Typing tool
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Typing tool
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Complete norovirus genomes
| KJ710245 | GII.4 Apeldoorn | |
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| GII.P4 Yerseke |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS KJ710245 7570 bp RNA linear VRL 21-APR-2015
DEFINITION Norovirus GII strain GII/Hu/ZAF/2011/GII.P4_GII.4/CapeTown/6745,
partial genome.
ACCESSION KJ710245
VERSION KJ710245.2
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7570)
AUTHORS Mans,J., Murray,T.Y. and Taylor,M.B.
TITLE Norovirus recombinants in South Africa
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7570)
AUTHORS Mans,J.
TITLE Direct Submission
JOURNAL Submitted (16-APR-2014) Department of Medical Virology, University
of Pretoria, Bophelo Road, Pretoria, Gauteng 0001, South Africa
REFERENCE 3 (bases 1 to 7570)
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 KJ710245.1.
FEATURES Location/Qualifiers
source 1..7570
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ZAF/2011/GII.P4_GII.4/CapeTown/6745"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="South Africa"
/collection_date="07-Jan-2011"
/collected_by="J. Mans"
/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="AKE07105.1"
/translation="MKMAANDASAAAVANGNNDIAKSSSDRVLSSMAVTFKRALGARS
KQPPPREIPQKPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLHQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARIELSPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYALCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
SKRDFPGQPDMWKNAFSSDFSHMKLTLAPQGGFDKNGNTPHGKGVMKSLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
TELKQALKNIAIKKCQIVYSGYTYILESDGKGDVKVDKIQNTSVQTNNELTGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVTIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG
PGNAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKSGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWTFAQACASLDKTTSSGHPHHMRKNDCW
NGENFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPRLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
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 5084..6707
/gene="VP1"
CDS 5085..6707
/gene="VP1"
/note="major capsid protein"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AKE07106.1"
/translation="MKMASSDANPSDGSTANLVPEVNDEVMALEPVVGAALAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
ARNNFYHYNQSNESTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSLDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLERLFTGPSSAFAVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTTGSHNYTMNLASQNRSNYDPTEEIPAPLGTPDFVGKIQGAL
TQTTRADGSTRGHKATVYTGSADFTPKLGRVQFATDTDHDFDTNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVAHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7513
/gene="VP2"
CDS 6707..7513
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AKE07107.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKDMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPSGALPGRANLRAAVPARGPSSTSS
NSSTATSVYSNQTTSTRLGSTAGSGASVSSLPSTARTVNWVRDQNRSLSPFMRGAHNT
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRTRGESRV"
3'UTR 7514..7570
ORIGIN
1 gtgaatgaag atggcggcta acgacgcttc cgctgccgct gttgctaacg gcaacaacga
61 catcgcaaaa tcttcaagtg accgagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcctccccc gagggaaata ccacaaaagc ccccacgacc
181 acctactcca gaactggtta aaaacattcc ccctcccccg cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccgggttg cccgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggcctttag tgtccctcca ctccatcaga gggagaatag
361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgtggagc gaggccttgt actgggtgta cacaaaccgc cagctgccat
481 cagcctcgct aggattgagc tatcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acaccctcaa gaagttacac ggagaaacgt tcccctacac
601 agcctttgac aacaattgtt atgccctttg ttgttgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agaggacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaattaaag aaggtagcta acatattcct
781 gtgtgctctg tcttcgctat tcaccaggcc cataaaagat ataataggta agctaaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggaatc
901 cctgatactc ttggcagagc tctttggagt gttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccctgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaagatgttg tcatctgctg cgaccacttt gagggcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaggagg aagcaaacga
1201 actggctata gtgagatcta tcgaggacgc agtcctagat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagcttggca acctacatga gaacccttga
1321 cctcgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgt tctctggtgc atcgagcgaa
1441 ggaggaactt tccagcaggc caagaccagt agtattgatg atatcgggca gaccaggaat
1501 agggaagacc cacctcgcta gagaagtggc caagagaatc gcgtcctccc tcacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagtaaccct gttcatgatg ccctcaggtt
1681 gcaagaactc gctgacactt gcccccttac tctaaactgt gacaggattg agaacaaagg
1741 aaaagtcttt gatagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaagtcaa agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 cttcagttct gatttctcac acatgaaact aacattggcc ccacagggtg gcttcgacaa
1981 gaacggaaac accccacacg gcaagggcgt catgaagtct ctcaccactg gctcccttat
