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 GSBRNA2T00131190001
Common NameGSBRNA2T00131190001
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: 228aa    MW: 26304.9 Da    PI: 9.5867
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00131190001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.99.7e-271059251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         ri++++ rqvtfskRr+g++KKA+EL +LCdaev +iifsstgkly++ss
  GSBRNA2T00131190001 10 RIDDSTSRQVTFSKRRKGLIKKAKELAILCDAEVGLIIFSSTGKLYDFSS 59
                         8***********************************************96 PP
2K-box72.89.9e-2581172999
                K-box   9 leeakaeslqqelakLkkeienLqreq.RhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                          + +++ + +q+e+a L++e++ Lq+++ R+++Ge+L+ Ls++eL++Le+qLe sl+ +R kK+++l+ +i+el +k + ++ en +L++k
  GSBRNA2T00131190001  81 NPASEVKFWQREAAVLRQELHALQETHrRQIMGEQLNGLSVNELNNLENQLEISLRGVRMKKEQMLTHEIQELSQKRNLIHLENVELSRK 170
                          567889******************665279************************************************************ PP

                K-box  98 le 99 
                          ++
  GSBRNA2T00131190001 171 VQ 172
                          97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.9E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.978161IPR002100Transcription factor, MADS-box
CDDcd002651.36E-42278No hitNo description
SuperFamilySSF554557.06E-32289IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-27323IPR002100Transcription factor, MADS-box
PfamPF003198.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-273859IPR002100Transcription factor, MADS-box
PfamPF014864.5E-2284171IPR002487Transcription factor, K-box
PROSITE profilePS5129714.18986177IPR002487Transcription 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: 228 aa     Download sequence    Send to blast
MGRGKIVIQR IDDSTSRQVT FSKRRKGLIK KAKELAILCD AEVGLIIFSS TGKLYDFSSS  60
SMKSVIDRYN KSKIEQQQLL NPASEVKFWQ REAAVLRQEL HALQETHRRQ IMGEQLNGLS  120
VNELNNLENQ LEISLRGVRM KKEQMLTHEI QELSQKRNLI HLENVELSRK VQRIHQENVE  180
LYKKAYTTNG FAHRELVVAD DESHTQIRLQ LSQPDHSDYE TPPRGSE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-20169169MEF2C
5f28_B1e-20169169MEF2C
5f28_C1e-20169169MEF2C
5f28_D1e-20169169MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Primarily expressed during lateral root formation and embryogenesis. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Specifically expressed in root. {ECO:0000269|PubMed:11855641}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00131190001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3369790.0AF336979.1 Arabidopsis thaliana MADS-box protein AGL21 mRNA, complete cds.
GenBankBT0248460.0BT024846.1 Arabidopsis thaliana At4g37940 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013589012.11e-164PREDICTED: agamous-like MADS-box protein AGL21
RefseqXP_013723013.11e-164agamous-like MADS-box protein AGL21
RefseqXP_013723015.11e-164agamous-like MADS-box protein AGL21
SwissprotQ9SZJ61e-151AGL21_ARATH; Agamous-like MADS-box protein AGL21
TrEMBLA0A3P6ERT11e-166A0A3P6ERT1_BRAOL; Uncharacterized protein
STRINGBra011797.1-P1e-157(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37940.11e-139AGAMOUS-like 21
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]
  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. Yu LH, et al.
    Arabidopsis MADS-Box Transcription Factor AGL21 Acts as Environmental Surveillance of Seed Germination by Regulating ABI5 Expression.
    Mol Plant, 2017. 10(6): p. 834-845
    [PMID:28438576]
  4. 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]
  5. Sun CH, et al.
    Chrysanthemum MADS-box transcription factor CmANR1 modulates lateral root development via homo-/heterodimerization to influence auxin accumulation in Arabidopsis.
    Plant Sci., 2018. 266: p. 27-36
    [PMID:29241564]