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

RrC7962_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

Dof

Protein Properties

Length: 437aa MW: 48305.9 Da PI: 8.4579

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC7962_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	125.1	2.3e-39	108	168	2	62
zf-Dof 2 kekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 ++k+l+cprC+s++tkfCyynny+++qPr+fCkaC+ryWt+GG++rnvPvG+grrk+k+ss RrC7962_p1 108 PTKILPCPRCKSMDTKFCYYNNYNINQPRHFCKACQRYWTAGGTMRNVPVGAGRRKHKSSS 168 67899*****************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	3.0E-28	105	160	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	6.3E-32	110	166	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	28.435	112	166	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	114	150	IPR003851	Zinc finger, Dof-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 437 aa Download sequence Send to blast
MMMESRDPAI KLFGMKIPFP AVFEQPMTVA VVEEEHTGGD GGDDKSPEKV TTEQVTPELS 60 EKKNNCNNNN NLNDSKPETG DKEEEATSTD QTESDQQTTE DGKTLKKPTK ILPCPRCKSM 120 DTKFCYYNNY NINQPRHFCK ACQRYWTAGG TMRNVPVGAG RRKHKSSSSH YRHITISEAL 180 QAARLDPGLQ SNTRVLSFGL QAHQQHAAPV TPVMKLQGDQ KVQNGARNGL ADQRVENGDD 240 CSSGSSVTTT SVDETRAQNC RVVEPQMNSN NNMNGYACIP GVPWPYTWNP AMPPPGFYPP 300 PGYPMPFYPY WTIPMLPPNQ SSSPISQKGS SPNSPTLGKH SRDEEPSRKG DETERKQRNG 360 RVIVPKTLRI DDPDEAAKSS IWTTLGIKNE GSRLGSKGGG MFKGFDQKTK KSNNENPPLL 420 SANPAALSRS LNFQERV

Sequence ? help Back to Top

Protein Sequence Length: 437 aa Download sequence Send to blast

MMMESRDPAI KLFGMKIPFP AVFEQPMTVA VVEEEHTGGD GGDDKSPEKV TTEQVTPELS  60
EKKNNCNNNN NLNDSKPETG DKEEEATSTD QTESDQQTTE DGKTLKKPTK ILPCPRCKSM  120
DTKFCYYNNY NINQPRHFCK ACQRYWTAGG TMRNVPVGAG RRKHKSSSSH YRHITISEAL  180
QAARLDPGLQ SNTRVLSFGL QAHQQHAAPV TPVMKLQGDQ KVQNGARNGL ADQRVENGDD  240
CSSGSSVTTT SVDETRAQNC RVVEPQMNSN NNMNGYACIP GVPWPYTWNP AMPPPGFYPP  300
PGYPMPFYPY WTIPMLPPNQ SSSPISQKGS SPNSPTLGKH SRDEEPSRKG DETERKQRNG  360
RVIVPKTLRI DDPDEAAKSS IWTTLGIKNE GSRLGSKGGG MFKGFDQKTK KSNNENPPLL  420
SANPAALSRS LNFQERV

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence (By similarity). Regulates a photoperiodic flowering response. Transcriptional repressor of 'CONSTANS' expression. {ECO:0000250, ECO:0000269\|PubMed:19619493}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00394	DAP	Transfer from AT3G47500	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Highly expressed at the beginning of the light period, then decreases, reaching a minimum between 16 and 29 hours after dawn before rising again at the end of the day. {ECO:0000269\|PubMed:19619493}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	GU451312	0.0	GU451312.1 Brassica napus putative dof zinc finger protein (dof1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018441626.1	0.0	PREDICTED: cyclic dof factor 3
Swissprot	Q8LFV3	0.0	CDF3_ARATH; Cyclic dof factor 3
TrEMBL	A0A3P5YH86	0.0	A0A3P5YH86_BRACM; Uncharacterized protein
STRING	Bo3g134590.1	0.0	(Brassica oleracea)
STRING	Bostr.18473s0221.1.p	0.0	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5441	28	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G47500.1	1e-173	cycling DOF factor 3

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Corrales AR, et al. Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis. Plant Cell Environ., 2017. 40(5): p. 748-764 [PMID:28044345] Renau-Morata B, et al. Ectopic Expression of CDF3 Genes in Tomato Enhances Biomass Production and Yield under Salinity Stress Conditions. Front Plant Sci, 2017. 8: p. 660 [PMID:28515731] Henriques R, et al. The antiphasic regulatory module comprising CDF5 and its antisense RNA FLORE links the circadian clock to photoperiodic flowering. New Phytol., 2017. 216(3): p. 854-867 [PMID:28758689]