2041 tgcccgggca tcaggactac tccatgagag gttagatgaa tttgaactac agggcccaac
2101 cctcaccacc ttcaattttg atcgcaataa agtacttgcc tttagacaac ttgctgctga
2161 gaacaaatat gggttgatgg acacaatgag ggttgggaga cagctcaagg atgtcagaac
2221 catgacagaa ctcaaacaag cactcaagaa tatcgcaatc aagaagtgcc agatagtgta
2281 tagtggttac acctacatac ttgagtctga tggtaagggc gatgtgaaag ttgacaaaat
2341 tcagaacacc tccgtgcaga ccaacaatga gctgactggt gctctgcacc atctgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt tcaggaggcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg
2521 gtccaaacca caagtggaag acacagagga gaccaccagc aaggatgggt gcccaaaacc
2581 caaagatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagccttc tcaagcaaag gcctcagtga
2701 tgaagagtac gacgagtaca agaggattag agaagagagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg accattgcca gggcaactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccgacaa aggatcttca ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcttcgct cggtctggtc acaggttctg aaattaggaa
2941 aagaaaccca gatgatttca aacccaaggg gaaactgtgg gctgacgatg acagaagtgt
3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa
3061 ctttggttca ggttggggat tctgggtctc ccccagtctg ttcataacat caacccacgt
3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctagaat ggggacccat gcaaccatga agatccaagg
3361 gcgcactgtt ggaggccaaa tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctgggcact acaccaggtg attgtggctg tccctacatc tacaagagag gcaatgacta
3481 tgtagtcatt ggagtccaca cagccgccgc tcgtggagga aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctgtgcttga aggtggtgac aacaagggga cgtactgtgg
3601 tgcaccaatc ctaggcccag ggaatgcccc aacacttagc accaagacca aattttggag
3661 atcgtccacg gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccctagagtc aagagtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgaacaaa caattgatcc acctgagaaa tggacatttg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg ccacccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagaacttca caggcaagct ggcagaccag gcttccaagg ccaacttgat
4021 gtttgaagaa ggaaagaaca tgaccccagt ctatacagct gcgctcaagg atgagctagt
4081 taaaactgat aaaatttata gcaagatcaa gaagaggctt ctctggggtt cggacttggc
4141 gaccatggtc cggtgtgctc gagcattcgg aggcctaatg gacgaactca aagcacactg
4201 tgtcacactt cccattagag ttggtatgaa catgaacgag gatggcccca tcatcttcga
4261 gaaacattcc aggtacacat atcactatga tgctgattac tctcgatggg attcgacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctctc cagaaccacg
4381 cttggctcag gtagttgcgg aagatcttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaattc
4501 catcgcccac tggcttctca ctctctgcgc gctctctgaa gtcacaaact tgtcccctga
4561 caccatacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 tataaaattg gacccagaga aattgacagc aaagcttagg gaatatggat tgaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgag gacttggatg gcctaacctt
4741 cctgcggaga actgtgaccc gtgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggacaagggg ccccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ttgggggagg ccgctctcca
4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacgatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg cccttgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cccgatttga
5341 atccctacct ttctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtgatcct cgcggggaat gcgttcaccg ccggaaaggt catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgctagg aataatttct
5581 accactacaa tcaatcaaat gaatccacca tcaaattgat agcaatgttg tatacaccac
5641 ttagggctaa caatgctggg gacgatgtct tcacagtctc ttgtcgagtc ctcacgagac
5701 catccctcga ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaagatt gttcacgggt cccagcagtg cctttgccgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta ctcaactgtc tcctgtcaac atctgcacct
5941 tcagaggaga tgtcacccac accacaggta gtcacaacta cacaatgaat ttggcttccc
6001 aaaatcggag caattatgac ccaacagaag aaatcccagc ccctctagga actccagact
6061 tcgtggggaa gattcaaggt gcgctcaccc aaaccacaag ggcagatggc tcgacccgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttac tccaaaactg ggtagagttc
6181 aatttgccac tgatacagac catgattttg atactaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaggatggt tctactaccc accggaatga accccaacaa tgggtgctcc
6301 caagttactc aggcagaaat actcataatg tgcacctggc ccccgctgtg gcccccactt
6361 ttccgggtga acagcttctc ttctttaggt ccactatgcc cggatgtagt gggtacccca
6421 acatggattt ggactgcctg ctcccccaag aatgggtggc gcacttctac caagaggcag
6481 cccccgcaca atctgatgtg gctctgctaa gatttgtgaa tccagataca ggcagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc attgtaatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctga tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgataaag atatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaggcaat
6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccactttt ccacccctca accctcgggg gcgctgccag ggagagctaa
7141 tctcagggct gctgtccccg ctcggggtcc ctccagcaca tcttctaatt cttctactgc
7201 tacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 tgccagtgtc tcgagcctcc cgtcaactgc aaggaccgtg aactgggtta gggatcaaaa
7321 caggagtttg tcacctttca tgaggggggc ccacaacaca tcgtttgtca ccccaccgtc
7381 tagcagatcc tctagtcaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca cgcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttga
7561 aaaaaaaaaa
//