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

AT1G12610.1

Common Name

DDF1, DREB1F, ERF033, T12C24.14

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

ERF

Protein Properties

Length: 209aa MW: 23616.5 Da PI: 5.009

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G12610.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	47.5	4.5e-15	28	78	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr..krfslgkfgtaeeAakaaiaarkkleg 55 + y+G+r++ +Wv+e+r+p + +r++lg++ ta++Aa+a++ a ++l+g AT1G12610.1 28 PVYRGIRRRN-GDKWVCEVREP-----ThqRRIWLGTYPTADMAARAHDVAVLALRG 78 68***877.9*****8.....336***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	2.6E-10	28	78	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	3.66E-19	29	88	IPR016177	DNA-binding domain
PROSITE profile	PS51032	21.562	29	86	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	2.5E-28	29	88	IPR001471	AP2/ERF domain
SMART	SM00380	6.5E-23	29	92	IPR001471	AP2/ERF domain
CDD	cd00018	3.02E-25	30	88	No hit	No description
PRINTS	PR00367	3.3E-7	30	41	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.3E-7	52	68	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009408	Biological Process	response to heat
GO:0009414	Biological Process	response to water deprivation
GO:0009651	Biological Process	response to salt stress
GO:0010371	Biological Process	regulation of gibberellin biosynthetic process
GO:0016049	Biological Process	cell growth
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
GO:0050826	Biological Process	response to freezing
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 209 aa Download sequence Send to blast
MNNDDIILAE MRPKKRAGRR VFKETRHPVY RGIRRRNGDK WVCEVREPTH QRRIWLGTYP 60 TADMAARAHD VAVLALRGRS ACLNFADSAW RLPVPESNDP DVIRRVAAEA AEMFRPVDLE 120 SGITVLPCAG DDVDLGFGSG SGSGSGSEER NSSSYGFGDY EEVSTTMMRL AEGPLMSPPR 180 SYMEDMTPTN VYTEEEMCYE DMSLWSYRY

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.42068	0.0	root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	255937_at	0.0
Expression Atlas	AT1G12610	-
AtGenExpress	AT1G12610	-
ATTED-II	AT1G12610	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a member of the DREB subfamily A-1 of ERF/AP2 transcription factor family (DDF1). The protein contains one AP2 domain. There are six members in this subfamily, including CBF1, CBF2, and CBF3. Overexpression of this gene results in delayed flowering and dwarfism, reduction of gibberellic acid biosynthesis, and increased tolerance to high levels of salt. This gene is expressed in all tissues examined, but most abundantly expressed in upper stems. Overexpression of this gene is also correlated with increased expression of GA biosynthetic genes and RD29A (a cold and drought responsive gene). Under salt stress it induces the expression of GAOX7, which encodes ad C20-GA inhibitor.
UniProt	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'. Binding to the C-repeat/DRE element mediates cold or dehydration-inducible transcription. CBF/DREB1 factors play a key role in freezing tolerance and cold acclimation. {ECO:0000269\|PubMed:11798174}.

Function -- GeneRIF ? help Back to Top
DDF1 upregulates GA2ox7 under high-salinity stress and causes gibberellin deficiency in DDF1-overexpressing plants. [PMID: 18643985] DDF1 has a role regulating responses to several abiotic stresses. [PMID: 21421412] Data indicate that both transcription factors DWARF AND DELAYED FLOWERING1 (DDF1) and DDF2 are under selective constraint. [PMID: 26103993]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00137	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G12610.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By high-salt stress. {ECO:0000269\|PubMed:11798174}.

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

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT1G50960(A), AT2G42540(A), AT5G17490(A), AT5G52310(R)

Regulation -- Hormone ? help Back to Top
Source	Hormone
AHD	ethylene, gibberellin

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G12610

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC025417	0.0	AC025417.4 Genomic sequence for Arabidopsis thaliana BAC T12C24 from chromosome I, complete sequence.
GenBank	AK228194	0.0	AK228194.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-63-M15.
GenBank	AY560892	0.0	AY560892.1 Arabidopsis thaliana putative AP2/EREBP transcription factor (At1g12610) mRNA, complete cds.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_172721.1	1e-154	Integrase-type DNA-binding superfamily protein
Swissprot	Q9LN86	1e-155	DRE1F_ARATH; Dehydration-responsive element-binding protein 1F
TrEMBL	A0A178WLZ7	1e-153	A0A178WLZ7_ARATH; DDF1
STRING	AT1G12610.1	1e-154	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM355	28	187
Representative plant	OGRP6	16	1718

Link Out ? help Back to Top
Phytozome	AT1G12610.1
Entrez Gene	837817
iHOP	AT1G12610
wikigenes	AT1G12610

