Typing tool
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Typing tool
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Complete norovirus genomes
| JX989073 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7511
LOCUS JX989073 7557 bp RNA linear VRL 09-MAY-2014
DEFINITION Norovirus Hu/GII.4/GZ2010-L26/Guangzhou/CHN/2010, complete genome.
ACCESSION JX989073
VERSION JX989073.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/GZ2010-L26/Guangzhou/CHN/2010
ORGANISM Norovirus Hu/GII.4/GZ2010-L26/Guangzhou/CHN/2010
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7557)
AUTHORS Xue,L., Wu,Q., Dong,R., Kou,X., Li,Y., Zhang,J. and Guo,W.
TITLE Genetic analysis of noroviruses associated with sporadic
gastroenteritis during winter in Guangzhou, China
JOURNAL Foodborne Pathog. Dis. 10 (10), 888-895 (2013)
PUBMED 23947818
REFERENCE 2 (bases 1 to 7557)
AUTHORS Xue,L., Wu,Q., Kou,X. and Zhang,J.
TITLE Rational design of generic primers used for genome clone of GII
Norovirus
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 7557)
AUTHORS Xue,L., Wu,Q., Kou,X. and Zhang,J.
TITLE Direct Submission
JOURNAL Submitted (21-OCT-2012) State Key Laboratory of Applied
Microbiology (Ministry-Guangdong Province Jointly Breeding Base),
South China, Guangdong Provincial Key Laboratory of Microbial
Culture Collection and Application, Guangdong Open Laboratory of
Applied Microbiology, Guangdong Institute of Microbiology, No. 100,
Xianliezhong Road, Yuexiu District, Guangzhou, Guangdong 510070,
China
COMMENT ##Assembly-Data-START##
Assembly Method :: seqman v. 7.1.0
Sequencing Technology :: 454
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7557
/organism="Norovirus
Hu/GII.4/GZ2010-L26/Guangzhou/CHN/2010"
/mol_type="genomic RNA"
/isolate="Hu/GII.4/GZ2010-L26/Guangzhou/CHN/2010"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1282423"
/country="China"
/collection_date="26-Nov-2010"
/note="genotype: GII.4"
CDS 3..5102
/note="ORF1; contains NTPase, 3A-like protein, VPg,
protease, and RdRp"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AGC96528.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP
KQPPPRETPQGPPRPTTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPGD
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLTGDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC
PKPKDNEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5083..6705
/gene="VP1"
CDS 5083..6705
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="major viral capsid protein"
/protein_id="AGC96529.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRDIPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6705..7511
/gene="VP2"
CDS 6705..7511
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="minor viral capsid protein"
/protein_id="AGC96530.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFAETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQSPGVLLGRANPRTPTPARGSPSTSS
NASTATSIYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWAGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gaatgaagat ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgaca
61 ccgcaaaatc ttcaagtgac aaaatgtttt ctagcatggc tgtcactttc aaacgagccc
121 tcggggcgcg gcctaaacag ccccccccga gggaaacacc acaaggaccc ccacgaccaa
181 ctactccaga actggtcaaa aagatccctc cccccccgcc caacggagag gatgaagtag
241 tggtttctta tagtgccaaa gatggtgttt ccggtttacc tgaactttcc accgtcaggc
301 aaccggaaga aaccaatacg gctttcagtg tccctcccct caatcagagg gagagtaggg
361 atgctaagga accactgact ggaacaattc tggaaatgtg ggatggagaa atctaccatt
421 atggcctgta tgttgagcga ggtcttgtgc tgggtgtgca caaaccacca gctgccatta
481 gcctcgccaa ggtcgaacta acaccactct ccctgttctg gagacctgtg tacactcctc
541 agtacctcat ctctccagac actctcaaga aattacacgg agaaacattt ccctacacag
601 ccttcgacaa caattgctat gccttctgtt gctgggtcct ggacctaaat gactcgtggc
661 tgagtaggag aatgatccag agaacaactg gcttcttcag accctaccaa gattggaata
721 ggaaacccct ccccactatg gatgattcca aattaaagaa ggtagctaac atattcctgt
781 gcaccctgtc ttcgctattc accagaccca taaaagacat aatagggaag ttaaggcctc
841 tcaacatcat caacatcctg gcttcatgtg attggacctt cgcaggcata gtggagtcct
901 tgatactctt ggcagagctc tttggagtct tctggacacc cccagatgtg tctgcgatga
961 ttgccccctt actcggtgat ttcgagttac aagggcctgg ggaccttgta gtggagctcg
1021 tccctgtagt aatgggggga attggtttgg tgctaggatt cactaaagag aagattggaa
1081 aaatgttgtc atctgctgca tctaccttaa gagcttgtaa agatcttggt gcgtatgggc
1141 tagagatcct aaagttagtc atgaagtggt tcttcccgaa gaaagaggaa gcaaatgaac
1201 tggctatggt gagatccatc gaggatgcag tgctagacct tgaggcaatt gaaaacaacc
1261 atatgaccac cttgctcaaa gacaaagaca gcctggcaac ctatatgaga acccttgacc
1321 tcgaggaaga gaaagccaga aaactctcaa ccaagtctgc ttcacctgac atcgtgggca
1381 caatcaacgc ccttctggcg aggatcgccg ctgcacgctc cctggtgcac cgagcgaaag
1441 aggagctttc tagcagacca agacctgtag tcttgatgat atcaggcaga ccaggaatag
1501 ggaagaccca ccttgctagg gaagtggcta agagaattgc agcctccctc acaggagatc
1561 agcgtgtagg cctcatccca cgcaatggcg tcgatcactg ggacgcgtac aagggggaga
1621 gggtcgtcct atgggacgac tatggaatga gcaaccccat ccacgacgcc ctcaggctgc
1681 aagaactcgc tgacacttgc cccctcactc taactggtga caggattgag aataaaggaa
1741 aggtctttga cagcgatgtc atcatcatca ccactaacct ggccaaccca gcaccactgg
1801 actatgtcaa ctttgaagcg tgctcgaggc gcattgattt cctcgtgtat gcagaagccc
1861 ccgaggtcga aaaggcgaag cgtgacttcc cgggccaacc tgacatgtgg aaaaacgctt
1921 ttagtcctga tttctcacac ataaaattgg cactggctcc acaaggtggc tttgataaga
1981 acgggaacac cccacatggg aagggcgtca tgaagactct caccactggc tccctcatcg
2041 ccagggcatc agggctgctc catgagagat tggatgagtt tgaactacag ggcccagctc
2101 ttaccacctt caactttgac cgcaacaaag tgcttgcctt caggcagctt gctgctgaaa
2161 ataagtacgg gttgatggac acaatgaaag ttggaaggca gctcaaggat gtcaaaacca
2221 tgccggaact taaacaagca ctcaagaata tctcaatcaa gaagtgccag attgtgtata
2281 gtggttgtac ctacacactt gagtctgatg gcaagggcaa tgtgaaagtt gacagagttc
2341 agagcacctc cgttcagacc aacaatgagc tggctggcgc cctgcaccac ctgaggtgcg
2401 ccagaatcag gtactacgtc aagtgtgttc aggaggccct gtattctatc atccagattg
2461 ctggggctgc atttgtcacc acgcgcatca tcaagcgtgt gaacattcaa gacttatggt
