Typing tool
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Typing tool
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Complete norovirus genomes
| NC_039477 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS NC_039477 7567 bp RNA linear VRL 19-AUG-2019
DEFINITION Norovirus GII, complete genome.
ACCESSION NC_039477
VERSION NC_039477.1
DBLINK BioProject: PRJNA485481
KEYWORDS RefSeq.
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7567)
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 7567)
CONSRTM NCBI Genome Project
TITLE Direct Submission
JOURNAL Submitted (12-OCT-2018) National Center for Biotechnology
Information, NIH, Bethesda, MD 20894, USA
REFERENCE 3 (bases 1 to 7567)
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 REVIEWED REFSEQ: This record has been curated by NCBI staff. The
reference sequence is identical to MH218684.
##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 10.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
COMPLETENESS: full length.
FEATURES Location/Qualifiers
source 1..7567
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_226_06_01_2016"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom"
/collection_date="06-Jan-2016"
/genotype="GII.P16_GII.4"
5'UTR 1..4
gene 5..5104
/gene="ORF1"
/locus_tag="D9V40_gp1"
/db_xref="GeneID:39105317"
CDS 5..5104
/gene="ORF1"
/locus_tag="D9V40_gp1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="YP_009518841.1"
/db_xref="GeneID:39105317"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPASRDESQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="p48"
/protein_id="YP_009518844.1"
mat_peptide 1001..2098
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="NTPase"
/protein_id="YP_009518845.1"
mat_peptide 2099..2629
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="p22"
/protein_id="YP_009518846.1"
mat_peptide 2630..3028
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="VPg"
/protein_id="YP_009518847.1"
mat_peptide 3029..3571
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="Pro"
/protein_id="YP_009518848.1"
mat_peptide 3572..5101
/gene="ORF1"
/locus_tag="D9V40_gp1"
/product="RdRp"
/protein_id="YP_009518849.1"
gene 5085..6707
/gene="ORF2"
/locus_tag="D9V40_gp2"
/db_xref="GeneID:39105315"
CDS 5085..6707
/gene="ORF2"
/locus_tag="D9V40_gp2"
/codon_start=1
/product="VP1"
/protein_id="YP_009518842.1"
/db_xref="GeneID:39105315"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
/locus_tag="D9V40_gp3"
/db_xref="GeneID:39105316"
CDS 6707..7513
/gene="ORF3"
/locus_tag="D9V40_gp3"
/codon_start=1
/product="VP2"
/protein_id="YP_009518843.1"
/db_xref="GeneID:39105316"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
3'UTR 7514..7567
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcctc gagagacgaa tcacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgttccc
601 ttacaccgcc ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aaacccctgc ctaccatgga tgactccaaa attaagaagg tagcaaatat
781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt
901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caacgagcta gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga
1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccagaag attgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaatccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggctt
1981 tgacaagaat ggcaacaccc cacacgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 tcccacaatc accaccttca atttcgaccg gaacagaatc acagcattca ggcaattggc
2161 tgcagaaaac aagtatggat tggtggatac catgaaagtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat taggaatgtg accatcaaga ggtgccggat
2281 catctacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggtcaag aacacctctg tgcagaccaa caacgagttg gccggggccc tgcaccatct
2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat
2461 acaaatcgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa
2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gtttgagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaggatttc tgtgaagagg aggagatcaa aatccgccag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcgg aaatcagaaa
2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt
3121 aatccccgca ggcataacag aagcgtttgg agtccccatc aaacaaattc agatccacaa
3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 cttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tttgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga
3721 cccgcgtgtt aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat
3841 tatcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgtccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcatttgg tggactcatg gacgagatga aggcacactg
4201 catatcactc ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat accactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtgctagcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 taaaatcaca ataaatgaag ggctcccatc tggtgtgcca tgcacttctc aatggaactc
4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaattg gaccctgaac agttaaccgc caagttgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc
4801 gattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagta agatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttc gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aagtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagtccta gccaggtcac tatgttcccc catataatag
5521 tagatgttag acaattagaa cctgtgctga ttcccttacc cgatgttagg aataatttct
5581 atcattataa tcagtcaaat gactccacta ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttag tgccacctac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggc cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacaactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta gtcgcaacta cacaatgaat ttggcttctc
6001 aaaattggaa caactatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 ttgtgggaaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacagac catgattttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcacaatg tacatctggc ccccgctgta gcccccacct
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagcttcac aaatcaggct atgtcacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtattgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggacc ctccaataaa tcttctaact cttctactgc
7201 cacctctgtg tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggaccaaag
7321 taggaatctg tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaact gattatcttt ctttttcttt agtgtctttt
7561 aaaaaaa
//