Typing tool
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Typing tool
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Complete norovirus genomes
| JQ613572 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS JQ613572 7560 bp RNA linear VRL 10-MAY-2013
DEFINITION Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU non-structural
polyprotein, VP1, and VP2 genes, complete cds.
ACCESSION JQ613572
VERSION JQ613572.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU
ORGANISM Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7560)
AUTHORS Eden,J.S., Tanaka,M.M., Boni,M.F., Rawlinson,W.D. and White,P.A.
TITLE Recombination within the Pandemic Norovirus GII.4 Lineage
JOURNAL J. Virol. 87 (11), 6270-6282 (2013)
PUBMED 23536665
REFERENCE 2 (bases 1 to 7560)
AUTHORS Eden,J.-S. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (03-FEB-2012) School of Biotechnology and Biomolecular
Sciences, University of New South Wales, Anzac Parade, Sydney, NSW
2052, Australia
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7560
/organism="Norovirus Hu/GII.4/StVincents/NSW217I/2010/AU"
/mol_type="genomic RNA"
/strain="Hu/GII.4/StVincents/NSW217I/2010/AU"
/host="Homo sapiens"
/db_xref="taxon:1183313"
/geo_loc_name="Australia"
/collection_date="Apr-2010"
/note="genotype: GII.4"
5'UTR 1..4
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFJ21450.1"
/translation="MKMASNDASAAAVANSNNDTAKSSNDKMFSNMAVTLKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDDVVVSYSAKDGVSGLPELSTVRQPE
ETSTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGC
PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGINMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
SMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AFJ21451.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGETLWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTQGDGSTRGHKATVYTGSADFTPKLGSVQFATDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWALPSYSGRSAHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="minor structural protein"
/codon_start=1
/product="VP2"
/protein_id="AFJ21452.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFFETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPSGALPGRINPRNPTPARGSPSISS
NASIATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNM
SFVTPPSSRSSSQGTVSTVPKDVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7514..7560
ORIGIN
1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaaatg acaaaatgtt ttctaacatg gctgtcactc ttaaacgggc
121 cctcggggcg cggcctaaac agcccccccc gagggaaata ccacaaaggc ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgatgt
241 agtggtttct tatagtgcca aagacggcgt ttccggtttg cctgagcttt ccaccgtcag
301 gcaaccggaa gaaaccagta cggccttcag cgtccctcca ctcaatcaga gggagaatag
361 ggatgctaag gaaccactga ctgggacaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgttgagc gaggtcttgt gctgggtgta cacaaaccac cagctgccat
481 tagtctcgcc aaggtcgaat taacaccact ctccttgttc tggagacctg tgtacactcc
541 tcagtacctc atttctccag acactctcaa gaagttacac ggagaaacat ttccctacac
601 agcctttgac aacaactgct atgccttttg ttgctgggtc ctggatttaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccccacta tggatgattc caaattgaag aaggtagcta acatattcct
781 gtgtgccctg tcttcgctat tcaccaggcc cataaaagac ataataggaa agttaaggcc
841 tctcaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ttggcagagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg attttgagtt acaaggacct gaggaccttg tagtggagct
1021 cgtccctgta gtgatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg
1081 aaaaatgttg tcatctgctg catccacctt aagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaagagg aagcgaatga
1201 actggctatg gtgagatcca tcgaggatgc agtactggac cttgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagcctggca acctacatga gaacccttga
1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcacttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcgaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca ggccaggaat
1501 agggaagacc caccttgcca gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg actacggaat gagcaatccc atccacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac cctaaattgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgat ttcctcgtgt acgcagaggc
1861 ccccgaggtc gaaaaggcga agcgcgactt cccgggccag cctgacatgt ggaaaaacgc
1921 ttttagttct gatttctcac acataaaatt ggcactagct ccacaaggtg gctttgataa
1981 gaatgggaac accccacacg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc ttcatgagag attggatgag tttgaactac agggcccagc
2101 tctcaccacc tttaactttg accgcaacaa agtgcttgcc ttcagacagc ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgaa agttgggagg cagctcaagg atgtcagaac
2221 catgccagaa cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta
2281 cagtggttgc acatacacac ttgagtctga tggcaagggc aatgtgaaag ttgacagagt
2341 tcagagtacc tccgttcaga ccaacaatga gttggctggc gccctgcacc atctaaggtg
2401 cgccagaatc aggtattatg ttaagtgtgt tcaggaggcc ctgtattcta tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg
2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcgtttcatc tgacgacatt aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagccttc tcaagtaaag gtctcagtga
