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_009126620.1

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: 258aa MW: 28077.2 Da PI: 8.4724

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009126620.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	125.1	2.2e-39	54	111	5	62
zf-Dof 5 alkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 +l+cprCdstntkfCyynnyslsqPryfCk+C+ryWtkGG+lrn+PvGgg+rknk+s+ XP_009126620.1 54 SLRCPRCDSTNTKFCYYNNYSLSQPRYFCKSCKRYWTKGGTLRNIPVGGGCRKNKRST 111 689****************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	5.0E-30	48	108	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	29.301	55	109	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	8.3E-34	55	109	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	57	93	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:0048364	Biological Process	root development
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 258 aa Download sequence Send to blast
MDQLLHHQDV YGNYNKAREA MGVPCSSNPT QLDHDQKKPS PATGAARPQP PELSLRCPRC 60 DSTNTKFCYY NNYSLSQPRY FCKSCKRYWT KGGTLRNIPV GGGCRKNKRS TSSATRSLRT 120 TPEPASHDGK AFSAASFGGF GNNEHIDLSL AFALLNKQPP GSSSQLGFPS EFGSSHQSDM 180 ESVFGTGQQK ENTGYVFGNG SSGLEMAMSD PNKVLWGFPW QVNGEMNMGG GGGGHVDHID 240 SGREIWTNMN YINSGALM

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.6601	0.0	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_009126620.1

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	0.0	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_009126620.1	0.0	PREDICTED: dof zinc finger protein DOF5.3-like
Swissprot	Q84TE9	1e-155	DOF53_ARATH; Dof zinc finger protein DOF5.3
TrEMBL	A0A398AF16	0.0	A0A398AF16_BRACM; Uncharacterized protein
STRING	Bo2g025060.1	0.0	(Brassica oleracea)

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-147	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]