Typing tool
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Typing tool
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Complete norovirus genomes
| KC962453 | GII.4 Apeldoorn | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7510
LOCUS KC962453 7567 bp RNA linear VRL 21-APR-2015
DEFINITION Norovirus GII strain
GII/Hu/ZAF/2010/GII.P4_GII.4/Bushbuckridge/5928, partial genome.
ACCESSION KC962453
VERSION KC962453.2
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7567)
AUTHORS Murray,T.Y., Mans,J. and Taylor,M.B.
TITLE Noroviruses detected in paediatric patients with gastroenteritis in
South Africa
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7567)
AUTHORS Murray,T.Y.
TITLE Direct Submission
JOURNAL Submitted (24-APR-2013) Department of Medical Virology, University
of Pretoria, Bophelo Road, Pretoria, Gauteng 0001, South Africa
REFERENCE 3 (bases 1 to 7567)
AUTHORS Botha,J.C. and Mrray,T.
TITLE Direct Submission
JOURNAL Submitted (21-APR-2015) Department of Medical Virology, University
of Pretoria, Bophelo Road, Pretoria, Gauteng 0001, South Africa
REMARK Sequence update by submitter
COMMENT On Apr 21, 2015 this sequence version replaced KC962453.1.
FEATURES Location/Qualifiers
source 1..7567
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ZAF/2010/GII.P4_GII.4/Bushbuckridge/5928"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="South Africa"
/collection_date="Jul-2010"
/collected_by="T.Y. Murray"
/identified_by="T.Y. Murray"
/note="genotype:
GII.P4_Yerseke_2006a/GII.4_Apeldoorn_2007"
5'UTR <1..4
gene 5..5104
/gene="POL"
CDS 5..5104
/gene="POL"
/codon_start=1
/product="polyprotein"
/protein_id="AGX93463.2"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARS
KQPPPREIPQRPPRPPTPELIKNVPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGSILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARVELAPLSLYWRSVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAREVEK
AKRDFPGQPDMWKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVTKSLTTGSLIARA
TGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDKIQSASVQTNNELTGALHHLR
CARIRYYVKCIQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSVKEYLQDRDKYYEEVAIARATEEDFCEEGEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGSAPALSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRIKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIVNVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMYEEGKNMTPVFTASLKDELVKTDKIYGKIRKRLLWGSDL
ATMIRCARAFGGLMDEFKAHCVTLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFTVSINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDSEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="POL"
/product="protein p48"
mat_peptide 995..2092
/gene="POL"
/product="NTPase"
mat_peptide 2093..2629
/gene="POL"
/product="protein p22"
mat_peptide 2630..3028
/gene="POL"
/product="viral genome like protein"
/note="VPg"
mat_peptide 3029..3571
/gene="POL"
/product="3C-like protein"
mat_peptide 3572..5101
/gene="POL"
/product="RNA dependent RNA polymerase"
gene 5085..6707
/gene="VP1"
CDS 5085..6707
/gene="VP1"
/note="major capsid protein"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AKE07100.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTISPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSIPVLTIEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCSTDGVLLGTT
QLSPVNICTFRGDVTHIAGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVLTGSANFTPKLGRIQFATDTDNDFETNQNTKFTPVGVIQDG
DTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTIPGCSGYPNMDLD
CLLPQEWVQFFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7510
/gene="VP2"
CDS 6707..7510
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AKE07101.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPSGAPLGRANLRAAVPTRGSSSTSS
NSSIATSVYSNQTASTRLGSTAGSGASVSSLPSTARTRSWVEDQRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7511..7567
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcctccccc gagggaaata ccacagagac ccccacgacc
181 acctactcca gaactgatta agaatgttcc cccccccccg cccaacgggg aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccggtttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatccaaca cggctttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactta ccggatcaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 cagcctcgct agggttgagc tagcaccact ctccttgtac tggagatctg tgtacactcc
541 tcaatacctc atctccccag acactctcaa gaaattacac ggagaaacgt tcccctacac
601 agcctttgac aacaattgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagattggaa
721 taggaaaccc cttcccacta tggatgactc taaattaaag aaggtagcca acatattctt
781 gtgtgctctg tcttcgctat tcaccaggcc cataaaagac ataataggga agctaaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggagtc
901 cctgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactcggtg actacgagct gcaaggacct gaggaccttg cagtggagct
1021 cgtccccgta gtgatgggtg ggattggttt ggtgctagga ttcaccaaag agaaaattgg
1081 gaaaatgttg tcatctgctg catccacctt gagagcttgt aaagacctcg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaggagg aagcaaatga
1201 actggctata gtgagatcta tcgaggatgc agtcttagat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtttggca acctatatga gaacccttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaac gctcttctgg cgagaatcgc cgctgcacgc tctttggttc atcgagcaaa
1441 ggaggaactt tccagcagac caaggcctgt agtgttgatg atatcaggta gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcgtcc cacgcaatgg cgttgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctttgggacg attatggaat gagcaaccct attcacgatg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcatcat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 ccgtgaagtt gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gacttctcac acataaaact aacattggct ccacagggtg gcttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt cacgaagtct ctcaccactg gctcccttat
