PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G60970.1
Common NameMSL3.11, TCP5
Organism
Arabidopsis thaliana
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: 360aa    MW: 40162.8 Da    PI: 6.8341
Description TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 5
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G60970.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP967.2e-3062172366
          TCP   3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt................................... 65 
                  g+kdrhsk++T +g+RdRR+Rls+++a++++dLqd+LG+ ++sk i+WLl++ak  +++l+ +                                   
  AT5G60970.1  62 GGKDRHSKVCTVRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVIDWLLEAAKDDVDKLPPLqfphgfnqmypnlifgnsgfgespssttsttfpgt 159
                  78*************************************************************55555554444444444444333333222222222 PP

          TCP  66 ............s 66 
                              s
  AT5G60970.1 160 nlgflenwdlggS 172
                  2222222222220 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036347.5E-2863188IPR005333Transcription factor, TCP
PROSITE profilePS5136929.78963121IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA 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:0009006anatomyshoot system
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0025022anatomycollective leaf structure
PO:0001054developmental stagevascular leaf senescent 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
Sequence ? help Back to Top
Protein Sequence    Length: 360 aa     Download sequence    Send to blast
MRSGECDEEE IQAKQERDQN QNHQVNLNHM LQQQQPSSVS SSRQWTSAFR NPRIVRVSRT  60
FGGKDRHSKV CTVRGLRDRR IRLSVPTAIQ LYDLQDRLGL SQPSKVIDWL LEAAKDDVDK  120
LPPLQFPHGF NQMYPNLIFG NSGFGESPSS TTSTTFPGTN LGFLENWDLG GSSRTRARLT  180
DTTTTQRESF DLDKGKWIKN DENSNQDHQG FNTNHQQQFP LTNPYNNTSA YYNLGHLQQS  240
LDQSGNNVTV AISNVAANNN NNLNLHPPSS SAGDGSQLFF GPTPPAMSSL FPTYPSFLGA  300
SHHHHVVDGA GHLQLFSSNS NTASQQHMMP GNTSLIRPFH HLMSSNHDTD HHSSDNESDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A3e-1968122155Putative transcription factor PCF6
5zkt_B3e-1968122155Putative transcription factor PCF6
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453595080.0
Genevisible247605_at0.0
Expression AtlasAT5G60970-
AtGenExpressAT5G60970-
ATTED-IIAT5G60970-
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. {ECO:0000269|PubMed:17307931}.
Functional Description ? help Back to Top
Source Description
TAIRTCP gene involved in heterochronic control of leaf differentiation.
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). {ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00065PBM25215497Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G60970.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Interaction ? help Back to Top
Source Intact With
BioGRIDAT1G14920, AT1G30210, AT1G35560, AT1G53230, AT1G58100, AT1G69690
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G60970
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0082690.0AB008269.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MSL3.
GenBankBT0294890.0BT029489.1 Arabidopsis thaliana At5g60970 mRNA, complete cds.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_200905.10.0TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 5
SwissprotQ9FME30.0TCP5_ARATH; Transcription factor TCP5
TrEMBLA0A178USK00.0A0A178USK0_ARATH; TCP5
STRINGAT5G60970.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM35762763
Representative plantOGRP18015163
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Arciga-Reyes L,Wootton L,Kieffer M,Davies B
    UPF1 is required for nonsense-mediated mRNA decay (NMD) and RNAi in Arabidopsis.
    Plant J., 2006. 47(3): p. 480-9
    [PMID:16813578]
  3. Marsch-Martinez N, et al.
    BOLITA, an Arabidopsis AP2/ERF-like transcription factor that affects cell expansion and proliferation/differentiation pathways.
    Plant Mol. Biol., 2006. 62(6): p. 825-43
    [PMID:17096212]
  4. 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]
  5. 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]
  6. 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]
  7. L
    Distinct light-initiated gene expression and cell cycle programs in the shoot apex and cotyledons of Arabidopsis.
    Plant Cell, 2008. 20(4): p. 947-68
    [PMID:18424613]
  8. 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]
  9. 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]
  10. Efroni I, et al.
    Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses.
    Dev. Cell, 2013. 24(4): p. 438-45
    [PMID:23449474]
  11. 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]
  12. 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]
  13. 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]
  14. 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]
  15. Wang X, et al.
    TCP transcription factors are critical for the coordinated regulation of isochorismate synthase 1 expression in Arabidopsis thaliana.
    Plant J., 2015. 82(1): p. 151-62
    [PMID:25702611]
  16. 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]