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_009144258.1

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: 349aa MW: 38727.4 Da PI: 6.8541

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009144258.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	111.7	1.1e-34	26	128	1	89
TCP 1 aagkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssas...nsssg... 88 a+g+kdrhsk+ T++g+RdRRvRl a++a++f+d+qd+L +d++sk+++WL+++ak+ai++l t+ ++++++ +++ssss+ + + + XP_009144258.1 26 ATGRKDRHSKVFTSKGPRDRRVRLAAHTAIQFYDVQDRLQYDRPSKAVDWLIKKAKAAIDKLETTQEPPENDTtKPGSSSSEPNlvdT---Qtqf 117 589**************************************************************99999998644444444432221...1334 PP TCP 89 ..........k 89 XP_009144258.1 118 vaanldpedaM 128 45555554331 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.4E-31	27	127	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	30.346	29	87	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: 349 aa Download sequence Send to blast
MGLKGYSAGD GVGEIIEVPG GHIIRATGRK DRHSKVFTSK GPRDRRVRLA AHTAIQFYDV 60 QDRLQYDRPS KAVDWLIKKA KAAIDKLETT QEPPENDTTK PGSSSSEPNL VDTQTQFVAA 120 NLDPEDAMKT FFPATTTTSG GGTNMNFQNY PHHHDADNIV SRTTTTTPNL NQDLGLSLHP 180 FQGNNINSTV VPETNNFATS HFETFGRISG WNHHDLTMTS SSSPSEQQEE QERGNGGFMV 240 NLHHHQPSMM TLLNSQQQQV FLGGQQQQQR GTLQSSLFPH SFRSWDHHHQ TTSDNHHHHH 300 HNQASPVMFA SSSQYGSHGM MMMQGLSFPI HGEEPTQPNS SSSPPNSHL

Sequence ? help Back to Top

Protein Sequence Length: 349 aa Download sequence Send to blast

MGLKGYSAGD GVGEIIEVPG GHIIRATGRK DRHSKVFTSK GPRDRRVRLA AHTAIQFYDV  60
QDRLQYDRPS KAVDWLIKKA KAAIDKLETT QEPPENDTTK PGSSSSEPNL VDTQTQFVAA  120
NLDPEDAMKT FFPATTTTSG GGTNMNFQNY PHHHDADNIV SRTTTTTPNL NQDLGLSLHP  180
FQGNNINSTV VPETNNFATS HFETFGRISG WNHHDLTMTS SSSPSEQQEE QERGNGGFMV  240
NLHHHQPSMM TLLNSQQQQV FLGGQQQQQR GTLQSSLFPH SFRSWDHHHQ TTSDNHHHHH  300
HNQASPVMFA SSSQYGSHGM MMMQGLSFPI HGEEPTQPNS SSSPPNSHL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	2e-20	34	87	1	54	Putative transcription factor PCF6
5zkt_B	2e-20	34	87	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.16311	0.0	bud

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed in the distal and middle regions of cotyledons of heart-shaped embryos. Later localized in bending cotyledon, and mature embryos, but no signals were detected in the presumptive shoot apical meristem (SAM) and the boundary region during embryogenesis. Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Mostly detected in lateral organs, such as leaves and flowers. Expressed in cotyledons, particularly in the vascular region, in leaves, roots, stems, buds, flowers and immature siliques. {ECO:0000269\|PubMed:11158442, 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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009144258.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009144258.1	0.0	PREDICTED: transcription factor TCP10
Refseq	XP_009144259.1	0.0	PREDICTED: transcription factor TCP10
Swissprot	O82277	1e-148	TCP10_ARATH; Transcription factor TCP10
TrEMBL	M4DP40	0.0	M4DP40_BRARP; Uncharacterized protein
STRING	Bra018280.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14158	19	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G31070.1	1e-128	TCP domain protein 10

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] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375]