Typing tool
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Typing tool
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Complete norovirus genomes
| NC_040876 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS NC_040876 7521 bp RNA linear VRL 19-AUG-2019
DEFINITION Norovirus GII.P7_GII.6, complete genome.
ACCESSION NC_040876
VERSION NC_040876.1
DBLINK BioProject: PRJNA485481
KEYWORDS RefSeq.
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7521)
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 7521)
CONSRTM NCBI Genome Project
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2019) National Center for Biotechnology
Information, NIH, Bethesda, MD 20894, USA
REFERENCE 3 (bases 1 to 7521)
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 MH218645.
##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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_176-1_17_12_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="17-Dec-2015"
/genotype="GII.P7_GII.6"
5'UTR 1..4
gene 5..5098
/gene="ORF1"
/locus_tag="EXT63_gp1"
/db_xref="GeneID:41284684"
CDS 5..5098
/gene="ORF1"
/locus_tag="EXT63_gp1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="YP_009555232.1"
/db_xref="GeneID:41284684"
/translation="MKMASNDATTAFGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVHPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQASQTANEVGAAL
LRLRQARARYYVSCFQDLIYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSEPEK
EVAQGRWEVEPKDIETEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 5..1006
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="p48"
/protein_id="YP_009555235.1"
mat_peptide 1007..2104
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="NTPase"
/protein_id="YP_009555236.1"
mat_peptide 2105..2623
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="p22"
/protein_id="YP_009684403.1"
mat_peptide 2624..3022
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="VPg"
/protein_id="YP_009555237.1"
mat_peptide 3023..3565
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="Pro"
/protein_id="YP_009684404.1"
mat_peptide 3566..5095
/gene="ORF1"
/locus_tag="EXT63_gp1"
/product="RdRp"
/protein_id="YP_009684405.1"
gene 5079..6722
/gene="ORF2"
/locus_tag="EXT63_gp2"
/db_xref="GeneID:41284685"
CDS 5079..6722
/gene="ORF2"
/locus_tag="EXT63_gp2"
/codon_start=1
/product="VP1"
/protein_id="YP_009555233.1"
/db_xref="GeneID:41284685"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
AIDFKGTVFGVASQRDVSGQQVGATRAHEVHINTTDPRYTPKLGSILMYSESEDFVTG
QPVRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 6722..7498
/gene="ORF3"
/locus_tag="EXT63_gp3"
/db_xref="GeneID:41284686"
CDS 6722..7498
/gene="ORF3"
/locus_tag="EXT63_gp3"
/codon_start=1
/product="VP2"
/protein_id="YP_009555234.1"
/db_xref="GeneID:41284686"
/translation="MASAFLAGLVGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHKSPAPSHTALPKSRLQNDSASVYSFPSSASSQST
HSTVLSAGTGSSRSTSTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
SSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
3'UTR 7499..7521
ORIGIN
1 gtgaatgaag atggcgtcta atgacgctac cactgccttt ggcagccaaa actctgtcaa
61 tgacagtatc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
181 tcagcactgc cccacagtta agatcgggac caaaacgtta acagttcccc ctgagccccc
241 aaatggtgaa gacaccgtgc agtttgatgc gaagtcggaa actgtgcgtg ggctaccaga
301 cttaacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccctc cattgagtga
361 aagggagcac agaccagcca ctgagccgct tcctggcaca atactggaga tgtgggatgg
421 tgaattctac cattactccg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
481 ccctgcagcg ataagcctcg cgacgataga actcacaccc atatctcttt attggaggcc
541 cgtttacacc cccaactatc tggtccaccc agacacgttg aaaggcctcg ctggtgagaa
601 gttcccctac acggctttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
661 caatgacacg tggcttagca ggaggagcat ctccaggacc accggcttct tcaaaccata
