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 Peaxi162Scf00000g00252.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Petunioideae; Petunia
Family TCP
Protein Properties Length: 416aa    MW: 45483.2 Da    PI: 6.5949
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Peaxi162Scf00000g00252.1genomeSGNView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP109.64.5e-3423146389
                       TCP   3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt..................ssss 69 
                               g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak+ai+el ++                  +   
  Peaxi162Scf00000g00252.1  23 GRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKAAIDELEELppwkptigpientnfdqeK--- 104
                               89*************************************************************9888877655443222220... PP

                       TCP  70 aseceaesssssasnsssg..........................k 89 
                                   ++++++ s++++  +                          +
  Peaxi162Scf00000g00252.1 105 ----KQQEENFSTQQNDVNvslvdsiagpsskremimlgnesahsS 146
                               ....222222333323233455555555433333333322222220 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036342.2E-3023181IPR005333Transcription factor, TCP
PROSITE profilePS5136934.2952482IPR017887Transcription factor TCP subgroup
Sequence ? help Back to Top
Protein Sequence    Length: 416 aa     Download sequence    Send to blast
MGLKNSGGEI VEVQGGHIVR SIGRKDRHSK VCTAKGPRDR RVRLSAHTAI QFYDVQDRLG  60
YDRPSKAVDW LIKKAKAAID ELEELPPWKP TIGPIENTNF DQEKKQQEEN FSTQQNDVNV  120
SLVDSIAGPS SKREMIMLGN ESAHSSGNNA NARFMPQSLD SDTIADTIKS FFPMGGSSEG  180
SSSAAMQFHN FQESNLLSRS NSQSQDLRLS LQSLQDPILL HHQNQQAQHH NHSADHTEEQ  240
VQTHFQASNF FHGTPLGFDA SGWSEHQQQP VELGRMQRLA ATRAGGDTGI ALGGGAVTGG  300
GGYLFNSQPA PPLIQQFFTQ NQFFSQRGPL QSSYSPSIRA WIDPSAIAIA TADPIYHHQH  360
HQAVLPMYSA SIPGIGFASE LGGFSGFRIP ARIQGDIEEH DGISDKPSSA SSDSRH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-202982154Putative transcription factor PCF6
5zkt_B2e-202982154Putative 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}.
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
GenBankAC2095841e-107AC209584.1 Solanum lycopersicum DNA sequence from clone LE_HBa-21L2 on chromosome 12, complete sequence.
GenBankEF0915741e-107EF091574.1 Solanum lycopersicum SlTCP3 mRNA, complete cds.
GenBankGQ4963211e-107GQ496321.1 Solanum lycopersicum TCP transcription factor 3 (TCP3) mRNA, complete cds.
GenBankHG9754511e-107HG975451.1 Solanum pennellii chromosome ch12, complete genome.
GenBankHG9755241e-107HG975524.1 Solanum lycopersicum chromosome ch12, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009630327.10.0PREDICTED: transcription factor TCP4-like
RefseqXP_009785152.10.0PREDICTED: transcription factor TCP4
RefseqXP_016463776.10.0PREDICTED: transcription factor TCP4-like
RefseqXP_016463777.10.0PREDICTED: transcription factor TCP4-like
RefseqXP_016472433.10.0PREDICTED: transcription factor TCP4-like
SwissprotQ8LPR51e-102TCP4_ARATH; Transcription factor TCP4
TrEMBLA0A4D6FBE80.0A0A4D6FBE8_PETHY; TCP10
STRINGXP_009785152.10.0(Nicotiana sylvestris)
STRINGXP_009630327.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA32072349
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15030.39e-76TCP 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]