PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Ciclev10000654m

Common Name

CICLE_v10000654mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

WRKY

Protein Properties

Length: 595aa MW: 65014.4 Da PI: 7.6198

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10000654m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	106	1.9e-33	238	295	2	60
--SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS-- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnhek 60 dDgynWrKYGqK+vkgse+prsYY+Ct+++Cp+kkkvers d++++ei+Y+g+Hnh+k Ciclev10000654m 238 DDGYNWRKYGQKQVKGSENPRSYYKCTFPSCPTKKKVERSL-DGQITEIVYKGSHNHPK 295 8**************************************.*************85 PP
2	WRKY	106.6	1.3e-33	416	474	1	59
---SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 1 ldDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnhe 59 ldDgy+WrKYGqK+vkg+++prsYY+Ct++gCpv+k+ver+++d ++v++tYeg+Hnh+ Ciclev10000654m 416 LDDGYRWRKYGQKVVKGNPNPRSYYKCTHPGCPVRKHVERASHDLRAVITTYEGKHNHD 474 59********************************************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	2.8E-28	227	296	IPR003657	WRKY domain
PROSITE profile	PS50811	23.915	232	296	IPR003657	WRKY domain
SuperFamily	SSF118290	2.48E-25	233	296	IPR003657	WRKY domain
SMART	SM00774	3.9E-36	237	295	IPR003657	WRKY domain
Pfam	PF03106	3.0E-25	238	294	IPR003657	WRKY domain
Gene3D	G3DSA:2.20.25.80	1.0E-37	401	476	IPR003657	WRKY domain
SuperFamily	SSF118290	1.24E-29	408	476	IPR003657	WRKY domain
PROSITE profile	PS50811	38.147	411	476	IPR003657	WRKY domain
SMART	SM00774	1.2E-39	416	475	IPR003657	WRKY domain
Pfam	PF03106	5.2E-26	417	474	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009753	Biological Process	response to jasmonic acid
GO:0009788	Biological Process	negative regulation of abscisic acid-activated signaling pathway
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 595 aa Download sequence Send to blast
MASSSGNLDT LTNSHHHHPT NNFTFSTHPF MNPTSFTDLL TSSAPADHAQ LHSNNSNTTT 60 TTTTTTHGLS DRIAERTGSG VPKFKSIQPP SLPISPPSLF SPSSYFSIPA GLSPAELLDS 120 PVLLNTSNVL PSPTTGAFQT FNWKSNIGSN DQQRVKQENK NQSDFSFPTQ TRPNTTSSIA 180 QQNQPWNYQE STKQDVKLAQ SFSTTLQSNN QSNSGFQSDF GNYQHQQSQP IRESKKSDDG 240 YNWRKYGQKQ VKGSENPRSY YKCTFPSCPT KKKVERSLDG QITEIVYKGS HNHPKPQSTR 300 RSSSSSVNSN AIQASTQHSN EIQDQSYATH GSGQMDSAAT PENSSISVGD DDVDQGSQKS 360 KSGGGGAGGG DDFDEDEPEA KRWKIEGESE GISAPGSRTV REPRVVVQTT SDIDILDDGY 420 RWRKYGQKVV KGNPNPRSYY KCTHPGCPVR KHVERASHDL RAVITTYEGK HNHDVPAARG 480 SGSRALPDNS SNNNHNSNSN SNNNGTLPVR ASAVAHHPNN NSILNPVHNL RVSSSEGQAP 540 YTLEMLQGSG SFGFPGYGNA LRSYMNEGQQ QDNVLSRAKE EPRDHDTFFE SLLF*

Sequence ? help Back to Top

Protein Sequence Length: 595 aa Download sequence Send to blast

MASSSGNLDT LTNSHHHHPT NNFTFSTHPF MNPTSFTDLL TSSAPADHAQ LHSNNSNTTT  60
TTTTTTHGLS DRIAERTGSG VPKFKSIQPP SLPISPPSLF SPSSYFSIPA GLSPAELLDS  120
PVLLNTSNVL PSPTTGAFQT FNWKSNIGSN DQQRVKQENK NQSDFSFPTQ TRPNTTSSIA  180
QQNQPWNYQE STKQDVKLAQ SFSTTLQSNN QSNSGFQSDF GNYQHQQSQP IRESKKSDDG  240
YNWRKYGQKQ VKGSENPRSY YKCTFPSCPT KKKVERSLDG QITEIVYKGS HNHPKPQSTR  300
RSSSSSVNSN AIQASTQHSN EIQDQSYATH GSGQMDSAAT PENSSISVGD DDVDQGSQKS  360
KSGGGGAGGG DDFDEDEPEA KRWKIEGESE GISAPGSRTV REPRVVVQTT SDIDILDDGY  420
RWRKYGQKVV KGNPNPRSYY KCTHPGCPVR KHVERASHDL RAVITTYEGK HNHDVPAARG  480
SGSRALPDNS SNNNHNSNSN SNNNGTLPVR ASAVAHHPNN NSILNPVHNL RVSSSEGQAP  540
YTLEMLQGSG SFGFPGYGNA LRSYMNEGQQ QDNVLSRAKE EPRDHDTFFE SLLF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	2e-37	238	477	8	78	Probable WRKY transcription factor 4
2lex_A	2e-37	238	477	8	78	Probable WRKY transcription factor 4
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ccl.4279	0.0	abscission zone\| fruit

