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 Csa11g102240.2
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 MIKC_MADS
Protein Properties Length: 176aa    MW: 20153.2 Da    PI: 8.4512
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa11g102240.2genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF61.97.3e-20956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krie ks rqvtfskRrng++ KA  LS+LC+  +av+++s +gkly 
  Csa11g102240.2  9 KRIEKKSSRQVTFSKRRNGLIEKARQLSILCESSIAVLVVSGSGKLYN 56
                    79********************************************97 PP
2K-box38.26.1e-14991633398
           K-box  33 reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                       qR+l  e +++ s+  L+++e+qLe++l+  R+kK+el+++ ++ lq+ ek l+een+ L +++
  Csa11g102240.2  99 IVQRKLE-EPVDNVSVDSLMSMEEQLETALSVTRAKKTELMMDDLKSLQETEKLLREENQFLASQV 163
                     4455543.88999*************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.109161IPR002100Transcription factor, MADS-box
SMARTSM004324.1E-29160IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.89E-25173IPR002100Transcription factor, MADS-box
CDDcd002655.04E-31271No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-22323IPR002100Transcription factor, MADS-box
PfamPF003192.9E-201055IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-223859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.59570169IPR002487Transcription factor, K-box
PfamPF014861.3E-10102163IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 176 aa     Download sequence    Send to blast
MGRRKVEIKR IEKKSSRQVT FSKRRNGLIE KARQLSILCE SSIAVLVVSG SGKLYNSSSG  60
DNMSKIIDRY EIQHADELKV LDLEEKTRNY LPHKELLDIV QRKLEEPVDN VSVDSLMSME  120
EQLETALSVT RAKKTELMMD DLKSLQETEK LLREENQFLA SQVTKTQTLM LHKTD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A2e-15170169MEF2 CHIMERA
6byy_B2e-15170169MEF2 CHIMERA
6byy_C2e-15170169MEF2 CHIMERA
6byy_D2e-15170169MEF2 CHIMERA
6bz1_A3e-15170169MEF2 CHIMERA
6bz1_B3e-15170169MEF2 CHIMERA
6bz1_C3e-15170169MEF2 CHIMERA
6bz1_D3e-15170169MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv. Landsberg erecta than in cv. Columbia background. Prevents premature flowering (PubMed:12724541, PubMed:25339407). Involved in the modulation of vernalization impact on flowering according to genotype acclimation to altitude (PubMed:25339407). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:25339407}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa11g102240.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed during vernalization (PubMed:12724541). Regulated by HAM1 and HAM2 via epigenetic modification of chromatins at H4K5 acetylation during flowering (PubMed:23273925). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:23273925}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2314451e-166AY231445.1 Arabidopsis thaliana MADS affecting flowering 3 variant I (MAF3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010444476.11e-112PREDICTED: agamous-like MADS-box protein AGL31 isoform X6
SwissprotQ9LSR72e-96AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A178UBA07e-97A0A178UBA0_ARATH; Uncharacterized protein
TrEMBLA0A1P8BBX41e-96A0A1P8BBX4_ARATH; K-box region and MADS-box transcription factor family protein
STRINGXP_010444476.11e-112(Camelina sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65050.27e-90AGAMOUS-like 31
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  2. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]
  3. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]