2521 ccaagccaca agtggaaaac acagaggagg ccaccaacaa ggacgggtgc ccaaaaccca
2581 aagataatga ggagttcgtc atttcatctg acgacattaa aactgagggt aagaaaggga
2641 agaacaagac tggccgtggc aagaagcaca cagccttctc aagtaaaggt ctcagtgatg
2701 aagagtatga tgagtacaag agaattagag aggaaaggaa tggtaagtac tccatagaag
2761 agtatcttca ggacagggac aaatactatg aggaggtggc cattgccagg gcgaccgagg
2821 aagacttctg tgaagaggag gaggccaaga tccggcaaag gatcttcaga ccaacaagga
2881 agcaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa attaggaaaa
2941 ggaacccaga cgacttcaag cctaagggga aactatgggc tgatgatgac agaagtgtgg
3001 actacaatga aaaactcagt tttgaggctc caccaagcat ctggtcaagg atagtcaact
3061 ttggctcagg ttggggcttc tgggtctccc ccagcctgtt tataacatca acccacgtca
3121 taccccaggg cgcaaaggag ttctttggag tccccatcaa acaaattcag gtacacaagt
3181 caggcgaatt ctgtcgcttg aggttcccaa agccaatcag gactgatgtg actggcatga
3241 tcttggaaga aggtgccccc gaaggcaccg tggtcacact actcatcaaa aggtctactg
3301 gagaactcat gcccttagca gctagaatgg ggacccatgc aaccatgaaa attcaagggc
3361 gcactgttgg aggtcagatg ggcatgcttc tgacaggatc caacgccaaa agcatggatc
3421 taggcaccac accaggtgat tgcggctgtc cctacatcta caagagagga aatgactatg
3481 tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata tgtgccaccc
3541 aggggggtga gggggaagct acacttgaag gtggtgacaa taagggaaca tactgtggcg
3601 caccaatcct aggcccaggg agcgccccaa aacttagcac caaaaccaaa ttctggagat
3661 catccacagc accactccca cctggcacct acgaaccagc ctaccttggt ggcaaggacc
3721 ccagagtcaa gggtggcccc tcgttgcagc aagttatgag ggaccagctg aaaccattta
3781 cagagcctag gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaaccatca
3841 tcaatgtcct tgaacaaaca atcgacccac ctgagaagtg gtcgttcgca caagcttgcg
3901 cgtcccttga caagaccact tctagcggcc atccgcacca catgcggaaa aacgactgct
3961 ggaacgggga atctttcaca ggcaagctgg cggaccaggc ttccaaggcc aacctgatgt
4021 ttgaagaagg gaagaacatg accccagtct acacaggtgc acttaaggat gaattagtca
4081 aaactgacaa aatttatggt aagatcaaga agaggcttct ctggggctcg gatttggcaa
4141 ccatgatccg gtgtgctcga gcattcggag gcctaatgga tgaactcaaa gcacactgtg
4201 tcaccctccc tatcagagtt ggtatgaata tgaatgagga tggccccatc atcttcgaga
4261 agcattccag gtacagatac cactatgatg ctgattactc tcggtgggat tcaacacaac
4321 agagagccgt gctggcagct gctctagaaa tcatggttaa attctcctca gaaccacatt
4381 tggctcaggt agtagcagag gaccttcttt ctcctagcgt ggtggacgtg ggtgacttca
4441 caatatcaat caacgagggt cttccctctg gggtgccctg cacctcccaa tggaactcca
4501 tcgcccactg gcttctcact ctctgtgcac tctccgaagt tacaaatttg tccccagaca
4561 tcatacaggc taattctctc ttctccttct atggtgatga tgaaattgtt agtacggaca
4621 taaaattaga cccagagaag ttgacagcaa agcttaagga atacgggttg aaaccaaccc
4681 gccctgataa gactgaggga cctcttgtta tttctgaaga tttagatggc ttgaccttcc
4741 tgcggaggac tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagctcaa
4801 tactcaggca aatgtactgg actaggggtc ctaaccatga agatccatct gaatcaatga
4861 tcccacactc tcaaagaccc atacaattga tgtccttact gggagaggcc gcactccacg
4921 gcccaacatt ctacagtaaa atcagcaaat tagtcattgc agagttaaaa gaaggtggta
4981 tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc tcagatctga