2701 tgaagagtat gacgagtaca agagaattag agaggaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatatta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca gaccaacaag
2881 gaagcaacgc aaggaagaaa gggcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaatcca gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt
3001 ggactacaat gaaaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa
3061 ctttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa
3181 gtcaggcgaa ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgactggcat
3241 gatcttggag gaaggtgccc ccgaaggcac cgtagtcaca ctactcatca aaaggtctac
3301 tggagaactc atgcccctag cagctagaat gggaacccac gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctgggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaacgacta
3481 tgtagtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggggt gaaggggaag ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaactcagc accaaaacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaaaga
3721 ccccagagtc aagggtggcc cctcgttgca gcaagtcatg agggaccagc tgaaaccatt
3781 tacagagcct aggggtaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgaacaga caattgaccc acctgagaag tggtcgttcg cacaagcttg
3901 cgcgtccctt gataagacca cttctagcgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacaggt gcacttaagg atgaattagt
4081 caaaactgac aaaatttatg gcaagatcaa gaagaggctt ctctggggct cggatttggc
4141 aaccatgatc cggtgtgctc gagcattcgg aggtctgatg gatgaactca aagcacactg
4201 tgtcacactc cctgtcagag ttggtataaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacagat accactatga tgctgattac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtagcag aagaccttct ttctcctagc gtagtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 tatcgcccac tggcttctca ctctctgtgc actctccgaa gtcacaaatt tgtctccaga
4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagtacaga
4621 cataaaatta gacccagaga agttgacggc aaagcttaag gaatatgggt tgaaaccaac
4681 ccgccctgac aaaactgaag ggcctcttgt tatttctgaa gacttagacg gtttgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ctgaatcaat
4861 gatcccacac tctcaaagac ccatacaatt gatgtcctta ctgggagagg ccgcactcca
4921 cggcccaaca ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca ggcaagagtc aatgttcagg tggatgagat tctcggatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gtcggtgccg ctattgcggc gcccgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagttcacag
5281 tatcccctag aaacgctcca ggtgaaacat tatggagcgc gcccttaggc cctgacctga
5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aagtgatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagtccca gccaggtcac tatgttcccc catataatag
5521 tagatgttag acaattggaa cctgtgttga tccccttacc tgatgttagg aataacttct
5581 atcactataa tcagtcaaat gattctacca ttaaattgat agcaatgctg tatacaccac
5641 ttagggccaa taatgccggg gatgatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccctga ttttgatttc atatttttgg tgccacctac agttgagtca agaaccaagc
5761 catttactgt cccaatcttg actgttgaag aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaaatt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ttaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcgggtt ctcgcaatta cacaatgaat ttggcctctc
6001 taaattggaa caattatgac ccaacagaag aaatcccagc ccctctggga actccagatt
6061 tcgtgggaaa gatccaaggt atgctcactc aaaccacaca gggagatggc tcgacccggg
6121 gccataaagc cacagtttac actgggagtg ccgacttcac tccaaagctg ggcagtgttc
6181 aatttgctac tgatacagaa aatgattttg aaactcacca aaatacaaaa ttcaccccag
6241 tcggtgtcat ccaggatggt agcaccaccc accgaaatga accccaacaa tgggcgctcc
6301 caagttattc aggtagaagt gcccataatg tgcacctagc ccctgctgta gcccccaatt
6361 ttccgggtga acaacttctc ttcttcaggt ccactatgcc cggatgcagc gggtatccca
6421 acatggattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag
6481 ctccagcgca atctgatgtg gctctattga gatttgtgaa tccagacacg ggtagggtct
6541 tgtttgagtg caaacttcat aaatcaggct atgtcacagt ggctcacacc ggccaacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggttaat cagttctaca
6661 cacttgctcc catgggaaat ggaacggggc gtagacgtgc tttataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttag ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggct atcaaccaaa agattgattt tgaaaataat agaaaattgc agcaagcctc
6841 ctttcagttt agcagtaatc tacaacaggc ttccttccaa catgataaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttaca acaagaaatg atgaaagtta aacaggcaat
6961 gctcttagaa ggtggattct ttgaaacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcggaacaag gtactgggcc cctgatgcta ggattacaac
7081 atataatgca ggccgctttt ccacccccca accttcgggg gcactgccag gaagaatcaa
7141 tcccaggaac cctacccccg ctaggggctc ccccagtata tcttccaatg cttctattgc
7201 tacttctata tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg
7261 caccaatgtc tcgagtctcc cgtcaactgc aaggactagg agttgggttg aggatcaaaa
7321 cagaaatttg tcacctttca tgaggggggc tcacaacatg tcgtttgtca ctccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagatgttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta ggcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ccctttcttt agtgtctttt
//