Typing tool
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Typing tool
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Complete norovirus genomes
| KP784695 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS KP784695 7570 bp RNA linear VRL 22-NOV-2016
DEFINITION Norovirus GII/Hu/ZAF/2012/GII.P4_GII.4/Empangeni/9693, complete
genome.
ACCESSION KP784695
VERSION KP784695.1
KEYWORDS .
SOURCE Norovirus GII/Hu/ZAF/2012/GII.P4_GII.4/Empangeni/9693
ORGANISM Norovirus GII/Hu/ZAF/2012/GII.P4_GII.4/Empangeni/9693
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7570)
AUTHORS Botha,J.C., Mans,J. and Taylor,M.B.
TITLE Comparative analysis of South African norovirus GII.4 strains
identifies minor recombinant variants
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7570)
AUTHORS Botha,J.C., Mans,J. and Taylor,M.B.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2015) Medical Virology, University of Pretoria,
Pretoria, Gauteng, South Africa
COMMENT ##Assembly-Data-START##
Assembly Method :: Sequencher v. 4.10.1
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7570
/organism="Norovirus
GII/Hu/ZAF/2012/GII.P4_GII.4/Empangeni/9693"
/mol_type="genomic RNA"
/isolate="GII/Hu/ZAF/2012/GII.P4_GII.4/Empangeni/9693"
/host="Homo sapiens"
/db_xref="taxon:1777888"
/country="South Africa"
/collection_date="2012"
/note="genotype: GII.P4_GII.4_New_Orleans_2009"
5'UTR 1..4
gene 5..5104
/gene="POL"
CDS 5..5104
/gene="POL"
/codon_start=1
/product="polyprotein"
/protein_id="ALX87353.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNTPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGLVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKRFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
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="VPg"
mat_peptide 3029..3571
/gene="POL"
/product="3C-like protease"
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="ALX87354.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHISGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFVTNQNTKFTPVGVIQDG
NTTPRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6705..7513
/gene="VP2"
CDS 6707..7513
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="ALX87355.1"
/translation="MAGAFFAGLASDVLGSGLGFLINAGAGAINQKVEYENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGAPPGRANLRATVPARGSSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHFRKRGESRV"
3'UTR 7514..7570
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt tcaaacgagc
121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acccactcca gaactggtta aaaacacccc ccctccccca cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccggtttg cctgacctct ccaccgtcag
301 gcaaccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccgc cagctgccat
481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatatttct
781 gtgtgctttg tcctcgctat tcactagacc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggacc tttgcgggct tagtggagtc
901 cctaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggttt ggtgttagga ttcaccaaag aaaagattgg
1081 gaaaatgttg tcatccgctg cgtccacttt gagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagcg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctata gtgaggtcca tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 tcatatgacc accctgctta aagataaaga cagtctggca acctacatga gaacacttga
1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaatcaat gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtattgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgag tttgaactgc agggcccagc
2101 tctcaccacc ttcaatttcg atcgtaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta
2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagtgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaaatgtgt ccaggaagcc ctgtactcca tcatccaaat
2461 cgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaggg
2641 gaagaacaag actggtcgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgaataca agaggattag agaagaaagg aatggcaagt actctataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcta gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct cggtttggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gaaaaactca gctttgaggc cccgccaagc atttggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtgcataa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac tgtggtcacg ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcaccgtt gggggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggagagg ctacacttga gggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcttatcttg gtggaaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagc tgaagccatt
3781 cacagagccc aggggcaagc caccaaaacc aagtgtgtta gaagctgcca agaagaccat
3841 cattaatgtc cttgagcaaa caattgatcc acctgaaaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct agcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcgttcgg aggcctaatg gatgaactca aagcgcactg
4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggtccca tcatcttcga
4261 gaggcattcc aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcag aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaatgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggctcctca ctctctgtgc gctctctgaa gtcacaaacc tgtctcctga
4561 taccatacag gccaattccc tcttctcttt ctatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcaga gagtatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt
4741 cctgcggagg actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ttgggggagg ccgctctcca
4921 cggcccagca ttttacagca aaatcagtaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtg gttggtgccg ctattgcggc acctgtagcg ggccagcaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctga
5341 acccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaat gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggt ttgagcccca gccaagtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgttagg aataatttct
5581 accattataa tcagtcaaat gactccacca tcaaattgat agcaatgttg tacacaccac
5641 ttagggctaa caatgccggg gacgatgtct tcacagtctc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac
5761 cattttctgt cccagtttta actgttgagg agatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggt cccagtagtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atttcaggca gtcgtaacta cacaatgaat ttggcctccc
6001 aaaattggaa cagttacgat ccaacagaag aaatcccggc ccccctagga actccagatt
6061 tcgtggggaa gatccaaggt gtgctcaccc agaccacaag gacagatggc tcgacccgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagggttc
6181 aatttgctac tgacacagac aatgattttg taactaatca aaacacaaag ttcaccccag
6241 tcggtgttat ccaggatggt aatactaccc cccgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggtagaaac actcataatg tgcacctggc ccccgctgta gcccccactt
6361 tcccgggcga gcagctcctc ttcttcagat ctaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaggcag
6481 ccccagcaca atctgatgtg gcactattaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttagttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcctt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggtttcctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaata tgaaaacaac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgacaagg agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta agcaagcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaaact ttggactgga gcggaacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcaccaccag gaagagctaa
7141 tcttagggct actgtccccg cccggggttc ctccagcacg tcttctaact cttctattgc
7201 cacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg
7261 caccaacgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct tttaacacgc gcaggcagcc tctcttcgct cactttcgca aacgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gatcactttt ctcttctttt gtgtctttta
7561 aaaaaaaaaa
//