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 GSBRNA2T00102484001
Common NameGSBRNA2T00102484001, LOC106354157
Organism
Brassica napus
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: 214aa    MW: 24236.2 Da    PI: 8.4447
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00102484001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF82.13.5e-26957149
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                         krien   rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs++gkl+e 
  GSBRNA2T00102484001  9 KRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEIGVVIFSPQGKLFEL 57
                         79********************************************996 PP
2K-box60.85.6e-2110218220100
                K-box  20 elakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                          e++ Lkke+e+Lq+ +R + G + + ++l+eL  Le++Le  +++iRs K+e++l++i+ l++ke  l+++nk+L  k+ee
  GSBRNA2T00102484001 102 EVNVLKKEVEMLQKGIRYMFGGGDGAMNLEELLLLEKHLEYWISQIRSAKMEIMLQEIQSLRNKEGVLKNANKYLLDKIEE 182
                          8999**************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-36160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-28177IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.506161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002653.62E-40378No hitNo description
PRINTSPR004041.7E-27323IPR002100Transcription factor, MADS-box
PfamPF003194.7E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.26996186IPR002487Transcription factor, K-box
PfamPF014866.2E-20102180IPR002487Transcription 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: 214 aa     Download sequence    Send to blast
MVRGKIQLKR IENPVHRQVT FCKRRTGLLK KAKELSVLCD AEIGVVIFSP QGKLFELATK  60
GTMEGVIDKY MKCTGGHRGS SSATFTSQEQ FQPPNLDPKD IEVNVLKKEV EMLQKGIRYM  120
FGGGDGAMNL EELLLLEKHL EYWISQIRSA KMEIMLQEIQ SLRNKEGVLK NANKYLLDKI  180
EENNNSILDA NFATVETNYS YIPLAMPSEI FQF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A9e-17383281Myocyte-specific enhancer factor 2A
3kov_B9e-17383281Myocyte-specific enhancer factor 2A
3kov_I9e-17383281Myocyte-specific enhancer factor 2A
3kov_J9e-17383281Myocyte-specific enhancer factor 2A
3p57_A9e-17383281Myocyte-specific enhancer factor 2A
3p57_B9e-17383281Myocyte-specific enhancer factor 2A
3p57_C9e-17383281Myocyte-specific enhancer factor 2A
3p57_D9e-17383281Myocyte-specific enhancer factor 2A
3p57_I9e-17383281Myocyte-specific enhancer factor 2A
3p57_J9e-17383281Myocyte-specific enhancer factor 2A
5f28_A7e-17183182MEF2C
5f28_B7e-17183182MEF2C
5f28_C7e-17183182MEF2C
5f28_D7e-17183182MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.268491e-119root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269|PubMed:11855641, ECO:0000269|PubMed:18203871, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00102484001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2281900.0AK228190.1 Arabidopsis thaliana mRNA for MADS-box protein AGL12, complete cds, clone: RAFL14-63-K22.
GenBankATU201930.0U20193.1 Arabidopsis thaliana MADS-box protein AGL12 (AGL12) mRNA, complete cds.
GenBankBT0061570.0BT006157.1 Arabidopsis thaliana clone RAFL17-04-C08 (R50439) putative MADS-box protein (At1g71692) mRNA, complete cds.
GenBankBT0083320.0BT008332.1 Arabidopsis thaliana At1g71692 gene, complete cds.
GenBankBT0085240.0BT008524.1 Arabidopsis thaliana clone U50439 putative MADS-box protein (At1g71692) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009105825.11e-158PREDICTED: agamous-like MADS-box protein AGL12
RefseqXP_013649490.11e-158agamous-like MADS-box protein AGL12
SwissprotQ388411e-133AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A3P6C1V81e-141A0A3P6C1V8_BRACM; Uncharacterized protein
STRINGBo6g113110.11e-142(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70522641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.11e-135AGAMOUS-like 12
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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  4. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]