Typing tool
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Typing tool
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Complete norovirus genomes
| MH218608 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218608 7559 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_137_08_06_2015, complete genome.
ACCESSION MH218608
VERSION MH218608.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7559)
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 7559)
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..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_137_08_06_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="08-Jun-2015"
/note="genotype: GII.Pe_GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17482.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVDRGLILGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSALIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFVTSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17483.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGAADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17484.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTISTRLGSAAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 catcgcaaaa tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc
121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc
181 acccacacca gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact
241 agtggtctct tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag
301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag
361 ggacgccaag gagccactaa ctggaacaat cattgaaatg tgggatggag aaatctacca
421 ttacggcctg tacgtggatc gaggtcttat acttggtgtg cacaagccac cagcagccat
481 tagccttgcc aaggtcgagc tggcaccgct ctctttgttc tggagacctg tatacacccc
541 ccagtacctc atctctccag acactcttag gagattacat ggagagtcat tcccctacac
601 tgcattcgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg
661 gctaagcagg agaatgattc agagaacaac aggcttcttc aggccgtacc aggattggaa
721 caggaagccc ctccccacta tggatgactc caaattaaag aaggtagcca acatattctt
781 gtgcactttg tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc
841 tcttaacatc cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc
901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgtt
961 gatcgccccc ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact
1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttactaaag agaagatcgg
1081 aaagatgctg tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg
1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa
1261 ccacatgacc accctgctca aagacaaaga cagcttggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg
1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa
1441 agaagagctc tccagcaggc cgagacctgt cgttgtaatg atatcgggaa gaccagggat
1501 agggaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga
1561 ccagcgtgtg ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga
1621 aagagttgtc ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt
1681 gcaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg
1741 aaaagtcttt gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact
1801 ggattatgtc aactttgaag cgtgctcgag acgcattgat ttcctcgtgt acgcagaagc
1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc
1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa
1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat
2041 cgcccgagca tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc
2101 cctcaccact ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga
2161 aaacaagtat gggctaatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac
2221 catgtcagac ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta
2281 caatggtggc acctacacac ttgaggctga tggcaagggt agcgtgaaag ttgacaaagt
2341 gcaaagtgcc actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg
2401 cgctagaatc agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat
2461 cgctggggct gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg
2521 gtccaagcca caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc
2581 caaagatgat gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga
2701 tgaggagtac gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga
2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag
2881 gaaacaacgc aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa
2941 gaggaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt
3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa
3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttgtaacat caacccatgt
3121 cataccccaa ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa
3181 gtcaggtgaa ttctgccggt tgagattccc aaagccaatc agaaccgatg tgacgggcat
3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac
3301 tggagagctc atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg
3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga
3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta
3481 cgtggtcata ggagtccata cggccgctgc ccgcggagga aacactgtca tatgtgccac
3541 ccagggaagt gagggagagg ccacacttga aggaggtgac agtaaaggga catactgtgg
3601 cgcaccaatc ttgggcccag ggagcgctcc gaagctcagc accaagacca agttttggag
3661 atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga
3721 ccccagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt
3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg
3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg
3961 ttggaatggg gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat
4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt
4081 aaagaccgat aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt cagatctggc
4141 gaccatgata cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcacactg
4201 tgtcacactc cctgttagag ttggtatgaa catgaatgag gatggcccca tcatcttcga
4261 gaagcactcc agatatagat atcactatga tgctgactat tcccggtggg actcaacaca
4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctccc cagaaccaca
4381 cctggcccag atagttgcag aagacctcct ctcccctagc gtgatggatg taggtgactt
4441 tcaaatatca ataagtgagg gtctcccctc tggggtacct tgtacctccc agtggaattc
4501 catcgcccac tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga
4561 tatcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga
4621 cataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac
4681 ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg gtctgacatt
4741 cctccggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc
4801 aattcttagg caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat
4861 gataccacac tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca
4921 cggcccggca ttctacagca aaattagcaa attagtcatt gcagagttga aggaaggtgg
4981 catggacttt tacgtaccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggt cctgatctaa
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtgg
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcattataa tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac
5701 catcccccga ttttgacttc atatttctag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagtttta accgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggtaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccagctgtc tcctgtcaac atctgcacct
5941 tcagaggaga tgtcacccat atcacaggta gtcataacta cacaatgaat ttggcttctc
6001 aaaattggag caattacgac ccaacagaag aaatcccagc ccctctagga actccagact
6061 ttgtggggaa gattcaaggc gtgcttaccc aaaccacaag gacagatggc tcaacacgcg
6121 gccacaaagc cacagtgtac actggggccg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac catgattttg aagctaacca aaacacaaag ttcaccccag
6241 ttggtgtcat ccaagatggt ggcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcctaatg tgcatctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgaatg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggttaac cagttttaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc actataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcgtc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaggttaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accatcaggg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggttc ctccagtaag tcttctaatt cttctactgc
7201 tacttctgtg tattcaaatc aaactatttc aacgagactt ggttctgcag ctggttctgg
7261 taccagtgtc tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaagatt gattaccttt cttttcttta gtgtctttt
//