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 493022
Common NameARALYDRAFT_493022
Organism
Arabidopsis lyrata
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: 369aa    MW: 40304.7 Da    PI: 9.0886
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
493022genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP123.52.3e-38391762136
     TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg..kaaksaa.kskk 99 
              g+kdrhsk+ T++g+RdRRvRls+++a +f+dLqd+LG+d++sk++eWL+++a+ +i el+++ ++++  +  e+++++  a +   +  ++ +++a +s++
  493022  39 SGGKDRHSKVLTSKGPRDRRVRLSVSTALQFYDLQDRLGYDQPSKAVEWLIKAAEDSISELPSL-NNTNFPTddENHQNQTLARTV--AaaNSLSKSAcSSNS 138
             689*************************************************************.333333322222333333333..245666666667888 PP

     TCP 100 sqksaasalnlak.esrakarararertrekmriknkl 136
             ++++++s l+l++ e r kar+rarert+++ + ++++
  493022 139 DTSKNSSGLSLSRsELRDKARERARERTAKETKERDHN 176
             8888888999*999***************999888665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036348.1E-3740172IPR005333Transcription factor, TCP
PROSITE profilePS5136931.2214199IPR017887Transcription factor TCP subgroup
PROSITE profilePS5137010.205152173IPR017888CYC/TB1, R domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MIGDLMKNNN GDVVDSGNNN RLSRWHHNSS RIIRVSRASG GKDRHSKVLT SKGPRDRRVR  60
LSVSTALQFY DLQDRLGYDQ PSKAVEWLIK AAEDSISELP SLNNTNFPTD DENHQNQTLA  120
RTVAAANSLS KSACSSNSDT SKNSSGLSLS RSELRDKARE RARERTAKET KERDHNHTSS  180
FTDLLNSGSD PVNSNRQWMA SAPSSSPMEY FSSGLILGSG QQTHFPISTN SHPFSSISDH  240
HHHHHHPHQE FSFVPDHLIS PAGSNGGAFN LDFNMSTPSG AGAAVSAASG GGFSGFNRGT  300
LQSNSTNHHQ HQSFLANLQR FSSSENGGGP QFLFGALPAE NHHHNHQFQL YYENGCRNSS  360
DHKGKGKN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-2346100155Putative transcription factor PCF6
5zkt_B2e-2346100155Putative transcription factor PCF6
Search in ModeBase
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
MP00006PBM25215497Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap493022
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
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3672700.0AF367270.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
GenBankAF3672920.0AF367292.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
GenBankAL0217100.0AL021710.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F28J12 (ESSAII project).
GenBankAL1615480.0AL161548.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 48.
GenBankAY1021410.0AY102141.1 Arabidopsis thaliana AT4g18390/F28J12_50 mRNA, complete cds.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020873920.10.0transcription factor TCP2
SwissprotQ93V430.0TCP2_ARATH; Transcription factor TCP2
TrEMBLD7MCT10.0D7MCT1_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.7__2455__AT4G18390.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM76152539
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18390.21e-171TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 2
Publications ? help Back to Top
  1. 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]
  2. 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]