PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT4G18390.1
Common NameF28J12.50, TCP2
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; Arabidopsis
Family TCP
Protein Properties Length: 365aa    MW: 40178.6 Da    PI: 7.9986
Description TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 2
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G18390.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP124.21.4e-38401752136
          TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaaksaa.ksk 98 
                   g+kdrhsk+ T++g+RdRRvRls+++a +f+dLqd+LG+d++sk++eWL+++a+ +i el+++ ++++  +++e++++++ +  ++++ +++a +s+
  AT4G18390.1  40 SGGKDRHSKVLTSKGPRDRRVRLSVSTALQFYDLQDRLGYDQPSKAVEWLIKAAEDSISELPSL-NNTHFPTDDENHQNQTLTTVAANSLSKSAcSSN 136
                  689*************************************************************.444434555555555555555567777776888 PP

          TCP  99 ksqksaasalnlak.esrakarararertrekmriknkl 136
                  +++++++s l+l++ e r kar+rarert+++ + ++++
  AT4G18390.1 137 SDTSKNSSGLSLSRsELRDKARERARERTAKETKERDHN 175
                  888888899****99***************999888665 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036343.9E-3641171IPR005333Transcription factor, TCP
PROSITE profilePS5136931.22142100IPR017887Transcription factor TCP subgroup
PROSITE profilePS5137010.205151172IPR017888CYC/TB1, R domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009637Biological Processresponse to blue light
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:1903508Biological Processpositive regulation of nucleic acid-templated transcription
GO:2000306Biological Processpositive regulation of photomorphogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000056anatomyflower bud
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009001anatomyfruit
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 365 aa     Download sequence    Send to blast
MIGDLMKNNN NGDVVDNEVN NRLSRWHHNS SRIIRVSRAS GGKDRHSKVL TSKGPRDRRV  60
RLSVSTALQF YDLQDRLGYD QPSKAVEWLI KAAEDSISEL PSLNNTHFPT DDENHQNQTL  120
TTVAANSLSK SACSSNSDTS KNSSGLSLSR SELRDKARER ARERTAKETK ERDHNHTSFT  180
DLLNSGSDPV NSNRQWMASA PSSSPMEYFS SGLILGSGQQ THFPISTNSH PFSSISDHHH  240
HHPHHQHQEF SFVPDHLISP AESNGGAFNL DFNMSTPSGA GAAVSAASGG GFSGFNRGTL  300
QSNSTNQHQS FLANLQRFPT SESGGGPQFL FGALPAENHH HNHQFQLYYE NGCRNSSEHK  360
GKGKN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.19340.0floral meristem| flower| vegetative tissue
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO425669270.0
Genevisible254670_at0.0
Expression AtlasAT4G18390-
AtGenExpressAT4G18390-
ATTED-IIAT4G18390-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During flower development, first observed throughout the floral meristem. Later expressed in rapidly growing floral primordia. Detected to a lower extent in vegetative primordia. During flower development, first observed throughout the floral meristem. Expressed during ovule development (PubMed:25378179). {ECO:0000269|PubMed:10363373, ECO:0000269|PubMed:25378179}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {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). Participates in ovule develpment (PubMed:25378179). Participates in ovule develpment (PubMed:25378179). Promotes light-regulated transcription of CHS, CAB, HYH and HY5. Regulates positively photomorphogenesis (e.g. hypocotyl elongation inhibition and cotyledon opening in response to blue light) (PubMed:26596765). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179, ECO:0000269|PubMed:26596765}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00063PBM25215497Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G18390.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW (PubMed:12931144). Induced by blue light. Stabilized by light but labile in darkness due to proteasome-dependent proteolysis (at protein level) (PubMed:26596765). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:26596765}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Interaction ? help Back to Top
Source Intact With
BioGRIDAT4G27330, AT5G08070, AT5G08330, AT5G51910, AT5G60970, AT1G09530, AT1G14920, AT1G01060, AT1G30210, AT1G35560, AT1G53230, AT1G58100, AT1G65620, AT1G69690
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Reduced light-mediated transcription of CHS, CAB, HYH and HY5. Impaired influence of blue light on hypocotyl elongation. {ECO:0000269|PubMed:26596765}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G18390
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankAY1021410.0AY102141.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
GenBankAL1615480.0AL161548.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 48.
GenBankAL0217100.0AL021710.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F28J12 (ESSAII project).
GenBankAF3672920.0AF367292.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
GenBankAF3672700.0AF367270.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001078407.10.0transcription factor TCP2
RefseqNP_567553.10.0transcription factor TCP2
SwissprotQ93V430.0TCP2_ARATH; Transcription factor TCP2
TrEMBLD7MCT10.0D7MCT1_ARALL; Putative uncharacterized protein
STRINGAT4G18390.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP18015163
MalvidsOGEM76152539
Publications ? help Back to Top
  1. Cubas P,Lauter N,Doebley J,Coen E
    The TCP domain: a motif found in proteins regulating plant growth and development.
