Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| EF684915 | GII.4 Den Haag | |
|
|---|---|---|---|
| GII.P4 Den Haag |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS EF684915 7560 bp RNA linear VRL 06-FEB-2012
DEFINITION Norovirus Hu/GII.4/Shellharbour/NSW696T/2006/AUS, complete genome.
ACCESSION EF684915
VERSION EF684915.2
KEYWORDS .
SOURCE Norovirus Hu/GII.4/Shellharbour/NSW696T/2006/AUS
ORGANISM Norovirus Hu/GII.4/Shellharbour/NSW696T/2006/AUS
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7560)
AUTHORS Tu,E.T., Bull,R.A., Greening,G.E., Hewitt,J., Lyon,M.J.,
Marshall,J.A., McIver,C.J., Rawlinson,W.D. and White,P.A.
TITLE Epidemics of gastroenteritis during 2006 were associated with the
spread of norovirus GII.4 variants 2006a and 2006b
JOURNAL Clin. Infect. Dis. 46 (3), 413-420 (2008)
PUBMED 18177226
REFERENCE 2 (bases 1 to 7560)
AUTHORS Eden,J.S., Tu,E.T., Bull,R.A. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (17-JUN-2007) School of Biotechnology & Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
REFERENCE 3 (bases 1 to 7560)
AUTHORS Eden,J.S. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (06-FEB-2012) School of Biotechnology & Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
REMARK Sequence update by submitter
COMMENT On Feb 6, 2012 this sequence version replaced EF684915.1.
FEATURES Location/Qualifiers
source 1..7560
/organism="Norovirus
Hu/GII.4/Shellharbour/NSW696T/2006/AUS"
/mol_type="genomic RNA"
/strain="Hu/NSW696T/2006/AUS"
/db_xref="taxon:471095"
/country="Australia"
/collection_date="2006"
/note="genotype: GII.4"
5'UTR 1..4
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="ABV55633.2"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGISGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALYHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLI
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="ABV55634.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLKWNKYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATIYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVTQDG
STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="VP2"
/codon_start=1
/product="minor capsid protein"
/protein_id="AEZ56468.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRAPTPARVSSSTSS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7514..7560
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acaaaatgtt ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaata ccacaaagac ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaagt
241 agtggtttct tatagtgcca aagatggcat ttccggttta cctgagcttt ccaccgtcag
301 acaaccagaa gaaaccaata cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 ggatgctaag gaaccactga ctggaacaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgttgagc gaggtcttgt gctgggtgtg cacaaaccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattacac ggagaaacat ttccctacac
601 agcctttgac aacaattgct atgccttttg ttgctgggtc ctggatctaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccctacta cggatgattc caaattaaag aaggtagcta acatattcct
781 gtgcaccctg tcttcgctat tcaccaggcc cataaaagac ataataggaa agttaaggcc
841 tctcaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg atttcgagtt acaaggacct gaggaccttg tagtggagct
1021 cgtccctgta gtaatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 aaaaatgttg tcatctgctg catccacctt gagagcttgt aaagatcttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaagagg aggcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtactggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctacatga gaacccttga
1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcccttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcgaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccagggat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctaaattgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag cgtgctcgag gcgcatcgat ttcctcgtgt atgcagaagc
1861 ccccgaggtc gaaaaggcga agcgtgactt cccgggccaa cctgacatgt ggaaaaacgc
1921 ttttagttct gatttctcac acataaaatt ggcactggct ccacaaggtg gcttcgataa
1981 gaacgggaac accccacacg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag attggatgag tttgaactac agggcccagc
2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac
2221 catgccagaa cttaaacaag cactcaagaa tatctcaatc aagaagtgtc agattgtgta
2281 cagtggttgc acctacacac ttgagtctga tggcaagggc aatgtgaagg ttgacagagt
2341 tcagagcacc tccgtacaga ccaacaatga gctggctggc gccctgtacc atctaaggtg
2401 cgccagaatc aggtactatg tcaagtgtgt ccaggaggcc ctgtattcta tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg
