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_013600742.1
Organism
Brassica oleracea
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: 313aa    MW: 35058.6 Da    PI: 5.0038
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013600742.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox25.91.7e-082693022154
                     HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
        Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                     k +yp++ ++  LA+ +gL+++q+ +WF N+R +
  XP_013600742.1 269 KWPYPTEGDKIALADATGLDQKQINNWFINQRKR 302
                     569*****************************88 PP
2ELK25.33.6e-09223244122
             ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                     +LK++LlrK+++ ++sLk EFs
  XP_013600742.1 223 DLKDRLLRKFGSGISSLKLEFS 244
                     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
PfamPF037892.0E-5223244IPR005539ELK domain
PROSITE profilePS512139.202223243IPR005539ELK domain
SMARTSM011882.5E-4223244IPR005539ELK domain
PROSITE profilePS5007112.276243306IPR001356Homeobox domain
SuperFamilySSF466898.98E-18244308IPR009057Homeodomain-like
SMARTSM003891.9E-11245310IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.9E-26248306IPR009057Homeodomain-like
CDDcd000861.92E-11252307No hitNo description
PfamPF059202.9E-17263302IPR008422Homeobox KN domain
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
Sequence ? help Back to Top
Protein Sequence    Length: 313 aa     Download sequence    Send to blast
MDGMYGFHPT CDYSDKPVMM MSQDNMMFPS DYQTLLCSSA GDNRVSDVFG LNELLSVAAS  60
AMSSEAASMG PEIRTNNGNV SLGVIKAKIA CHPSYPRLLQ AYMDCQKVGA PPDIAYLLEE  120
IQRESHVYKQ GVAPSSSCFG ADPELDEFME TYCEILVKYK SDLARPFDEA TTFLNKIEMQ  180
LRNLCTGVES ARGLSDGAVS SDEELSGGDE ISQDGKQVCE DRDLKDRLLR KFGSGISSLK  240
LEFSKKKKKG KLPREARQAL LEWWSVHYKW PYPTEGDKIA LADATGLDQK QINNWFINQR  300
KRHWNQSENI PFA
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
PlantRegMapXP_013600742.1
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_013600742.10.0PREDICTED: homeobox protein knotted-1-like 6 isoform X2
SwissprotQ84JS60.0KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A397YFC10.0A0A397YFC1_BRACM; Uncharacterized protein
TrEMBLM4DIM10.0M4DIM1_BRARP; Uncharacterized protein
STRINGBra016348.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.11e-175KNOTTED1-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. 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]