Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KP784692 | GII.4 New Orleans | |
|
|---|---|---|---|
| GII.P4 Yerseke |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS KP784692 7569 bp RNA linear VRL 22-NOV-2016
DEFINITION Norovirus GII/Hu/ZAF/2011/GII.P4_GII.4/Johannesburg/7028, complete
genome.
ACCESSION KP784692
VERSION KP784692.1
KEYWORDS .
SOURCE Norovirus GII/Hu/ZAF/2011/GII.P4_GII.4/Johannesburg/7028
ORGANISM Norovirus GII/Hu/ZAF/2011/GII.P4_GII.4/Johannesburg/7028
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7569)
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JOURNAL Unpublished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 7569)
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..7569
/organism="Norovirus
GII/Hu/ZAF/2011/GII.P4_GII.4/Johannesburg/7028"
/mol_type="genomic RNA"
/isolate="GII/Hu/ZAF/2011/GII.P4_GII.4/Johannesburg/7028"
/host="Homo sapiens"
/db_xref="taxon:1777884"
/country="South Africa"
/collection_date="2011"
/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="ALX87344.1"
/translation="MKMASNDASAAAVANGNNDTAKSSSDRVLSSMAVTFKRALGARS
KQPPPREISQKPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLHQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS
LARIELSPLSLYWRPVYTPQYLISPDTLKKLHGETFPCTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
RKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVMMISGRPGIGKTHLAREV
AKRIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC
PLTLNCDRIESKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
SKREFPGQPDMWKNAFSSDFSHMKLTLAPQGGFDKNGNTPHGKGVMKSLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
TELKQALKNIAIKKCQIVYSGCTYILESDGKGDVKVDKIQNTSVQTNNELTGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRRRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
WGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG
PGNAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWTFAQACASLEKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
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="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="ALX87345.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAALAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNESTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLERLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTTGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFTPKLGRVQFATDTDHDFDTNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVAHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6705..7513
/gene="VP2"
CDS 6707..7513
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="ALX87346.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFDNNRKLQQA
SFQFSSNLQQASFQHDKDMLQAQIEATKKLQQEMMRIKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPSGALPGRANLRAAVPARGPSSTSS
NSSTATSVYSNQTTSTRLGSTAGSGASVSSLPSTARTMNWVRDQNRSLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7514..7569
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaacg gcaacaacga
61 caccgcaaaa tcttcaagtg accgagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcccccccc gagggaaata tcacaaaagc ccccacgacc
181 acctactcca gaactggtta aaaacattcc ccctcccccg cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccgggttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggcctttag tgtccctcca ctccatcaga gggagaatag
361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggatggag aaatctacca
421 ttatggtctg tatgtggatc gaggccttgt actgggtgta cacaaaccgc cagctgccat
481 cagcctcgct aggattgagc tatcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acaccctcaa gaagttacac ggagaaacgt tcccctgcac
601 agcctttgac aacaattgtt atgccttttg ttgttgggtc ctggacctaa atgactcgtg
661 gctgagtagg aggatgatcc agaggacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaattaaag aaggtagcta acatattcct
781 gtgtgctctg tcttcgttat tcaccaggcc cataaaggat ataataggga agctaaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggcg tagtggaatc
901 cctgatactc ttggcagagc tctttggagt gttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgaact gcaaggacct gaggaccttg cagtggagct
1021 cgtccctgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg cgtccacttt gagggcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aggaaggagg aagcaaacga
1201 actggctata gtgagatcta tcgaggacgc agtcctagat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctacatga gaacccttga
1321 cctcgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgc tctctggtgc atcgagcgaa
1441 ggaggaactt tccagcaggc caagaccagt ggtaatgatg atatcgggca gaccaggaat
1501 agggaagacc cacctcgcta gggaagtggc caaaagaatc gcgtcctccc tcacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagtaaccct gttcatgatg ccctcaggtt
1681 gcaagaactc gctgacactt gcccccttac tctaaactgt gacaggattg agagcaaagg
1741 aaaagtcttt gatagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaagtcaa agcgtgaatt cccaggccag cctgacatgt ggaagaacgc
