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.3868s0001.1.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: 245aa    MW: 27801.3 Da    PI: 7.4998
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.3868s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.35.7e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+ rqvtfskR+ g+lKKA+ELSvLCdaev++iifs+ gklye+s+
  Araha.3868s0001.1.p  9 KRIENKTTRQVTFSKRKSGLLKKAYELSVLCDAEVSLIIFSNGGKLYEFSN 59
                         79***********************************************95 PP
2K-box85.89e-29821681197
                K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                           ++++ l+qel+kLk+++e+L r++R+l+GedLe +s+keLq Le+qLe +l+  R++K+++ +eq+eel++ke+el ++n++L+ +
  Araha.3868s0001.1.p  82 LEDTQGLRQELTKLKSKYESLVRTHRNLVGEDLEGMSVKELQTLERQLEGALSATRKHKTQVAMEQMEELRRKERELGDINNKLKLE 168
                          567899******************************************************************************866 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.6E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.59161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.31E-31284IPR002100Transcription factor, MADS-box
CDDcd002651.66E-39275No hitNo description
PRINTSPR004046.9E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003199.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.9E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004046.9E-313859IPR002100Transcription factor, MADS-box
PfamPF014865.0E-2584168IPR002487Transcription factor, K-box
PROSITE profilePS5129714.16785175IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009555Biological Processpollen development
GO:0048481Biological Processplant ovule development
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: 245 aa     Download sequence    Send to blast
MGRGKVEVKR IENKTTRQVT FSKRKSGLLK KAYELSVLCD AEVSLIIFSN GGKLYEFSNV  60
GIGRTIERYY RCKNNFLDND TLEDTQGLRQ ELTKLKSKYE SLVRTHRNLV GEDLEGMSVK  120
ELQTLERQLE GALSATRKHK TQVAMEQMEE LRRKERELGD INNKLKLETE GHDFKGFQDL  180
LLNPVLTAGC STDFSLQSSH QNYISDCDVG YLLQIGFQQH YEQGEGSSVS KSNARSDAET  240
NFVQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-20169169Myocyte-specific enhancer factor 2B
1tqe_Q4e-20169169Myocyte-specific enhancer factor 2B
1tqe_R4e-20169169Myocyte-specific enhancer factor 2B
1tqe_S4e-20169169Myocyte-specific enhancer factor 2B
6c9l_A4e-20169169Myocyte-specific enhancer factor 2B
6c9l_B4e-20169169Myocyte-specific enhancer factor 2B
6c9l_C4e-20169169Myocyte-specific enhancer factor 2B
6c9l_D4e-20169169Myocyte-specific enhancer factor 2B
6c9l_E4e-20169169Myocyte-specific enhancer factor 2B
6c9l_F4e-20169169Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00417DAPTransfer from AT3G61120Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.3868s0001.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankATU201830.0U20183.1 Arabidopsis thaliana MADS-box protein AGL13 (AGL13) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020882426.11e-168agamous-like MADS-box protein AGL13
SwissprotQ388371e-168AGL13_ARATH; Agamous-like MADS-box protein AGL13
TrEMBLD7LS601e-166D7LS60_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.5__2575__AT3G61120.11e-167(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43022654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61120.11e-171AGAMOUS-like 13
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]