PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Csa01g017540.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family TCP
Protein Properties Length: 429aa    MW: 46821.4 Da    PI: 7.1874
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa01g017540.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP117.51.7e-3647162284
             TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.........................ssssas 71 
                     +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LGfd++sk+++WL+++ak++i+el+++                         + +s+s
  Csa01g017540.1  47 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGFDRPSKAVDWLIKKAKTSIDELAELppwnpadairlaaanakprrttaktQ-ISPS 140
                     79**************************************************************88887777777777666655444321.1111 PP

             TCP  72 eceaesssssas.........n 84 
                        +++++ + +         +
  Csa01g017540.1 141 PPPQQQQQLQFGvgfdgggteH 162
                     1122222222222333332221 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036343.1E-3247151IPR005333Transcription factor, TCP
PROSITE profilePS5136934.01649107IPR017887Transcription factor TCP subgroup
Sequence ? help Back to Top
Protein Sequence    Length: 429 aa     Download sequence    Send to blast
MSDEFLHPPA PPPRPPSSMR HRTTSDAADG GCGEIVEVQG GHIVRSTGRK DRHSKVCTAK  60
GPRDRRVRLS AHTAIQFYDV QDRLGFDRPS KAVDWLIKKA KTSIDELAEL PPWNPADAIR  120
LAAANAKPRR TTAKTQISPS PPPQQQQQLQ FGVGFDGGGT EHPSNNNNEN EPSFLPPSMD  180
SDSIADTIKS FFPVVGSSTE APPNHHQLMH NYHHHQHPPD LLSRTNSQNQ DLRLSLHSFP  240
DGPPSLLHNH NHHTSASASE PVLFYGQSNP LGFDTSNSVS WEQQSSEFGR IQRLVAWNSG  300
GATDTGNGGG FLFAPPPTPP SSTTSFQPVL GQSQQLHSQR GPLQSSYSPM IRAWFDPHQH  360
HQSISTDDLN HHHHLPPPVH QSAIPGIGFA SGESSSGFRI PARFQGQEEE QHDGLTHKPS  420
SASSISRH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A3e-2054107154Putative transcription factor PCF6
5zkt_B3e-2054107154Putative transcription factor PCF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor playing 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) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:15634699, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:18816164, ECO:0000269|PubMed:25378179}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa01g017540.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:18816164}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3167040.0AK316704.1 Arabidopsis thaliana AT3G15030 mRNA, complete cds, clone: RAFL06-89-F15.
GenBankAP0003700.0AP000370.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K15M2.
GenBankAY0944440.0AY094444.1 Arabidopsis thaliana AT3g15030/K15M2_17 mRNA, complete cds.
GenBankAY1499570.0AY149957.1 Arabidopsis thaliana At3g15030/K15M2_17 mRNA, complete cds.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010502427.10.0PREDICTED: transcription factor TCP4
SwissprotQ8LPR50.0TCP4_ARATH; Transcription factor TCP4
TrEMBLR0HYP10.0R0HYP1_9BRAS; Uncharacterized protein
STRINGXP_010502427.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM24082771
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15030.30.0TCP family protein
Publications ? help Back to Top
  1. Schommer C, et al.
    Control of jasmonate biosynthesis and senescence by miR319 targets.
    PLoS Biol., 2008. 6(9): p. e230
    [PMID:18816164]
  2. Ju Y, et al.
    Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments.
    Plant Cell, 2016. 28(9): p. 2131-2146
    [PMID:27468890]
  3. Challa KR,Aggarwal P,Nath U
    Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis.
    Plant Cell, 2016. 28(9): p. 2117-2130
    [PMID:27597774]
  4. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]
  5. Li J, et al.
    RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis.
    J. Exp. Bot., 2016. 67(22): p. 6473-6480
    [PMID:27838638]
  6. Sun X, et al.
    Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor.
    Plant Biotechnol. J., 2017. 15(10): p. 1284-1294
    [PMID:28233945]
  7. Kubota A, et al.
    TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis.
    PLoS Genet., 2017. 13(6): p. e1006856
    [PMID:28628608]
  8. 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]
  9. 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]
  10. Vadde BVL,Challa KR,Nath U
    The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana.
    Plant J., 2018. 93(2): p. 259-269
    [PMID:29165850]
  11. Challa KR,Rath M,Nath U
    The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways.
    PLoS Genet., 2019. 15(2): p. e1007988
    [PMID:30742619]