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Sakuma Y, et al. DNA-binding specificity of the ERF/AP2 domain of Arabidopsis DREBs, transcription factors involved in dehydration- and cold-inducible gene expression. Biochem. Biophys. Res. Commun., 2002. 290(3): p. 998-1009 [PMID:11798174] Haake V, et al. Transcription factor CBF4 is a regulator of drought adaptation in Arabidopsis. Plant Physiol., 2002. 130(2): p. 639-48 [PMID:12376631] Magome H,Yamaguchi S,Hanada A,Kamiya Y,Oda K dwarf and delayed-flowering 1, a novel Arabidopsis mutant deficient in gibberellin biosynthesis because of overexpression of a putative AP2 transcription factor. Plant J., 2004. 37(5): p. 720-9 [PMID:14871311] Suzuki N, et al. Enhanced tolerance to environmental stress in transgenic plants expressing the transcriptional coactivator multiprotein bridging factor 1c. Plant Physiol., 2005. 139(3): p. 1313-22 [PMID:16244138] Nakano T,Suzuki K,Fujimura T,Shinshi H Genome-wide analysis of the ERF gene family in Arabidopsis and rice. Plant Physiol., 2006. 140(2): p. 411-32 [PMID:16407444] Xiong Y,Fei SZ Functional and phylogenetic analysis of a DREB/CBF-like gene in perennial ryegrass (Lolium perenne L.). Planta, 2006. 224(4): p. 878-88 [PMID:16614820] Ko JH,Yang SH,Han KH Upregulation of an Arabidopsis RING-H2 gene, XERICO, confers drought tolerance through increased abscisic acid biosynthesis. Plant J., 2006. 47(3): p. 343-55 [PMID:16792696] Osuna D, et al. Temporal responses of transcripts, enzyme activities and metabolites after adding sucrose to carbon-deprived Arabidopsis seedlings. Plant J., 2007. 49(3): p. 463-91 [PMID:17217462] Geddy R,Brown GG Genes encoding pentatricopeptide repeat (PPR) proteins are not conserved in location in plant genomes and may be subject to diversifying selection. BMC Genomics, 2007. 8: p. 130 [PMID:17521445] Cartagena JA, et al. The Arabidopsis SDG4 contributes to the regulation of pollen tube growth by methylation of histone H3 lysines 4 and 36 in mature pollen. Dev. Biol., 2008. 315(2): p. 355-68 [PMID:18252252] Welling A,Palva ET Involvement of CBF transcription factors in winter hardiness in birch. Plant Physiol., 2008. 147(3): p. 1199-211 [PMID:18467468] Magome H,Yamaguchi S,Hanada A,Kamiya Y,Oda K The DDF1 transcriptional activator upregulates expression of a gibberellin-deactivating gene, GA2ox7, under high-salinity stress in Arabidopsis. Plant J., 2008. 56(4): p. 613-26 [PMID:18643985] Abercrombie JM, et al. Transcriptional responses of Arabidopsis thaliana plants to As (V) stress. BMC Plant Biol., 2008. 8: p. 87 [PMID:18684332] Khandelwal A,Elvitigala T,Ghosh B,Quatrano RS Arabidopsis transcriptome reveals control circuits regulating redox homeostasis and the role of an AP2 transcription factor. Plant Physiol., 2008. 148(4): p. 2050-8 [PMID:18829981] Achard P,Genschik P Releasing the brakes of plant growth: how GAs shutdown DELLA proteins. J. Exp. Bot., 2009. 60(4): p. 1085-92 [PMID:19043067] Hanada K, et al. Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana. Mol. Biol. Evol., 2011. 28(1): p. 377-82 [PMID:20736450] Kang HG, et al. Overexpression of FTL1/DDF1, an AP2 transcription factor, enhances tolerance to cold, drought, and heat stresses in Arabidopsis thaliana. Plant Sci., 2011. 180(4): p. 634-41 [PMID:21421412] Qin F, et al. SPINDLY, a negative regulator of gibberellic acid signaling, is involved in the plant abiotic stress response. Plant Physiol., 2011. 157(4): p. 1900-13 [PMID:22013217] Gaudinier A, et al. Enhanced Y1H assays for Arabidopsis. Nat. Methods, 2011. 8(12): p. 1053-5 [PMID:22037706] Meinke DW A survey of dominant mutations in Arabidopsis thaliana. Trends Plant Sci., 2013. 18(2): p. 84-91 [PMID:22995285] Kazama D,Kurusu T,Mitsuda N,Ohme-Takagi M,Tada Y Involvement of elevated proline accumulation in enhanced osmotic stress tolerance in Arabidopsis conferred by chimeric repressor gene silencing technology. Plant Signal Behav, 2014. 9(3): p. e28211 [PMID:24614501] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Lehti-Shiu MD, et al. Molecular Evidence for Functional Divergence and Decay of a Transcription Factor Derived from Whole-Genome Duplication in Arabidopsis thaliana. Plant Physiol., 2015. 168(4): p. 1717-34 [PMID:26103993] Kazama D, et al. Identification of Chimeric Repressors that Confer Salt and Osmotic Stress Tolerance in Arabidopsis. Plants (Basel), 2013. 2(4): p. 769-85 [PMID:27137403] Song GQ,Gao X Transcriptomic changes reveal gene networks responding to the overexpression of a blueberry DWARF AND DELAYED FLOWERING 1 gene in transgenic blueberry plants. BMC Plant Biol., 2017. 17(1): p. 106 [PMID:28629320] Imran QM, et al. Transcriptome profile of NO-induced Arabidopsis transcription factor genes suggests their putative regulatory role in multiple biological processes. Sci Rep, 2018. 8(1): p. 771 [PMID:29335449]