2521 gtccaagcca caagtagaaa acacagagga ggctaccaac aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcatttcatc tgacgacatt aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagtga
2701 tgaagagtat gatgagtaca agagaattag agaggaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca gaccaacaag
2881 gaaacaacgc aaggaagaaa gagcttctct cggtttaatc acaggttctg aaattaggaa
2941 aagaaaccca gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt
3001 ggactacaat gagaaactca gttttgaggc cccgccaagc atctggtcaa ggatagtcaa
3061 ttttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt
3121 catacctcag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtacacaa
3181 gtcaggcgaa ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgactggcat
3241 gatcttggaa gaaggtgcgc ccgaaggcac cgtggccaca ctactcatca aaaggtctac
3301 tggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggggt gagggggaag ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagcgcccc aaaacttagc accaaaacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccccagagtc aagggtggcc cctcgttgca gcaagtcatg agggaccagc tgaaaccgtt
3781 tacagagccc aggggtaaac caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtt cttgaacaaa caattgaccc acctgagaag tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttctagcgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttta caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ttacacaggt gcacttaagg atgaattagt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc
4141 aaccatgatc cggtgtgctc gggcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacagat accactatga tgctgattac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtggtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc actctccgaa gttacaaatt tgtccccaga
4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagtacaga
4621 cataaaacta gacccagaga agttgacagc aaagcttaag gaatatgggt tgaaaccaac
4681 ccgccctgat aaaactgaag gacctcttgt tatttctgaa gacttagatg gtttgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagatccat ctgaatcaat
4861 gattccacac tctcaaagac ccatacaatt gatgtcctta ctgggagagg ccgcactcca
4921 cggcccaaca ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gtcggtgccg ctattgcggc gcctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctga
5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtgatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gtcaggtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga tccccttacc tgatgttagg aataacttct
5581 atcattataa tcagtcaaat gattctacca ttaaattgat agcaatgctg tatacaccac
5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccctga ttttgacttt atatttttgg tgccacctac agttgagtca agaaccaaac
5761 catttactgt cccaatctta actgttgaag aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt attcacgggt cccagcggtg cctttgttgt tcaaccacaa aatggcagat
5881 gcacgactga tggcgtgctc ttaggcacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggtt ctcgtaatta cacaatgaat ttggcttctc
6001 taaaatggaa caaatatgac ccaacagaag aaattccagc ccctctagga actccagatt
6061 tcgtgggaaa gatccaaggt gtgctcactc aaaccacaaa gggagatggc tcgacccgtg
6121 gccataaagc tacaatttac actgggagtg ccccctttac cccaaagctg ggcagtgttc
6181 aattcagtac tgatacagaa aatgattttg aaactcacca aaacacaaaa ttcaccccag
6241 tcggtgttac ccaggatggt agcaccaccc accgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggtagaaat gtccataatg tacacctagc ccctgctgta gcccccactt
6361 ttccgggtga acaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtatccca
6421 acatggattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag
6481 ctccagcaca atctgatgtg gctctattga gatttgtgaa tccagacacg ggtagggtcc
6541 tgtttgagtg caaacttcat aaatcaggct atgtcacagt ggctcacacc ggccagcatg
6601 acttggtcat cccccccaat ggctatttta ggtttgattc ctgggttaat caattctaca
6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc tttataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggct atcaaccaaa agattgattt tgaaaataac agaaaattgc agcaagcttc
6841 cttccagttt agcagtaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttgca acaggaaatg atgaaagtca aacaggcaat
6961 gctcttagaa ggtggattct ctgaaacaga tgcagctcgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcggaacaag gtactgggcc cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accttcgggg gcactgccag gaagaatcaa
7141 tcccagggct cctacccccg ctcgggtctc ctccagtaca tcttctaatg cttctactgc
7201 tacttctata tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg
7261 caccaatgtc tcgagtctcc cgtcaactgc aaggactagg agttgggttg aggatcaaaa
7321 cagaaatttg tcacctttca tgaggggggc tcacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta gacgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ccttttcttt agtgtctttt
//