721 tcagtcttgg aataggaagc cccttccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatc ctctgcgcac ttgggtcact attttcaaaa ccaatcaagg acctattggg
841 taaacttaaa ccgttgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
901 catagtagag acagttatcc taatggcgga acttttcaac atcttttgga caccgccaga
961 tgtttccagc ttcatagcct ccctgatagg tgattttgaa ttacaggggc ctgaggacct
1021 ggctgtggag cttgtccccg tggtcatggg tggcataggt atggttctcg gcttcactgc
1081 tgagaagata ggccgcatgt tgtcgtccgc cgcatcaaca ctgcgggcat gcaaagactt
1141 ggggaattat gcccttgaca tactgaaact ggttatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaga ccttaagggc gatcgaggac gccgtcctgg acatggaagc
1261 tataggaaat aaccacctca caaccctcct caaggacaag gatagcctca cggccttcat
1321 gaagactctg gatttagaag aggagaaagc aaggaaactg tccaccaagt catcctcgcc
1381 agacatcgtt ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
1441 acataaggct aaggaagaaa tgtttagcag gatcagaccc gtggttgtta tgatctcggg
1501 tagacctggc attggtaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
1561 catgagcggc gaccagagag tagggctagt cccacgcaat ggggtcgacc actgggacgc
1621 ctacagggga gagagggtgg ttttatggga tgattatggc atgggaaacc ctgtcaaaga
1681 tgccctaaca ctgcaagagt tggctgacac ctgcccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacaacca atttagtcaa
1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagat ttccccggcc aacctgacat
1921 gtggaaggac cattttaaac cagacttttc ccacataaaa ctgaccctag ccccacaggg
1981 tggatttgac aagaacggca acaccccgca tggtaagggc accatgcgat ccttaaccca
2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
2101 ccaggggaat gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
2161 gctggccgcg gacaacaagt atgggatcat ggagacaatg agagtgggta cggcgcttaa
2221 gagtgtcaag accttggaag atctgaaagt tgccctgagg gatgtgaagt tcaatgagtg
2281 tgagataatt tacaggaact ccaaataccg agtctcttcc aatggtaagg gctctgtctc
2341 tgttgacaaa gttgaggacc aagcgtccca gactgcaaac gaagtgggtg cagcactcct
2401 cagacttagg caggcaagag ccaggtacta tgtcagctgc ttccaagatc tcatctacac
2461 tctaatacag gtcgctggag catcattcgt tgtcaacagg atctctaaaa ggttctgttg
2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagc gaacccgaaa aggaagtggc
2581 ccaaggtaga tgggaggttg aacccaagga catagagaca gaaggtaaga agggtaaaaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
2701 gtatgatgag ttcaaaagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcaa cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc ttccgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg ttcttggttt ggtcactggc tcagacatca ggaagaggag
2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtggacta
3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
3061 cactggttgg ggcttctggg tctcttccaa tctcctgatc acaacaacac acgtcctgcc
3121 taaggggatt aaggaacttt ttggagtcga aatcaaacag attcaaattc ataagtctgg
3181 agagttctgc aggttcaggt tcccgagacc aatcagacca gatgtcacag ggctcgtgtt
3241 ggaggaaggt gctccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
3301 gatgatccct ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
3361 cgtcggtggc cagatgggga tgctcctcac aggggcaaat gcaaagaaca tggaccttgg
3421 caccggtcct ggtgactgcg gttgccctta catctacaaa cgtggcaacg atatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaggg
3541 gcaagatggg gaggcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
3601 aattttgggt ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgttcatc
3661 accagacgct ctgccgccag gcacttatga gcctgcctac ttgggaggca aggaccccag
3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagctaaagc ccttcacaga
3781 acccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagaa caaaccattg accctgctaa gccatggacc tattcccaag catgtgcctc
3901 actggacaag accacttcca gcggtagccc ccatcatgtc aagaaaaatg accattggaa
3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 acaggccaaa cacgtgcagc ccgtgtacac ggccgcactc aaagatgagt tagttaaaac
4081 tgacaagatc tacaaaaaga taaagaaaag gctcttatgg gggtcggacc ttggcacaat
