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

Carubv10023898m

Common Name

CARUB_v10023657mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

Dof

Protein Properties

Length: 257aa MW: 27874.7 Da PI: 9.2907

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10023898m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	124.7	3e-39	14	73	3	62
zf-Dof 3 ekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 e+alkcprC+stntkfCy+nnysl+qPr+fCk+CrryWt+GGalrnvPvGgg+r+n++s+ Carubv10023898m 14 EAALKCPRCESTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNRRSK 73 6789*****************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	2.0E-34	1	66	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	2.2E-32	16	71	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	29.478	17	71	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	19	55	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:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 257 aa Download sequence Send to blast
MVDRARQANV ALPEAALKCP RCESTNTKFC YFNNYSLTQP RHFCKTCRRY WTRGGALRNV 60 PVGGGCRRNR RSKSSSNNNS TATSNNTSFS SGNASTISTI LSSHYGGNQE SILSQILSPG 120 RLMNPTYMHL GDLTNNTKTD NNMSLLNYGG LSQDLRSIHM GTSGGSLMSC VDEWRSTSHH 180 HQPSLGGGNL EDSSNPNPSS NGFYPFESPR ITSASISSAL ASQFSSVKVE DNPYKWVNVN 240 GNCSSWTDLS AFGSSR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	57	70	RNVPVGGGCRRNRR

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). Probably involved in early processes for vascular development (PubMed:17583520). The PEAR proteins (e.g. DOF2.4, DOF5.1, DOF3.2, DOF1.1, DOF5.6 and DOF5.3) activate gene expression that promotes radial growth of protophloem sieve elements. Triggers the transcription of HD-ZIP III genes, especially in the central domain of vascular tissue (PubMed:30626969). {ECO:0000250\|UniProtKB:Q9M2U1, ECO:0000269\|PubMed:17583520, ECO:0000269\|PubMed:30626969}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00295	DAP	Transfer from AT2G37590	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10023898m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinin in procambium. Antagonized by the HD-ZIP III proteins and by mobile miR165 and miR166 microRNAs. {ECO:0000269\|PubMed:30626969}.

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	AC004684	0.0	AC004684.3 Arabidopsis thaliana chromosome 2 clone F13M22 map ve018, complete sequence.
GenBank	BT030014	0.0	BT030014.1 Arabidopsis thaliana At2g37590 mRNA, complete cds.
GenBank	CP002685	0.0	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006294619.1	0.0	dof zinc finger protein DOF2.4
Swissprot	O80928	1e-159	DOF24_ARATH; Dof zinc finger protein DOF2.4
TrEMBL	R0FX23	0.0	R0FX23_9BRAS; Uncharacterized protein
TrEMBL	R0HTZ4	0.0	R0HTZ4_9BRAS; Uncharacterized protein
STRING	XP_006294619.1	0.0	(Capsella rubella)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G37590.1	1e-143	DNA binding with one finger 2.4

Link Out ? help Back to Top
Phytozome	Carubv10023898m
Entrez Gene	17890199

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Miyashima S, et al. Mobile PEAR transcription factors integrate positional cues to prime cambial growth. Nature, 2019. 565(7740): p. 490-494 [PMID:30626969]