    Plant J., 1999. 18(2): p. 215-22
    [PMID:10363373]
  2. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  3. Palatnik JF, et al.
    Control of leaf morphogenesis by microRNAs.
    Nature, 2003. 425(6955): p. 257-63
    [PMID:12931144]
  4. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  5. Souret FF,Kastenmayer JP,Green PJ
    AtXRN4 degrades mRNA in Arabidopsis and its substrates include selected miRNA targets.
    Mol. Cell, 2004. 15(2): p. 173-83
    [PMID:15260969]
  6. Damerval C,Le Guilloux M,Jager M,Charon C
    Diversity and evolution of CYCLOIDEA-like TCP genes in relation to flower development in Papaveraceae.
    Plant Physiol., 2007. 143(2): p. 759-72
    [PMID:17189327]
  7. Guti
    Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis.
    Genome Biol., 2007. 8(1): p. R7
    [PMID:17217541]
  8. Aguilar-Martínez JA,Poza-Carrión C,Cubas P
    Arabidopsis BRANCHED1 acts as an integrator of branching signals within axillary buds.
    Plant Cell, 2007. 19(2): p. 458-72
    [PMID:17307924]
  9. Koyama T,Furutani M,Tasaka M,Ohme-Takagi M
    TCP transcription factors control the morphology of shoot lateral organs via negative regulation of the expression of boundary-specific genes in Arabidopsis.
    Plant Cell, 2007. 19(2): p. 473-84
    [PMID:17307931]
  10. Chawade A,Br
    Putative cold acclimation pathways in Arabidopsis thaliana identified by a combined analysis of mRNA co-expression patterns, promoter motifs and transcription factors.
    BMC Genomics, 2007. 8: p. 304
    [PMID:17764576]
  11. Soitamo AJ,Piippo M,Allahverdiyeva Y,Battchikova N,Aro EM
    Light has a specific role in modulating Arabidopsis gene expression at low temperature.
    BMC Plant Biol., 2008. 8: p. 13
    [PMID:18230142]
  12. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  13. Efroni I,Blum E,Goldshmidt A,Eshed Y
    A protracted and dynamic maturation schedule underlies Arabidopsis leaf development.
    Plant Cell, 2008. 20(9): p. 2293-306
    [PMID:18805992]
  14. Nag A,King S,Jack T
    miR319a targeting of TCP4 is critical for petal growth and development in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2009. 106(52): p. 22534-9
    [PMID:20007771]
  15. Koyama T,Mitsuda N,Seki M,Shinozaki K,Ohme-Takagi M
    TCP transcription factors regulate the activities of ASYMMETRIC LEAVES1 and miR164, as well as the auxin response, during differentiation of leaves in Arabidopsis.
    Plant Cell, 2010. 22(11): p. 3574-88
    [PMID:21119060]
  16. Giraud E, et al.
    TCP transcription factors link the regulation of genes encoding mitochondrial proteins with the circadian clock in Arabidopsis thaliana.
    Plant Cell, 2010. 22(12): p. 3921-34
    [PMID:21183706]
  17. Causier B,Ashworth M,Guo W,Davies B
    The TOPLESS interactome: a framework for gene repression in Arabidopsis.
    Plant Physiol., 2012. 158(1): p. 423-38
    [PMID:22065421]
  18. Li Z,Li B,Shen WH,Huang H,Dong A
    TCP transcription factors interact with AS2 in the repression of class-I KNOX genes in Arabidopsis thaliana.
    Plant J., 2012. 71(1): p. 99-107
    [PMID:22380849]
  19. Yang X, et al.
    Evolution of double positive autoregulatory feedback loops in CYCLOIDEA2 clade genes is associated with the origin of floral zygomorphy.
    Plant Cell, 2012. 24(5): p. 1834-47
    [PMID:22649271]
  20. Danisman S, et al.
    Analysis of functional redundancies within the Arabidopsis TCP transcription factor family.
    J. Exp. Bot., 2013. 64(18): p. 5673-85
    [PMID:24129704]
  21. Mar
    Large-scale identification of gibberellin-related transcription factors defines group VII ETHYLENE RESPONSE FACTORS as functional DELLA partners.
    Plant Physiol., 2014. 166(2): p. 1022-32
    [PMID:25118255]
  22. Wei B, et al.
    The molecular mechanism of sporocyteless/nozzle in controlling Arabidopsis ovule development.
    Cell Res., 2015. 25(1): p. 121-34
    [PMID:25378179]
  23. Chen GH,Sun JY,Liu M,Liu J,Yang WC
    SPOROCYTELESS is a novel embryophyte-specific transcription repressor that interacts with TPL and TCP proteins in Arabidopsis.
    J Genet Genomics, 2014. 41(12): p. 617-25
    [PMID:25527103]
  24. He Z,Zhao X,Kong F,Zuo Z,Liu X
    TCP2 positively regulates HY5/HYH and photomorphogenesis in Arabidopsis.
    J. Exp. Bot., 2016. 67(3): p. 775-85
    [PMID:26596765]