5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat
5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt
5161 atggctttgg agcccgttgt cggcgccgct attgcggcgc ctgtagcggg ccaacaaaat
5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtggaga gttcacagta
5281 tcccctagaa acgctccagg tgaaatacta tggagcgcac ccttaggccc tgatctgaat
5341 ccctacctat ctcatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag
5401 gtgatccttg cggggaacgc gttcaccgcc ggaaaaatta tatttgcagc agtcccacca
5461 aattttccaa ctgaaggctt gagccccagc caggtcacta tgttccccca cataatagtg
5521 gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa taacttctat
5581 cactataacc aatcaaatga ttctaccatt aaattgatag caatgctgta tacaccactt
5641 agggctaata atgctgggga agatgtcttc acagtctctt gtcgagttct cacgaggcca
5701 tcccctgatt ttgattttat atttttggtg ccacctacag ttgagtcaag aaccaaacca
5761 tttactgtcc caatcttaac tgttgaggaa atgaccaatt caagattccc cattcctttg
5821 gaaaagttgt tcacgggtcc cagcagtgcc tttgttgtcc aaccacaaaa tggcagatgc
5881 acgactgatg gcgtgctctt aggcaccacc caactgtctc ctgtcaacat ctgcaccttc
5941 agaggggatg tcacccacat tgcaggttct cgtaattaca caatgaattt ggcttctcta
6001 aattggaaca attatgaccc aacagaagaa attccagccc ctctaggaac tccagatttc
6061 gtgggaaaga tccaaggtat gctcactcaa accacgaaag gagatggttc gacccgtggc
6121 cataaagcta cagtttatac tgggagtgcc ccctttactc caaagctggg cagtgttcaa
6181 ttcagtactg acacagaaaa tgattttgaa actcaccaaa acacaaaatt caccccagtc
6241 ggtgtcatcc aggatggtag caccacccac cgaaatgaac cccaacaatg ggtgctccca
6301 agctattcag gtagagatat ccctaatgta cacctagccc ctgctgtagc ccccactttc
6361 ccgggtgaac aacttctttt ctttaggtct actatgcccg gatgcagcgg gtatcccaac
6421 atggatttgg attgcctgct cccccaggag tgggtgcagc acttctacca agaggcagct
6481 ccagcacaat ctgatgtggc tctattgagg tttgtgaatc cagacacggg cagggtcctg
6541 tttgagtgca aacttcataa atcaggctat gtcacagtgg ctcacaccgg ccagcatgat
6601 ttggtcatcc cccccaatgg ttattttagg tttgattcct gggttaatca attctacaca
6661 cttgccccca tgggaaatgg aacggggcgt agacgtgctt tataatggct ggagctttct
6721 ttgctggatt ggcatctgat gtccttagct ctggacttgg ttccctaatc aatgctgggg
6781 ctggggctat caaccaaaag attgattttg aaaataacag aaaattgcag caagcttcct
6841 ttcagtttag cagtaatcta caacaggctt cctttcaaca tgataaagaa atgctccaag
6901 cacaaattga ggccactaaa aagttgcaac aggaaatgat gaaagtcaaa caggcagtgc
6961 tcttagaagg tggattcgct gaaacagatg cagcccgtgg ggcaatcaac gcccctatga
7021 caaaggcttt ggactggagc ggaacaaggt actgggcccc tgatgctagg actacaacat
7081 acaacgcagg ccgcttttcc acccctcaat ctccgggggt actgctagga agagccaatc
7141 ccagaactcc tacccccgct cggggctctc ccagcacatc ttctaatgct tctactgcta
7201 cttctatata ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggca
7261 ccagtgtttc gagtctcccg tcaactgcaa ggactaggag ttgggttgag gaccaaaaca
7321 gaaatttgtc acctttcatg aggggggctc acaacatatc gttcgtcacc ccaccatcta
7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agaagttttg gactcctggg
7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtagg cgaggggagt
7501 cacgggtgta atgtgaaaag acaaaattga ttatctttcc ttttctttag tgtcttt
//