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 RrC4188_p3
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB
Protein Properties Length: 171aa    MW: 19504.3 Da    PI: 10.4358
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4188_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding32.71.8e-101453148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg W++eEd++l++ +  +G g+W++        R++k+c++rw +yl
       RrC4188_p3 14 RGLWSPEEDKKLINFISTYGHGCWSS--------RCGKSCRLRWINYL 53
                     788**********************9........899*********97 PP
2Myb_DNA-binding48.71.8e-1559101145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      rg+++ +E  l+++++ +lG++ W+ Ia++++ gRt++++k++w+
       RrC4188_p3  59 RGSFSSQESALIIELHSLLGNR-WAQIAKHLP-GRTDNEVKNFWN 101
                      899*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.6E-18656IPR009057Homeodomain-like
PROSITE profilePS5129411.635953IPR017930Myb domain
SuperFamilySSF466898.24E-2611100IPR009057Homeodomain-like
SMARTSM007175.6E-81355IPR001005SANT/Myb domain
PfamPF002491.0E-101453IPR001005SANT/Myb domain
CDDcd001673.01E-101753No hitNo description
PROSITE profilePS5129424.80454108IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.8E-2557108IPR009057Homeodomain-like
SMARTSM007171.0E-1458106IPR001005SANT/Myb domain
PfamPF002492.5E-1459102IPR001005SANT/Myb domain
CDDcd001672.16E-1061101No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009739Biological Processresponse to gibberellin
GO:0009834Biological Processplant-type secondary cell wall biogenesis
GO:0009901Biological Processanther dehiscence
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 171 aa     Download sequence    Send to blast
MGHHSCCNKQ KVKRGLWSPE EDKKLINFIS TYGHGCWSSR CGKSCRLRWI NYLRPDLKRG  60
SFSSQESALI IELHSLLGNR WAQIAKHLPG RTDNEVKNFW NSSIKKKLMS RHHLNHHISS  120
MASLRTNLPC HNGFNATNGE DEGSRFMSNI IITNTNPNFI TPSHLSLPSP L
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A4e-31141087108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that regulates lignified secondary cell wall thickening of the anther endocethium, which is necessary for anther dehiscence (PubMed:12753590, PubMed:17147638, PubMed:17329564). May play a role in specifying early endothecial cell development by regulating a number of genes linked to secondary thickening such as NST1 and NST2. Acts upstream of the lignin biosynthesis pathway (PubMed:17329564). {ECO:0000269|PubMed:12753590, ECO:0000269|PubMed:17147638, ECO:0000269|PubMed:17329564}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin. {ECO:0000269|PubMed:23410518}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1759971e-124AF175997.1 Arabidopsis thaliana putative transcription factor (MYB26) mRNA, complete cds.
GenBankAY5195881e-124AY519588.1 Arabidopsis thaliana MYB transcription factor (At3g13890) mRNA, complete cds.
GenBankDQ4466611e-124DQ446661.1 Arabidopsis thaliana clone pENTR221-At3g13890 myb family transcription factor (At3g13890) mRNA, complete cds.
GenBankDQ6530831e-124DQ653083.1 Arabidopsis thaliana clone 0000019124_0000013170 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018490192.11e-118PREDICTED: transcription factor MYB26-like
SwissprotQ9SPG31e-96MYB26_ARATH; Transcription factor MYB26
TrEMBLA0A397ZDN31e-103A0A397ZDN3_BRACM; Uncharacterized protein
STRINGBra027389.1-P1e-103(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM128031930
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13890.26e-89myb domain protein 26
Publications ? help Back to Top
  1. Coego A, et al.
    The TRANSPLANTA collection of Arabidopsis lines: a resource for functional analysis of transcription factors based on their conditional overexpression.
    Plant J., 2014. 77(6): p. 944-53
    [PMID:24456507]
  2. Yang C, et al.
    Transcription Factor MYB26 Is Key to Spatial Specificity in Anther Secondary Thickening Formation.
    Plant Physiol., 2017. 175(1): p. 333-350
    [PMID:28724622]
  3. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]