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 Csa20g005430.1
Organism
Camelina sativa
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 C2H2
Protein Properties Length: 1353aa    MW: 150864 Da    PI: 7.004
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa20g005430.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.80.0003712441267223
                      EET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                      +C+   Cgk F+ + +L+ H+r+H
  Csa20g005430.1 1244 RCThdGCGKKFRAHKYLVLHQRVH 1267
                      588889****************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.9E-151555IPR003349JmjN domain
PROSITE profilePS5118314.161657IPR003349JmjN domain
PfamPF023757.4E-161750IPR003349JmjN domain
SMARTSM005588.9E-45263429IPR003347JmjC domain
PROSITE profilePS5118434.426263429IPR003347JmjC domain
SuperFamilySSF511974.67E-26274427No hitNo description
PfamPF023731.2E-37293412IPR003347JmjC domain
SMARTSM003556612201242IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.02712431272IPR007087Zinc finger, C2H2
SMARTSM003550.04512431267IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.1E-712441272IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012451267IPR007087Zinc finger, C2H2
SuperFamilySSF576672.33E-1012591300No hitNo description
PROSITE profilePS5015712.69512731302IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.0E-1012731297IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.003512731297IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028012751297IPR007087Zinc finger, C2H2
SuperFamilySSF576679.28E-712911319No hitNo description
Gene3DG3DSA:3.30.160.601.1E-912981318IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1353 aa     Download sequence    Send to blast
MGNVEIPNWL KVLPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FHNLNKSLLK CPELVSDVDV SKVCKEDRAV FTTRQQELGQ TVKKTKGEKS KIVSSQRSGV  120
KQVWQSGGVY TLEQFEAKSK TFYKSQLGTV REVSPVVVEA LFWKAASEKP IYIEYANDVP  180
GSAFGEPEGH YRHFRQRKRR GRGFYQRKTE INDPSGKNSE NSSPEVEKAP LASTSLSSQG  240
SSKQKSMDIL DEMEGTAGWK LSNSSWNLQT IARSPGSVTR FMPDDIPGVT SPMVYIGMLF  300
SWFAWHVEDH ELHSMNYLHT GSPKTWYAVP CDYALEFEEV IRKNSYGRNI DQLAALTQLG  360
EKTTLVSPEM IVASGIPCCR LVQNPGEFVV TFPRSYHVGF SHGFNCGEAA NFGTPQWLNV  420
AKEAAVRRAA MNYLPMLSHQ QLLYLLTIVP RSFLPGGRSS RLRDRQREER EFLVKKAFVE  480
DILNENKNLS ALLREPSSRL VMWDPDLLPR HTALALAAVG GAATSAVSPP AEAKNEPEEV  540
QNKEKTTLLE ELSLFMEKLN DVYYDDDDGL LNDFQVDSGT LPCVACGVLG FPFMSVVQPS  600
EEALKDLSER EGEIDAQEFT TLSSEKSQCE WKTSSRYIRP RIFCLEHTIE LQRLLQSRGG  660
LKFLIICHKD FQKFKAHAAI VAEEVKVPFR YDDVLLESAS QEELSLIDLA IEDEKNYNHA  720
LDWTSELGIN LRYCVKVRKN SPTKKIQHAL SLGGLFSDTS YMLDISTIRW LQRKSRSKAK  780
PSSTSSFTPR EHLEVKVDGK LGESVDSQAG RKEEKIIQYS RKKKSNPKLS SEQGQELAPL  840
AKSKDFDKTC NKNASKSHLD SSIRSELNNA IGDSGRVIGR NEKSFSENPC SSSFTGAHDQ  900
EHPEITIKFG SALDGNVTNR LSMVNGDSAD LSSVSREPRG HSMTSNNNGS NSGCHVVASQ  960
TILVSTGDNH DGPGKLSGDY VCSDVSVGGV QEAVEMSDQE FGEPRSTVTN IEDEQQSQMV  1020
PPTKREAVSG DHAQVERSEA VCTKENLCSD IILHTEHSSA QVGMEIPEIN TASESMVVDR  1080
THGGEPLASS DILSSSNGDQ ASSNGLQVPD DELNMESEVS SSENTEVIKT PNPMGEAKMK  1140
RKLESESEAN DNLESRIGFI RSPCEGLRSR GKRKATCETS FNLTETIDEE KKPIAKRLKK  1200
TRKARSGSRH QEVPTTTHPN RCYLEGCKMT FESKAKLQTH KRNRCTHDGC GKKFRAHKYL  1260
VLHQRVHNDD RPFECSWEGC SMTFKWQWAR TEHLRLHTGE RPYKCKVEGC GLSFSFLSSV  1320
LDRCYGSLFV DGDLSPCLKR PHTLLISLLL NS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A3e-5594438346Transcription factor jumonji (Jmj) family protein
6ip4_A3e-5594438346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
111901202KKPIAKRLKKTRK
Functional Description ? help Back to Top
Source Description
UniProtActs probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa20g005430.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6645000.0AY664500.1 Arabidopsis thaliana early flowering 6 (ELF6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010490928.10.0PREDICTED: probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A178UAR70.0A0A178UAR7_ARATH; ELF6
STRINGXP_010490928.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM115202731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.10.0C2H2 family protein
Publications ? help Back to Top
  1. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Crevillén P, et al.
    Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.
    Nature, 2014. 515(7528): p. 587-90
    [PMID:25219852]
  4. Yang H,Howard M,Dean C
    Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74
    [PMID:27482092]