4141 gatcagatgt gccagggcct tcggcggtct catggatagc atgaaggcaa gttgcatagc
4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
4261 ttctaagtat aggtaccatt atgatgctga ctattcaagg tgggactcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgagc cagagctggc
4381 acaagtggtt gcagaggacc tcctggcacc cagccaactg gatgttggcg actttgtcat
4441 ctcagtacag gagggtctgc catcaggggt cccatgtaca tcacagtgga attcaatagc
4501 acactggatc ctgaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
4561 tcaagcccac tcctgtttct cattctacgg tgacgatgag atcgtcagca ctgacatcaa
4621 tcttgatccc atgaagttga cacagaaact cagagaatat ggtctggtcc ccactcgacc
4681 tgacaaaact gagggtcccc tcgtaataac tgaagacctc accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ctggaccaag actcaatcct
4801 cagacagttg tactggacaa ggggccccaa tcatgagaac ccatatgaga gcatggtccc
4861 tcactcccag cgggccacac agcttatggc ccttctcggt gaggcttcac tgcatggccc
4921 ccagttttac aagaaggtta gcaagatggt catcaatgaa atcaaaagtg gtggtctgga
4981 attttatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
5161 cacttgaacc ggtggtggga gcctcaattg cagctcctgt tgtcggccaa caaaatataa
5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggtgagttc accgtctcac
5281 cgaggaactc gcctggtgag atgctattaa atcttgaatt gggcccagaa ctcaaccctt
5341 acctgagtca cctgtcccgc atgtataacg ggtatgctgg tggcatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgccgtg ccaccacatt
5461 ttcccgtaga aaatattagt gcagctcaaa taactatgtg cccccatgta attgtcgatg
5521 tgagacaact tgaaccagta cttctgcccc ttcctgacat aaggaacagg ttcttccatt
5581 acaaccagga gaacaccccc cggatgagac ttgtggctat gctttacacc cccctaaggg
5641 ccaactctgg tgaagatgtg tttactgttt cttgtagggt tttgacccga cctgcccctg
5701 attttgaatt tactttcctg gtaccaccaa ctgttgaatc aaagactaaa cctttcacac
5761 tgcccatatt aactcttggt gagctatcta actccaggtt cccagcccca atagatatgt
5821 tgtacactga cccaaatgag ggaatcgtag tccaaccaca aaatggcaga tgcactcttg
5881 atggcactct gcaaggcacc acacaactgg tccccaccca aatttgtgct ttcaggggca
5941 cactaattgg ccaaacatca agatcttcag actcaaccga ctcagcccct cggagaaggg
6001 atcacccact ccatgtgcaa ttaaagaatc ttgatggcac gcagtacgac ccaactgatg
6061 aagtgccagc agtccttggt gccattgact tcaaggggac tgtctttggg gtggccagtc
6121 agagagatgt gtcaggacaa caagtgggag caactcgagc tcatgaagtg cacatcaaca
6181 caaccgatcc taggtacaca ccaaaactgg ggtccattct catgtactca gagtcggaag
6241 actttgtgac tggacagccg gtccgcttca cacccatagg aatgggtgac aacgactggc
6301 accagtggga gctgcctgac tactctggac acctaaccct gaacatgaac cttgccccag
6361 cagtcgctcc tgctttcccg ggcgagagga ttcttttctt caggtcaata gtcccgtctg
6421 ctggtggcta tgggtctgga caaatagatt gcctcatacc acaggagtgg gttcagcatt
6481 tctaccagga agctgcacca tcccaatctg ccgtggcact catcaggtat gtcaatcctg
6541 acacaggcag gaacatcttt gaggctaaat tgcacaggga aggtttcatc accgtggcaa
6601 attctggtaa taaccccatt gttgtccccc ctaatgggta ttttaggttt gaggcttggg
6661 tgaaccaatt ttatactttg acccccatgg gaactggtca ggggcgtaga aggaatcaat
6721 aatggctagt gcttttcttg caggtcttgt tggcgacgtc ataacaaatg gcgttggatc
6781 tctaataaat gctggagcta atgcagttaa tcagaaagtt gaatatgatt tcaataaaca
6841 gcttcaaatg gcatcgttta aacatgataa agagatgttg caatcacaag tgttggcaac
6901 caaacagttg cagcaggaga tgatgaacat aaggcagggg gtgttgaccg ctggcggctt
6961 ctcccccgcg gatgctgcta gaggggccgt caatgcccca atgacaaaga ttttggactg
7021 gaatggcacc agatattggg cacctaacag catgaaaacc acaagttatt caggacagtt
7081 ttctagcagc cctgttcaca agtcccctgc tccttctcac actgctttgc caaagagtag
7141 attgcaaaac gattctgcta gtgtatatag ctttccttcc tctgcttcct cacaatcaac
7201 ccattcaaca gtactgtcag caggaaccgg gtcttctagg tccacctcca catctacagc
7261 gacccctacc ttgtctagaa ccagcgactg ggttagggga cagaacgaga ggctcagccc
7321 gtttatggat ggtgctctcc aaactgcctt tgtcacacct ccatcgagca aagcttcttc
7381 aaatggtacg gtctcaaccg ttcccaaagc tgttttggac tcctggaccc ctatgttcaa
7441 cacacatagg cagcctctct tcgcccatct acgtagacga ggggagtcac aaatttagtg
7501 aaaagagtga ttaggttttc t
//