PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009114656.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 220aa    MW: 25234.8 Da    PI: 9.8418
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009114656.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.62.1e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien + rqvtfskRrng+lKKA+ELSvLCdaeva++ifs++gklye+ss
  XP_009114656.1  9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRGKLYEFSS 59
                    79***********************************************96 PP
2K-box74.82.3e-2580172799
           K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     +++ e ++++ + e   L ++ie+L+ ++R++lGe+L+  s++eLqqLe+qLe+sl+kiR+kK++ll+e++++l++ke++l  enk+L++k+e
  XP_009114656.1  80 NHKREDNSQQAKGETYGLARKIEQLEISKRKFLGEGLDASSIEELQQLENQLERSLTKIRAKKYQLLREELDKLKEKERNLTAENKMLTEKYE 172
                     4467888999*******************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.9E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.903161IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.23E-32375IPR002100Transcription factor, MADS-box
CDDcd002659.52E-40372No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.6E-31323IPR002100Transcription factor, MADS-box
PfamPF003195.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004046.6E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004046.6E-313859IPR002100Transcription factor, MADS-box
PfamPF014868.6E-2583171IPR002487Transcription factor, K-box
PROSITE profilePS5129714.73287177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010082Biological Processregulation of root meristem growth
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:2000012Biological Processregulation of auxin polar transport
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 220 aa     Download sequence    Send to blast
MVRGKTEMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVALVIFSP RGKLYEFSSS  60
SSITKTVERY QKRVHDLGSN HKREDNSQQA KGETYGLARK IEQLEISKRK FLGEGLDASS  120
IEELQQLENQ LERSLTKIRA KKYQLLREEL DKLKEKERNL TAENKMLTEK YEMGRGGIIP  180
RTSSTTTSED LDTEESEMEV VTDLLIGPPP IRHSKKFPPN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-16160160MEF2C
5f28_B2e-16160160MEF2C
5f28_C2e-16160160MEF2C
5f28_D2e-16160160MEF2C
6byy_A2e-16160160MEF2 CHIMERA
6byy_B2e-16160160MEF2 CHIMERA
6byy_C2e-16160160MEF2 CHIMERA
6byy_D2e-16160160MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During floral transition, expressed very early at the flanks of the inflorescence meristem in the anlagens upon the transition to flowering Subsequently, expression levels increase in the first and second stages of the floral meristem and at stage 3, expression is restricted to the L1 and L2 layers. Later on, expressed in the gynoecium and stamen primordia at stage 6. {ECO:0000269|PubMed:25636918}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). Expressed in lateral root cap, root epidermis, root endodermis, columella of the root meristematic region, the vascular cylinder in differentiated zones of the primary root and in emerged lateral root primordia (PubMed:24121311). Expressed in pollen (PubMed:12949148). {ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:24121311, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that regulates root development by controlling meristem size and patterning of the root apical meristem. Regulates auxin transport and gradients in the root meristematic cells via direct regulation of the auxin efflux carrier PIN1 and PIN4 gene expression. Binds specifically to the CArG-box DNA sequences in the promoter regions of PIN1 and PIN4 genes (PubMed:24121311). Involved in the regulation of shoot apical meristem (SAM) cell identities and transitions. Promotes flowering transition and participates in flower meristem maintenance and determinacy. Positively regulates TFL1 and WUS expression. Binds directly to the TFL1 regulatory sequences (PubMed:25636918). {ECO:0000269|PubMed:24121311}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009114656.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:24121311}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2304640.0AK230464.1 Arabidopsis thaliana mRNA for MADS-box protein AGL14, complete cds, clone: RAFL26-03-G06.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009114655.11e-159PREDICTED: agamous-like MADS-box protein AGL14
RefseqXP_009114656.11e-159PREDICTED: agamous-like MADS-box protein AGL14
SwissprotQ388381e-117AGL14_ARATH; Agamous-like MADS-box protein AGL14
TrEMBLA0A3P5Y0M71e-158A0A3P5Y0M7_BRACM; Uncharacterized protein
STRINGBo9g093920.11e-148(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.11e-101AGAMOUS-like 14
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. 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]
  3. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]