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_009131940.1

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: 247aa MW: 26763.8 Da PI: 8.8453

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009131940.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	121.2	3.7e-38	47	104	4	61
zf-Dof 4 kalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkks 61 a++cprCdstntkfCyynn slsqPryfCk+CrryWtkGG+lrn+PvGgg+rknk+s XP_009131940.1 47 LAVRCPRCDSTNTKFCYYNNSSLSQPRYFCKSCRRYWTKGGTLRNIPVGGGCRKNKRS 104 5789****************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	2.0E-30	42	103	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	28.537	49	103	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	4.1E-33	49	103	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	51	87	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: 247 aa Download sequence Send to blast
MDHLLQQQDV FGNYNKAREA MGGSCLDHDQ KKPSPATGAA RPQPPELAVR CPRCDSTNTK 60 FCYYNNSSLS QPRYFCKSCR RYWTKGGTLR NIPVGGGCRK NKRSATRSLR TTPEPASHDG 120 KAFSGGIFGG YSNNDHIDLS LAFALLNKQP PGSSSQLGFG SSHQSDMESV FGTSQQKGNA 180 GYAFGSGSSG LDMAMSDPNK VLWGFPWQMN GESFGMMNMG GGGHVDQLDS GKEIWTNMNY 240 INSGALM

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.6601	1e-167	root\| silique

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In embryos, present in cells relevant for root initiation and later in vascular tissues. At the globular stage, accumulates in cells adjacent to the hypophysis (extra-embryonic cell specified to become the founder cell of the primary root meristem) (PubMed:20220754). Expressed at preprocambial stages first in wide domains, and later confined to sites of vein development. In young seedlings, first observed in the central region of leaves primordia, and later strongly expressed at sites of midvein, first and second loops, and higher-order veins (PubMed:20563990). {ECO:0000269\|PubMed:20220754, ECO:0000269\|PubMed:20563990}.
Uniprot	TISSUE SPECIFICITY: 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). Accumulates in the stele (PubMed:20563990). {ECO:0000269\|PubMed:20563990, 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). 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 (PubMed:30626969). {ECO:0000250\|UniProtKB:Q9M2U1, ECO:0000269\|PubMed:30626969}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009131940.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinin in procambium (PubMed:30626969). Induced by the transcription factor MONOPTEROS (MP) in cells relevant for root initiation, and later in vascular tissues and hypophysis (PubMed:20220754). {ECO:0000269\|PubMed:20220754, ECO:0000269\|PubMed:30626969}.

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	AC234737	1e-176	AC234737.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH010D15, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009131940.2	0.0	PREDICTED: dof zinc finger protein DOF5.3-like
Swissprot	Q84TE9	1e-147	DOF53_ARATH; Dof zinc finger protein DOF5.3
TrEMBL	M4CR34	0.0	M4CR34_BRARP; Uncharacterized protein
STRING	Bra006675.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6132	18	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60200.1	1e-149	TARGET OF MONOPTEROS 6

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] Miyashima S, et al. Mobile PEAR transcription factors integrate positional cues to prime cambial growth. Nature, 2019. 565(7740): p. 490-494 [PMID:30626969]