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 GSBRNA2T00153204001
Common NameGSBRNA2T00153204001, LOC106414253
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 TALE
Protein Properties Length: 315aa    MW: 35232.8 Da    PI: 5.0118
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00153204001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox25.81.9e-082703032154
                          HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
             Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                          k +yp++ ++  LA+ +gL+++q+ +WF N+R +
  GSBRNA2T00153204001 270 KWPYPTEGDKIALADATGLDQKQINNWFINQRKR 303
                          569*****************************88 PP
2ELK25.33.6e-09224245122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          +LK++LlrK+++ ++sLk EFs
  GSBRNA2T00153204001 224 DLKDRLLRKFGSGISSLKLEFS 245
                          69*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012559.6E-2283127IPR005540KNOX1
PfamPF037901.1E-2185126IPR005540KNOX1
SMARTSM012561.9E-26135186IPR005541KNOX2
PfamPF037911.7E-24139185IPR005541KNOX2
PROSITE profilePS512139.202224244IPR005539ELK domain
SMARTSM011882.5E-4224245IPR005539ELK domain
PfamPF037892.0E-5224245IPR005539ELK domain
PROSITE profilePS5007112.179244307IPR001356Homeobox domain
SuperFamilySSF466894.71E-18245311IPR009057Homeodomain-like
SMARTSM003894.0E-12246311IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.4E-26249308IPR009057Homeodomain-like
CDDcd000863.61E-11253308No hitNo description
PfamPF059202.9E-17264303IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010073Biological Processmeristem maintenance
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 315 aa     Download sequence    Send to blast
MDGMYGFHPT CDYSDKPVMM MSQDNMMFPS DYQTLLCSSA GDNRVSDVFG SNELLSVAAS  60
AMSSEAASMG PEIRTNNGNV SLGVIKAKIA CHPSYPRLLQ AYMDCQKVGA PPDIAYLLEE  120
IQRESHVYKQ GVAPSSSCFG ADPELDEFME TYCEILVKYK SDLARPFDEA TTFLNKIEMQ  180
LRNLCTGVES ARGLSEDGAV SSDEELSGGD EISQDGKQIR EDRDLKDRLL RKFGSGISSL  240
KLEFSKKKKK GKLPREARQA LLDWWSVHYK WPYPTEGDKI ALADATGLDQ KQINNWFINQ  300
RKRHWNQSEN MPFA*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First detected in torpedo stage embryos at the boundaries between the presumptive SAM and the cotyledons. Later expressed between the cotyledons and the meristem, and between the cotyledons. In seedlings, localised in stipules and at the boundaries between the SAM and the emerging primordia. Expressed at the site of lateral roots. {ECO:0000269|PubMed:16798887}.
UniprotTISSUE SPECIFICITY: Expressed predominantly in shoot apices of seedlings, and, to a lower extent, in rosette leaves. {ECO:0000269|PubMed:11311158}.
Functional Description ? help Back to Top
Source Description
UniProtPlays a role in meristem function. Contributes to the shoot apical meristem (SAM) maintenance and organ separation by controlling boundary establishment in embryo in a CUC1, CUC2 and STM-dependent manner. Involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269|PubMed:16798887}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00153204001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Seems to be repressed by AS2 and AS1 but induced by STM, CUC1 and CUC2. {ECO:0000269|PubMed:11311158, ECO:0000269|PubMed:16798887}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013710390.10.0homeobox protein knotted-1-like 6
RefseqXP_022546003.10.0homeobox protein knotted-1-like 6
SwissprotQ84JS60.0KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A3P6FUC60.0A0A3P6FUC6_BRAOL; Uncharacterized protein
STRINGBra016348.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8352785
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.11e-168KNOTTED1-like homeobox gene 6
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. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]