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 Csa09g083770.1
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 MIKC_MADS
Protein Properties Length: 197aa    MW: 22153.2 Da    PI: 6.299
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa09g083770.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF67.71.2e-21956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krienks rqvtfskRrng++ KA  LS+LC+  vav+++s +gkly 
  Csa09g083770.1  9 KRIENKSSRQVTFSKRRNGLIDKARQLSILCESSVAVVVVSASGKLYN 56
                    79********************************************97 PP
2K-box34.11.2e-121111644598
           K-box  45 sLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     ++s+  L +Le+qLe++l+  R++K+el++++++ lq+kek l+een+ L +++
  Csa09g083770.1 111 NISVDFLISLEEQLETALSISRARKTELMIASVKSLQEKEKLLREENHVLASQM 164
                     5677889*****************************************999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.006161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-25171IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-32160IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-23323IPR002100Transcription factor, MADS-box
PfamPF003192.1E-211055IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-233859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.07880170IPR002487Transcription factor, K-box
PfamPF014861.1E-9100164IPR002487Transcription 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: 197 aa     Download sequence    Send to blast
MGRRKIEIKR IENKSSRQVT FSKRRNGLID KARQLSILCE SSVAVVVVSA SGKLYNSSSG  60
DDMSKIIERY DIQHADELKA LDLAEKTRNY LPHKELLEIV QSQLEEPNAD NISVDFLISL  120
EEQLETALSI SRARKTELMI ASVKSLQEKE KLLREENHVL ASQMGKNTFM KTDDDPGMSS  180
ENSYGNQTPE TLPLLK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A5e-16170169MEF2 CHIMERA
6byy_B5e-16170169MEF2 CHIMERA
6byy_C5e-16170169MEF2 CHIMERA
6byy_D5e-16170169MEF2 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
PlantRegMapCsa09g083770.1
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
GenBankAF3428080.0AF342808.1 Arabidopsis thaliana MADS affecting flowering 1 (MAF1) mRNA, complete cds.
GenBankAK1175770.0AK117577.1 Arabidopsis thaliana mRNA for (NM_148660) MADS affecting flowering 1(MAF1); protein id: At1g77080.4, supported by cDNA: 92459., supported by cDNA: gi_13649968, supported by cDNA: gi_16580104 [Arabidopsis thaliana] gb|AAK37527.1|AF342808_1 (AF342808) MADS affecting flowering 1 [Arabidopsis thaliana] gb|AAK54440.1| (AY034083) MADS box FLC1-like nuclear protein [Arabidopsis thaliana] gb|AAM67028.1| (AY088709) MADS affecting flowering 1 [Arabidopsis thaliana], complete cds, clone: RAFL17-22-J12.
GenBankAK1752470.0AK175247.1 Arabidopsis thaliana mRNA, complete cds, clone: RAFL21-67-N06.
GenBankAK1762700.0AK176270.1 Arabidopsis thaliana mRNA, complete cds, clone: RAFL23-17-J21.
GenBankAK2279480.0AK227948.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-50-E05.
GenBankAY0340830.0AY034083.1 Arabidopsis thaliana MADS box FLC1-like nuclear protein (FK1) mRNA, complete cds.
GenBankAY0887090.0AY088709.1 Arabidopsis thaliana clone 92459 mRNA, complete sequence.
GenBankBT0045980.0BT004598.1 Arabidopsis thaliana At1g77080 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010428774.11e-141PREDICTED: agamous-like MADS-box protein AGL27
SwissprotQ9LSR71e-108AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLR0GJ271e-107R0GJ27_9BRAS; Uncharacterized protein
STRINGXP_010471873.11e-128(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77080.41e-106MIKC_MADS family protein
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]