2041 tgcccgggca accgggttgc tccatgagag gttagatgaa tttgaactac agggcccaac
2101 actcaccacc tttaacttcg atcgcaataa agtgcttgcc tttagacaac tagctgctga
2161 gaacaaatat ggactgatgg acacaatgag agttgggaga cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc agatagtgta
2281 tagtggttgc acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacaaaat
2341 tcagagcgcc tccgtgcaga ctaacaacga gctgaccggt gccctgcacc atttgaggtg
2401 cgccaggatt agatactatg tcaagtgcat ccaggaagcc ctgtattcca tcatccaaat
2461 tgctggagct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctgtg
2521 gtctaagcca caagtggaag acacagagga gaccaccagc aaggacgggt gtccaaaacc
2581 caaagatgat gaggagtttg tcatttcatc tgacgacatc aaaactgaag gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagccttt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgagtaca agaggattag ggaagaaagg aatggtaagt attccgtaaa
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcaactga
2821 ggaagacttc tgtgaagagg gggaggccaa aatccggcaa aggatcttca ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcttctct cggtctggtt acaggttctg aaattaggaa
2941 aagaaaccca gatgatttca aacccaaggg gaaactgtgg gctgacgatg acagaagtgt
3001 ggactataat gagaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa
3061 ctttggttca ggttggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aaatacacaa
3181 gtcaggcgag ttctgccgct tgagattccc aaagccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac tgtagtcaca ctacttatca aaaggcccac
3301 tggggaactc atgcccctag cagttaggat ggggacccat gcaaccatga agatccaagg
3361 gcgcactgtt ggaggccaaa tgggcatgct cctgacaggg tccaacgcca aaagcatgga
3421 cctgggtact acaccaggtg attgtggctg tccctacatc tacaagagag gcaatgacta
3481 tgtggccatt ggagtccaca cggctgctgc tcgtggggga aacaccgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac gacaagggga catactgtgg
3601 tgcaccaata ttaggcccag ggagtgcccc agcacttagc accaagacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccctagaatc aagggtggcc cttcactaca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 cgtcaatgtc cttgagcaaa caattgatcc acctgagaag tggtcattcg cacaagcttg
3901 cgcgtccctc gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg
3961 ctggaatggg gagtccttca caggcaagct ggcagaccaa gcttccaaag ccaacctgat
4021 gtatgaagaa gggaagaata tgaccccagt cttcacagct tcgctcaagg atgaactagt
4081 taagactgac aaaatttatg gtaagatcag gaagaggctt ctctggggct cggacttagc
4141 gaccatgatc cggtgcgctc gagctttcgg aggcctaatg gatgaattca aagcacactg
4201 tgtcacactt cccattagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacaaat atcactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtc aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtgatggacg tgggcgactt
4441 cacagtatca atcaatgagg gtcttccctc cggggtgccc tgcacctccc aatggaactc
4501 catcgcccat tggcttctca ctctctgtgc gctctctgaa gtcacaaact tgtcccctga
4561 tatcatacag gctaattccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 tataaaattg gactcagaga aattgacagc aaagctcagg gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacttaaatg gcctgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg ccccaaccat ggagacccat ctgaaacaat
4861 gattccacat tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagca ttctacagca aaattagcaa attggtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagttcacaa
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatttga
5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct tgcggggaat gcgttcaccg ccggaaaagt catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgtttccc catatagtag
5521 tagatgttag gcaactggag cctgtgttga tccccttacc cgatgttagg aataatttct
5581 accactacaa tcaatcaaat gaccccacca tcaaattgat agcaatgttg tatacaccac
5641 ttagggctaa caatgctggg gacgatgtct tcacagtttc ttgtcgcgtt ctcacgagac
5701 catcccccga ctttgatttc atatttctag tgccacccac agttgaatca agaactaaac
5761 cattctctat cccagtttta actattgagg agatgaccaa ttcaagattc cccattcctc
5821 tggaaaagtt gttcacgggt cccagcagcg cctttgttgt tcaaccacaa aacggcaggt
5881 gctcgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcgcaggta gccacaacta cacaatgaat ttggcttctc
6001 aaaattggaa cagttatgat ccaacggaag aaatcccagc ccctttagga actccagatt
6061 tcgtgggcaa gattcaaggt gtgctcaccc aaaccacaag ggcagatggc tcgacccgcg
6121 gccacaaagc tacagtactc actgggagcg ccaactttac tccaaagctg ggtagaattc
6181 aatttgccac tgacacagac aatgattttg aaactaacca aaacacaaaa ttcaccccag
6241 tcggtgtcat ccaggatggt gatactgccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggtagaaac actcataatg tgcatctggc ccccgctgta gcccccactt
6361 ttccgggtga acaacttctt ttcttcaggt ccaccatacc cggatgcagc gggtacccca
6421 atatggattt ggactgtctg ctcccccagg aatgggtgca gttcttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgaatg caagcttcat aaatcaggct acattacagt ggcccacaca ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctga tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 ctttcaattt agcagcaatt tacaacaggc ttcctttcaa catgataagg agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgaaagtta aacaggcagt
6961 gctcctagag ggtggattct ctgagacaga cgcagcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccactttt ccacccctca accctcgggg gcaccgctag ggagggctaa
7141 tcttagggct gctgtcccca ctcggggttc ctccagcaca tcttctaact cttctattgc
7201 tacttctgtg tattcaaatc aaactgcttc aacgagactt ggttctacag ctggttctgg
7261 tgccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 gaacttgtca cctttcatga ggggggccca caacatatcg tttgtcaccc caccatctag
7381 cagatcctct agccaaggca cagtctcaac cgtgcctaaa gaagttttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaagc gaggggagtc
7501 acgggtgtaa tgtgaaaaga caaaattgat tatctttctt tttctttact gtcttttaaa
7561 aaaaaaa
//