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 Araha.30828s0011.1.p
Organism
Arabidopsis halleri
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 MIKC_MADS
Protein Properties Length: 197aa    MW: 22072.3 Da    PI: 5.4844
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.30828s0011.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF689e-22956148
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                          krienks rqvtfskRrng++ KA  LS+LC+  vav+++s +gkly+
  Araha.30828s0011.1.p  9 KRIENKSSRQVTFSKRRNGLIDKARQLSILCESSVAVVVVSASGKLYD 56
                          79********************************************97 PP
2K-box35.44.4e-13951642998
                 K-box  29 enLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                           e L++ q +l   ++++ s+  L +Le+qLe++l+  R++K el++e ++ l++ke  l+een+ L +++
  Araha.30828s0011.1.p  95 ELLETVQSKLEEPSVDNVSVDSLISLEEQLETALSVSRARKAELMMEYVKSLKEKEMLLREENQVLASQM 164
                           66777777788889999************************************************99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF554551.44E-25173IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.202161IPR002100Transcription factor, MADS-box
SMARTSM004324.7E-33160IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-23323IPR002100Transcription factor, MADS-box
PfamPF003192.1E-211055IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-233859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.33380170IPR002487Transcription factor, K-box
PfamPF014861.5E-1095164IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009910Biological Processnegative regulation of flower development
GO:0048573Biological Processphotoperiodism, flowering
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 SGKLYDSSSG  60
DDISKIIDRY EIQHADELKA LDLAEKIQNY LPHKELLETV QSKLEEPSVD NVSVDSLISL  120
EEQLETALSV SRARKAELMM EYVKSLKEKE MLLREENQVL ASQMGKNTLL AIEDERGMLP  180
ESSSGNKIPE TLPLLK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
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 in both long and short days, probably through the photoperiodic and vernalization pathways. Prevents premature flowering. {ECO:0000269|PubMed:11351076, ECO:0000269|PubMed:14558654, ECO:0000269|PubMed:15695584, ECO:0000269|PubMed:18799658}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00105ChIP-seqTransfer from AT1G77080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.30828s0011.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly repressed by vernalization. Negatively regulated at the chromatin level by VIL1 through the photoperiod and vernalization pathways. Requires EARLY FLOWERING 7 (ELF7) and ELF8 to be expressed. Up-regulated by HUA2. {ECO:0000269|PubMed:11351076, ECO:0000269|PubMed:15520273, ECO:0000269|PubMed:15659097, ECO:0000269|PubMed:17114575}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
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_020890340.11e-125agamous-like MADS-box protein AGL27 isoform X1
SwissprotQ9AT761e-122AGL27_ARATH; Agamous-like MADS-box protein AGL27
TrEMBLA0A1P8ARA31e-113A0A1P8ARA3_ARATH; K-box region and MADS-box transcription factor family protein
STRINGAT1G77080.41e-120(Arabidopsis thaliana)
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-111MIKC_MADS family protein
Publications ? help Back to Top
  1. Hwan Lee J,Sook Chung K,Kim SK,Ahn JH
    Post-translational regulation of SHORT VEGETATIVE PHASE as a major mechanism for thermoregulation of flowering.
    Plant Signal Behav, 2014. 9(4): p. e28193
    [PMID:25764420]
  2. Luo M, et al.
    Regulation of flowering time by the histone deacetylase HDA5 in Arabidopsis.
    Plant J., 2015. 82(6): p. 925-36
    [PMID:25922987]
  3. Sureshkumar S,Dent C,Seleznev A,Tasset C,Balasubramanian S
    Nonsense-mediated mRNA decay modulates FLM-dependent thermosensory flowering response in Arabidopsis.
    Nat Plants, 2016. 2(5): p. 16055
    [PMID:27243649]
  4. Lutz U, et al.
    Natural haplotypes of FLM non-coding sequences fine-tune flowering time in ambient spring temperatures in Arabidopsis.
    Elife, 2018.
    [PMID:28294941]
  5. Capovilla G,Symeonidi E,Wu R,Schmid M
    Contribution of major FLM isoforms to temperature-dependent flowering in Arabidopsis thaliana.
    J. Exp. Bot., 2017. 68(18): p. 5117-5127
    [PMID:29036339]
  6. Ahn CS,Lee DH,Pai HS
    Characterization of Maf1 in Arabidopsis: function under stress conditions and regulation by the TOR signaling pathway.
    Planta, 2019. 249(2): p. 527-542
    [PMID:30293201]