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_009131031.1

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

TCP

Protein Properties

Length: 246aa MW: 27367.4 Da PI: 7.0159

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009131031.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	89.2	9.4e-28	38	108	3	73
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec 73 g+kdrhsk++T +g+RdRR+Rlsa++a++++dLq++LG+ ++sk i+WLl++a+ + l+ +++++ + XP_009131031.1 38 GGKDRHSKVCTVRGLRDRRIRLSATTAIQLYDLQERLGLSQPSKVIDWLLEAAQNDVAMLPPLQFPPGFHP 108 68***********************************************************9977776333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.6E-26	39	102	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	26.653	39	97	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic

Sequence ? help Back to Top
Protein Sequence Length: 246 aa Download sequence Send to blast
MRTNSMGIKQ EGDNQYQATS LSSLRQNPRI VRASRIFGGK DRHSKVCTVR GLRDRRIRLS 60 ATTAIQLYDL QERLGLSQPS KVIDWLLEAA QNDVAMLPPL QFPPGFHPNL AAAAAAGESF 120 PGIFESFDLG SCSSRTDTIQ REGLNLESHG FDIDHHFFSN SNHRDKLYFP SSSSCHYNLG 180 LLQQSLLDQS GNVTVALSNN NNLNPQTVET MSSLFPRYPL FLEGGDHQLQ LFSSNSNSSK 240 QTDHVE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-16	44	98	1	55	Putative transcription factor PCF6
5zkt_B	1e-16	44	98	1	55	Putative transcription factor PCF6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, stems, buds, flowers and siliques. {ECO:0000269\|PubMed:17307931}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00497	DAP	Transfer from AT5G08070	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009131031.1

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	AC241004	0.0	AC241004.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB026J02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009131031.1	0.0	PREDICTED: transcription factor TCP17
Swissprot	Q9LEZ9	5e-92	TCP17_ARATH; Transcription factor TCP17
TrEMBL	M4CP29	0.0	M4CP29_BRARP; Uncharacterized protein
STRING	Bra005967.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3576	27	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G08070.1	7e-81	TCP domain protein 17

Publications ? help Back to Top
Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549]