PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009147377.1
Organism
Brassica rapa
Taxonomic ID
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: 321aa    MW: 35797.8 Da    PI: 7.4173
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009147377.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP106.34.7e-3386202289
             TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg...... 88 
                      g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl++ak +i+el+ ++ s+++++  ++++   + s++  +      
  XP_009147377.1  86 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGLDQPSKAVDWLLNAAKDEIDELPPLPVSPETFSlfNHHQAFLNLSQPPGQdptqlg 180
                     689*************************************************************7777766656555555555544333455555 PP

             TCP  89 .....................k 89 
                                          +
  XP_009147377.1 181 fkingcveesntttsreetnnN 202
                     5554443322221111111220 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5136931.68688146IPR017887Transcription factor TCP subgroup
PfamPF036343.7E-2988194IPR005333Transcription factor, TCP
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MTVQTQELNT SIMNTGPWRD ANDDVSGGTR TRRNGEVEED SEEAVVVAVA TSGKPVIKKP  60
PTSISSSSSS WMKSKDRRIV RVSRAFGGKD RHSKVCTLRG LRDRRVRLSV PTAIQLYDLQ  120
ERLGLDQPSK AVDWLLNAAK DEIDELPPLP VSPETFSLFN HHQAFLNLSQ PPGQDPTQLG  180
FKINGCVEES NTTTSREETN NNHIGSYGTY QYMEQHQQQH TRFQADYPHH QHQLHSLVPI  240
QSQFLVCPVT TSSTTTTIQS LFPSSTSAGS RTMETTDPRQ MVSHFQMPLM GSSSSSQNIS  300
TLYSLLHGNS NPMPSVQFDR K
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A1e-1893147155Putative transcription factor PCF6
5zkt_B1e-1893147155Putative transcription factor PCF6
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269|PubMed:25378179}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, buds, flowers and immature siliques, and, to a lower extent, in roots. {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931}.
Functional Description ? help Back to Top
Source Description
UniProtPlays 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). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009147377.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324590.0AC232459.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB020F06, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009147377.10.0PREDICTED: transcription factor TCP13 isoform X1
SwissprotQ9S7W51e-152TCP13_ARATH; Transcription factor TCP13
TrEMBLA0A397ZGA70.0A0A397ZGA7_BRACM; Uncharacterized protein
STRINGBra039158.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM91342637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02150.21e-125plastid transcription factor 1
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Yamburenko MV,Zubo YO,Börner T
    Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5.
    Plant J., 2015. 82(6): p. 1030-41
    [PMID:25976841]
  3. 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]