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 XP_009111619.1
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 MYB
Protein Properties Length: 248aa    MW: 28583.1 Da    PI: 9.7516
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009111619.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.81.8e-163885148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g WT eEd  l d+v+ +G+g+W++I r+ g++R++k+c++rw +yl
   XP_009111619.1 38 KGLWTVEEDNVLMDYVQTHGKGHWNRIVRKTGLKRCGKSCRLRWINYL 85
                     678*******************************************97 PP
2Myb_DNA-binding62.11.2e-1991136148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g++T++E++l+++++k+lG++ W++Ia++++ gRt++q+k++w+++l
   XP_009111619.1  91 KGNFTEQEEDLIIRLHKLLGNR-WSLIAKRVP-GRTDNQVKNHWNTHL 136
                      79********************.*********.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.1713385IPR017930Myb domain
SuperFamilySSF466893.01E-3136132IPR009057Homeodomain-like
SMARTSM007177.2E-133787IPR001005SANT/Myb domain
PfamPF002494.5E-143885IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.3E-233992IPR009057Homeodomain-like
CDDcd001676.04E-104185No hitNo description
PROSITE profilePS5129427.68686140IPR017930Myb domain
SMARTSM007176.1E-1990138IPR001005SANT/Myb domain
PfamPF002491.6E-1891136IPR001005SANT/Myb domain
CDDcd001677.19E-1493136No hitNo description
Gene3DG3DSA:1.10.10.601.3E-2693139IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 248 aa     Download sequence    Send to blast
MNGILSLYHT NKQNKSENQR IRTRTRSEKG ENHQEYKKGL WTVEEDNVLM DYVQTHGKGH  60
WNRIVRKTGL KRCGKSCRLR WINYLSPSVN KGNFTEQEED LIIRLHKLLG NRWSLIAKRV  120
PGRTDNQVKN HWNTHLSKKF VGDYSSGVKT TGENKASLLL ATASSRQHQQ DKICDKSFDG  180
LVPASYENKP NADLTHRNVV VGNTNDPSLY LKERNIFDSS NAFWFNEDEF ELMSSLAMMD  240
FASGDIGY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C3e-283514024128MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Ubiquitous in young leaves primordia. Becomes more prominent in developing trichome cells but disappears progressively when trichomes begin to initiate branches. {ECO:0000269|PubMed:15728674}.
UniprotTISSUE SPECIFICITY: Expressed in leaves, stems and flowers (PubMed:11437443). Expressed in trichome cells and in leaf primordia (PubMed:9625690). {ECO:0000269|PubMed:11437443, ECO:0000269|PubMed:9625690}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator, when associated with BHLH2/EGL3/MYC146 or BHLH12/MYC1. Involved in epidermal cell fate specification in leaves. Together with TTG1 and GL3, promotes trichome formation and endoreplication. Regulates the production of a signal that induces hair (trichome) precursor cells on leaf primordia to differentiate. Binds to the WER-binding sites (WBS) promoter regions and activates the transcription of target genes (By similarity). {ECO:0000250, ECO:0000269|PubMed:11063707, ECO:0000269|PubMed:12356720, ECO:0000269|PubMed:15361138, ECO:0000269|PubMed:15728674, ECO:0000269|PubMed:9625690}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009111619.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by gibberellins (PubMed:9625690). May be regulated by GEBP and GEBP-like proteins (PubMed:12535344). {ECO:0000269|PubMed:12535344, ECO:0000269|PubMed:9625690}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLC1427120.0LC142712.1 Brassica rapa subsp. nipposinica GL1 mRNA for trichome differentiation protein GL1, complete cds, cultivar: Kyo-mizore.
GenBankLC1427130.0LC142713.1 Brassica rapa subsp. nipposinica GL1 mRNA for trichome differentiation protein GL1, complete cds, cultivar: Kyo-nishiki.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013725063.11e-171trichome differentiation protein GL1-like
SwissprotP279001e-109GL1_ARATH; Trichome differentiation protein GL1
TrEMBLA0A397XQG71e-170A0A397XQG7_BRACM; Uncharacterized protein
STRINGBra039065.1-P1e-148(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G27920.11e-111myb domain protein 0
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. Nayidu NK, et al.
    Comparison of five major trichome regulatory genes in Brassica villosa with orthologues within the Brassicaceae.
    PLoS ONE, 2014. 9(4): p. e95877
    [PMID:24755905]
  3. Sun L, et al.
    GLABROUS INFLORESCENCE STEMS3 (GIS3) regulates trichome initiation and development in Arabidopsis.
    New Phytol., 2015. 206(1): p. 220-30
    [PMID:25640859]
  4. Yu D, et al.
    RPN1a, a subunit of the 26S proteasome, controls trichome development in Arabidopsis.
    Plant Physiol. Biochem., 2015. 88: p. 82-8
    [PMID:25676129]
  5. Huang M,Hu Y,Liu X,Li Y,Hou X
    Arabidopsis LEAFY COTYLEDON1 controls cell fate determination during post-embryonic development.
    Front Plant Sci, 2015. 6: p. 955
    [PMID:26579186]
  6. Dai X, et al.
    A single amino acid substitution in the R3 domain of GLABRA1 leads to inhibition of trichome formation in Arabidopsis without affecting its interaction with GLABRA3.
    Plant Cell Environ., 2016. 39(4): p. 897-907
    [PMID:26667588]
  7. Zheng K, et al.
    Ectopic expression of R3 MYB transcription factor gene OsTCL1 in Arabidopsis, but not rice, affects trichome and root hair formation.
    Sci Rep, 2016. 6: p. 19254
    [PMID:26758286]
  8. Li Y, et al.
    Two IIIf Clade-bHLHs from Freesia hybrida Play Divergent Roles in Flavonoid Biosynthesis and Trichome Formation when Ectopically Expressed in Arabidopsis.
    Sci Rep, 2016. 6: p. 30514
    [PMID:27465838]
  9. Hegebarth D,Buschhaus C,Wu M,Bird D,Jetter R
    The composition of surface wax on trichomes of Arabidopsis thaliana differs from wax on other epidermal cells.
    Plant J., 2016. 88(5): p. 762-774
    [PMID:27496682]
  10. Busta L,Hegebarth D,Kroc E,Jetter R
    Changes in cuticular wax coverage and composition on developing Arabidopsis leaves are influenced by wax biosynthesis gene expression levels and trichome density.
    Planta, 2017. 245(2): p. 297-311
    [PMID:27730411]
  11. Maxwell DJ,Partridge JC,Roberts NW,Boonham N,Foster GD
    The effects of surface structure mutations in Arabidopsis thaliana on the polarization of reflections from virus-infected leaves.
    PLoS ONE, 2017. 12(3): p. e0174014
    [PMID:28346494]
  12. García-Cano E,Hak H,Magori S,Lazarowitz SG,Citovsky V
    The Agrobacterium F-Box Protein Effector VirF Destabilizes the Arabidopsis GLABROUS1 Enhancer/Binding Protein-Like Transcription Factor VFP4, a Transcriptional Activator of Defense Response Genes.
    Mol. Plant Microbe Interact., 2018. 31(5): p. 576-586
    [PMID:29264953]
  13. Kim SY,Hyoung S,So WM,Shin JS
    The novel transcription factor TRP interacts with ZFP5, a trichome initiation-related transcription factor, and negatively regulates trichome initiation through gibberellic acid signaling.
    Plant Mol. Biol., 2018. 96(3): p. 315-326
    [PMID:29335898]