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In dry seeds, expressed in aleurone cells and embryos. Levels drop rapidly but transiently in the embryos of imbibed seeds. {ECO:0000250\|UniProtKB:Q6IEQ7}.
Uniprot	DEVELOPMENTAL STAGE: In dry seeds, expressed in aleurone cells and embryos. Levels drop rapidly but transiently in the embryos of imbibed seeds. {ECO:0000269\|PubMed:19199048}.
Uniprot	TISSUE SPECIFICITY: Expressed in aleurone cells. Mostly expressed in aleurone layers and leaves, and, to a lower extent, in roots, panicles and embryos. {ECO:0000250\|UniProtKB:Q6IEQ7}.
Uniprot	TISSUE SPECIFICITY: Expressed in aleurone cells (PubMed:15618416). Mostly expressed in aleurone layers and leaves, and, to a lower extent, in roots, panicles and embryos (PubMed:26025535). {ECO:0000269\|PubMed:15618416, ECO:0000269\|PubMed:26025535}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator (PubMed:26025535). Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (PubMed:19199048, PubMed:26025535). Negative regulator of both gibberellic acid (GA) and abscisic acid (ABA) signaling in aleurone cells, probably by interfering with GAM1, via the specific repression of GA- and ABA-induced promoters (PubMed:15618416, PubMed:19199048, PubMed:26025535). {ECO:0000269\|PubMed:15618416, ECO:0000269\|PubMed:19199048, ECO:0000269\|PubMed:26025535}.
UniProt	Transcription repressor (By similarity). Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Negative regulator of both gibberellic acid (GA) and abscisic acid (ABA) signaling in aleurone cells, probably by interfering with GAM1, via the specific repression of GA- and ABA-induced promoters (By similarity). {ECO:0000250\|UniProtKB:Q6IEQ7, ECO:0000250\|UniProtKB:Q6QHD1}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by abscisic acid (ABA) in aleurone cells, embryos, roots and leaves (PubMed:15618416, PubMed:19199048). Slightly down-regulated by gibberellic acid (GA) (PubMed:15618416). Accumulates in response to jasmonic acid (MeJA) (By similarity). {ECO:0000250\|UniProtKB:Q6B6R4, ECO:0000269\|PubMed:15618416, ECO:0000269\|PubMed:19199048}.
UniProt	INDUCTION: Induced by abscisic acid (ABA) in aleurone cells, embryos, roots and leaves (PubMed:25110688). Slightly down-regulated by gibberellic acid (GA) (By similarity). Accumulates in response to jasmonic acid (MeJA) (PubMed:16919842). {ECO:0000250\|UniProtKB:Q6IEQ7, ECO:0000269\|PubMed:16919842, ECO:0000269\|PubMed:25110688}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JF708984	1e-110	JF708984.1 Dimocarpus longan WRKY transcription factor 36-3 mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006431962.1	0.0	WRKY transcription factor WRKY24
Swissprot	Q6B6R4	1e-137	WRK24_ORYSI; WRKY transcription factor WRKY24
Swissprot	Q6IEQ7	1e-137	WRK24_ORYSJ; WRKY transcription factor WRKY24
TrEMBL	V4SWP8	0.0	V4SWP8_9ROSI; Uncharacterized protein
STRING	XP_006431962.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4583	27	55

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G38470.1	1e-111	WRKY DNA-binding protein 33

Link Out ? help Back to Top
Phytozome	Ciclev10000654m
Entrez Gene	18040837

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Zhang ZL, et al. A negative regulator encoded by a rice WRKY gene represses both abscisic acid and gibberellins signaling in aleurone cells. Plant Mol. Biol., 2009. 70(1-2): p. 139-51 [PMID:19199048] Basu S,Roychoudhury A Expression profiling of abiotic stress-inducible genes in response to multiple stresses in rice (Oryza sativa L.) varieties with contrasting level of stress tolerance. Biomed Res Int, 2014. 2014: p. 706890 [PMID:25110688] Zhang L, et al. Three WRKY transcription factors additively repress abscisic acid and gibberellin signaling in aleurone cells. Plant Sci., 2015. 236: p. 214-22 [PMID:26025535]