggt gacaaaggtc actatgctgg acatgaaata attaagcatg gttgtggacc
3901 agccctgtca accaaaacca aattctggaa atcatccccc gaaccactac cccctggggt
3961 ctatgaaccc gcctacctcg ggggccggga ccctagggta actggcggtc cctcactcca
4021 acaggtgttg cgggaccaat taaagccatt tgctgagcca cgaggacgca tgccagagcc
4081 aggtctcttg gaggccgcag ttgagactgt gacttcatca ttagagcagg ttatggacac
4141 tcccgttcct tggagctata gtgatgcgtg ccagtccctt gataagacca ccagttctgg
4201 ttttccctac cacagaagga agaatgacga ctggaatggc accaccttta tcagggagtt
4261 aggggagcag gcagcacacg ccaataacat gtatgaacag gctaaaagta tgaaacccat
4321 gtacacggca gcgcttaaag atgaactagt caaaccagag aaggtatacc aaaaagtgaa
4381 gaagcgctta ttatgggggg cagacttggg cacggtggtt cgggccgcgc gggcttttgg
4441 tccattctgt gatgctataa aatcccacac aatcaaattg cccattaaag ttggaatgaa
4501 ttcaattgag gatgggccac tgatctatgc agaacattca aagtataagt accattttga
4561 tgcagattac acagcttggg attcaactca aaatagacaa atcatgacag agtcattctc
4621 aatcatgtgt cggctaactg catcacctga actagcttca gtggtggctc aggatttgct
4681 tgcaccctca gagatggatg ttggcgacta tgtcataaga gtgaaggaag gtctcccatc
4741 tggttttcca tgtacatcac aggttaatag tataaaccat tggttaataa ctctgtgtgc
4801 cctttctgaa gtaactggtc tgtcgccaga tgtcatccag tccatgtcat atttctcttt
4861 ctatggtgat gatgaaatag tgtcaactga catagaattt gatccagcaa aactgacaca
4921 agtcctcaga gagtatggac ttaaacccac ccgccccgac aaaagcgagg gcccaataat
4981 tgtgaggaag agtgtggatg gtttggtctt tctgcgtcgc actatctccc gcgacgccgc
5041 aggattccag gggcgactgg accgggcatc cattgaaaga caaatctact ggactagagg
5101 acccaatcat tcagaccctt ttgagaccct ggtgccacac caacaaagga aggtccaact
5161 aatatcatta ttgggtgagg cctcactgca tggtgaaaag ttttacagga agatttcaag
5221 taaagtcatc caggaaatta aaacaggggg ccttgaaatg tatgtgccag gatggcaagc
5281 catgtttcgt tggatgcggt tccatgacct tggtttgtgg acaggagatc gcaatctcct
5341 gcccgaattt gtaaatgatg atggcgtcta aggacgcccc tcaaagcgct gatggcgcaa
5401 gcggcgcagg tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacctg
5461 tggctgggcc aacaacagcc gtagccactg ctgggcaagt taacatgatt gatccctgga
5521 ttgttaataa ttttgtccag tcacctcaag gtgagttcac aatctctcct aacaataccc
5581 ccggtgatat tttgtttgat ttacaattag gtccacatct aaaccctttc ttgtcacatt
5641 tgtcccaaat gtataatggc tgggttggga acatgagagt cagaattctc cttgctggga
5701 atgcattctc agctggaaag attatagttt gttgtgtccc ccctggcttt acatcttctt
5761 ctctcaccat agctcaggct acattgtttc cccatgtgat tgctgatgtg aggacccttg
5821 agccaataga aatgcccctc gaggatgtac gcaacgtcct ctatcacacc aatgataatc
5881 aaccaacaat gcggctggtg tgtatgctat acacgccgct ccgcactggt ggggggtctg
5941 gtagttctga ttcctttgta gttgctggca gggttctcac agcccctagt agcgacttca
6001 gtttcttgtt ccttgtcccg cctaccatag aacagaagac tcgggctttc actgtgccta
6061 atatcccctt gcaaaccttg tccaattcta ggttcccttc cctcatccag gggatgattc
6121 tgtcccccga tgcatctcaa gtggtccaat tccaaaatgg gcgttgcctt atagatggtc
6181 aactcttagg cactacaccc gctacatcag gacagctgtt cagagtaaga ggaaagataa
6241 atcagggagc ccgcacactt aacctcacag aggtggatgg taaaccattc atggcatttg
6301 attcccctgc acctgtgggg ttccccgatt ttggaaaatg tgattggcac atgagaatca
6361 gcaaaacccc gaacaacaca agttcaggtg accccatgcg cagtgtcagc gtgcaaacca
6421 atgtgcaggg ttttgtgcca cacctgggaa gtatacaatt tgatgaagtg tttaatcatc
6481 ccacaggtga ctacattggc accattgaat ggatttccca gccatctaca ccccctggaa
6541 cagatattaa tctgtgggag atccccgatt atggatcgtc cctttcccaa gcagctaatc
6601 tggccccccc agtattcccc cctggatttg gtgaggccct tgtatacttt gtttctgctt
6661 tcccgggccc caataaccgc tcagccccga atgatgtacc ctgtcttctc cctcaagagt
6721 acataaccca ctttgtcagt gaacaagccc caacgatggg tgacgcagct ttactgcatt
6781 atgtcgaccc tgataccaac aggaaccttg gggagttcaa gctataccct ggaggttacc
6841 tcacctgtgt accaaatggg gtaggtgccg gtcctcaaca gctccctctc aatggtgttt
6901 ttctctttgt ttcttgggtg tctcgttttt accagcttaa gcctgtggga acagccagta
6961 cggcaagagg taggcttgga gtacgccgta tataatggcc caagccatca taggagcaat
7021 tgccgcgtca gctgcaggct cagcattggg tgcgggcatc caggctggtg ccgaggctgc
7081 gcttcagagt caaagatacc aacaagactt agccctgcaa aggaatactt ttgaacatga
7141 taaggatatg ctttcctacc aggtccaggc aagtaatgca cttttggcaa agaatctcaa
7201 tacccgctat tctatgcttg ttgcaggggg tctttctagt gctgatgctt ctcgggctgt
7261 tgctggggcc cctgtaacac aattgattga ttggaacggc actcgggttg ccgcccccag
7321 gtcaagtgca acaactctga ggtctggtgg ttttatggca gtccccatgc ctgttcaacc
7381 caaatctaag gccttgcaat cctctgggtt ttccaatcct gcttatgaca cgtccacagt
7441 ttcttctagg acttcttctt gggtgcagtc acagaattcc ctgcgaagtg tatcaccctt
7501 tcataggcag gcccttcaaa ctgtatgggt tactccacct gggtctactt cctcttcttc
7561 tgtttcctca acaccttatg gtgtttttaa tacggatagg atgccgctat tcgcaaattt
7621 gcggcgttaa tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaatta
7681 gtgaataatt tggctattga ttagtgttaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa
//