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

XP_009143474.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

Dof

Protein Properties

Length: 304aa MW: 32424.5 Da PI: 8.9047

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009143474.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	123.7	6.1e-39	77	136	3	62
zf-Dof 3 ekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 e+alkcprC+stntkfCy+nnysl+qPr+fCk+CrryWt+GGalrnvPvGgg+r+n++++ XP_009143474.1 77 EAALKCPRCESTNTKFCYFNNYSLTQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNRRTK 136 7789*****************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	1.0E-36	64	134	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	3.5E-32	79	134	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	29.478	80	134	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	82	118	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: 304 aa Download sequence Send to blast
MVFSSIQAYL DSSNWQQAPP SNYNQGGAGA SATGGHDLPP QLQPQSHPLS NGSGGSGSIR 60 PGSMVDRARQ ANVAMPEAAL KCPRCESTNT KFCYFNNYSL TQPRHFCKTC RRYWTRGGAL 120 RNVPVGGGCR RNRRTKSSSN NNSSTATSNN TSFSSAASGN ASTISAILSS NYGGTHENIL 180 SQILSPDNNM SLLNYGGLSQ DLRSIHMGAS GGSLMSCVDE WRTASHHQQP QILGGGNLED 240 SNPNPSSNGF YPFESPRITS ASISSALASQ FSSVKVEDNN PYKWVNVNGN CSSWTDLSTF 300 GSSR

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	120	133	RNVPVGGGCRRNRR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Specific to the midveins, containing narrow procambial cell files. Expressed in procambial cells of leaf primordia, roots and embryos, prior to the completion of xylem differentiation. {ECO:0000269\|PubMed:17583520}.
Uniprot	TISSUE SPECIFICITY: Specific to the vascular tissues (PubMed:17583520). The PEAR proteins (e.g. DOF2.4, DOF5.1, DOF3.2, DOF1.1, DOF5.6 and DOF5.3) form a short-range concentration gradient that peaks at protophloem sieve elements (PSE) (PubMed:30626969). {ECO:0000269\|PubMed:17583520, ECO:0000269\|PubMed:30626969}.

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	XP_009143474.1

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	AC189307	0.0	AC189307.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB033O04, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013634103.1	0.0	PREDICTED: dof zinc finger protein DOF2.4 isoform X2
Swissprot	O80928	1e-152	DOF24_ARATH; Dof zinc finger protein DOF2.4
TrEMBL	M4CLU4	1e-180	M4CLU4_BRARP; Uncharacterized protein
STRING	Bra005181.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G37590.1	1e-139	DNA binding with one finger 2.4

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]