1921 cttcagttct gatttctcac acatgaaact aacattggcc ccacagggtg gcttcgacaa
1981 gaacgggaac accccacacg gcaaaggcgt catgaagtct ctcaccactg gctcccttat
2041 tgcccgggca tcaggactac tccatgagag gttagatgaa tttgaactac agggcccaac
2101 tctcaccacc ttcaatttcg atcgcaataa agtacttgcc tttagacaac ttgctgctga
2161 gaacaaatat gggttgatgg acacaatgag agttgggaga cagctcaagg atgtcagaac
2221 catgacagaa ctcaaacaag cactcaagaa catcgcaatc aagaagtgcc agatagtgta
2281 tagtggttgc acctacatac ttgagtctga tggcaagggc gatgtgaaag ttgacaaaat
2341 tcagaacacc tccgtgcaga ccaacaatga gctgactggt gctctgcacc atctgaggag
2401 cgccagaatc agatactatg tcaagtgtgt tcaggaggcc ctgtattcca tcattcaaat
2461 tgctggggct gcgtttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctgtg
2521 gtccaaacca caagtggaag acacagagga gaccaccagc aaggacgggt 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 ataaatacta tgaggaggtg gccattgcca gggcaactga
2821 ggaagacttc tgtgaagagg aggaagccaa gatccgacaa aggatcttca ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcttcgct cggtctggtc acaggttctg aaattaggag
2941 aagaaaccca gatgatttca aacccaaggg gaagctgtgg 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 ctgagggtac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctagaat ggggacccat gcaaccatga agatccaagg
3361 gcgcactgtt ggaggccaaa tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctgggcact acaccaggtg attggggctg tccctacatc tataagagag 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 gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaagcc aagtgtgtta gaagctgcca agaagaccat
3841 catcaatgtc cttgaacaaa caattgatcc acctgagaaa tggacatttg cacaagcttg
3901 cgcgtccctt gagaagacca cttccagtgg ccacccgcac cacatgcgga aaaacgactg
3961 ctggaacgga gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacttgat
4021 gtttgaagaa ggaaaaaaca tgaccccagt ctatacagct gcgctcaagg atgagctagt
4081 taaaactgac aaaatttata gcaagatcaa gaagaggctt ctttggggtt cggacttggc
4141 gactatggtc cggtgtgctc gagcattcgg aggcttaatg gatgaactca aagcacattg
4201 tgtcacactt cccattagag ttggtatgaa catgaacgag gatggcccca tcatcttcga
4261 gaaacattcc aggtacacat atcactatga tgctgattac tctcgatggg attcgacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctctc cagaaccaca
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 gacgaaattg ttagcacaga
4621 tataaaattg gacccagaga aattgacagc aaagcttagg gaatatggat tgaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgag gatttggacg gcctaacctt
4741 cctgcggaga actgtgaccc gtgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggacaagggg ccccaaccat ggagacccat ctgaaacaat
4861 gattccacac tctcaaagac ccatacaatt gatgtcccta ctgggggagg 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 aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg cccttgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaagcaatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cccgatttga
5341 acccctacct ttctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtgatcct cgcggggaat gcgttcaccg ccggaaaagt catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccctacc cgatgttagg aataatttct
5581 accactacaa tcaatcaaat gaatccacca tcaaattgat agcaatgttg tatacaccac
5641 ttagggctaa caatgctggg gacgatgtct tcacagtctc ttgtcgagtc ctcacgagac
5701 catcccccga ttttgatttt atatttttag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaggtt gttcacgggt cccagcagtg cctttgtcgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta ctcaactgtc tcctgtcaac atctgcacct
5941 tcagaggaga tgtcacccac accacaggta gtcacaacta cacaatgaat ttggcttccc
6001 aaaattggag caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc 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 aggcaggaat actcataatg tgcacctggc ccccgctgtg gcccccactt
6361 ttccgggtga acagcttctc ttctttagat ccaccatgcc cggatgtagt gggtacccca
6421 acatggattt ggactgcctg ctcccccaag aatgggtggc gcatttctac caggaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagataca ggcagggttt
6541 tgtttgagtg taagctccat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc attgtaatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctga tcaatgctgg
6781 ggctggagcc atcaaccaaa aagttgaatt tgataataac agaaaattgc aacaagcttc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgataaag atatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagaatta aacaggcaat
6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct cccgacgcta ggactacaac
7081 atacaatgca ggccactttt ccacccctca accctcgggg gcgctgccag gaagagctaa
7141 tctcagggct gctgtccccg ctcggggtcc ctccagcaca tcttctaatt cttctactgc
7201 tacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 tgccagtgtc tcgagcctcc cgtcaactgc aaggaccatg aactgggtta gggatcaaaa
7321 taggagtttg tcacctttca tgaggggggc ccacaatata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaaat tgattatctt tcttttcttt agtgtctttt
7561 aaaaaaaaa
//