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_009127805.1
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 TALE
Protein Properties Length: 327aa    MW: 36964.4 Da    PI: 4.6619
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009127805.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox29.41.4e-092703042155
                     HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
        Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                     k +yp+++++  LA+++gL+++q+ +WF N+R ++
  XP_009127805.1 270 KWPYPTEADKIALAEETGLDQKQINNWFINQRKRH 304
                     569*****************************885 PP
2ELK34.64e-12224245122
             ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                     ELK+qLlrK++++++sLk EFs
  XP_009127805.1 224 ELKDQLLRKFGSHISSLKLEFS 245
                     9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.2E-2081125IPR005540KNOX1
PfamPF037907.5E-2083124IPR005540KNOX1
SMARTSM012563.3E-27132183IPR005541KNOX2
PfamPF037912.5E-25136182IPR005541KNOX2
SMARTSM011881.1E-6224245IPR005539ELK domain
PROSITE profilePS5121310.109224244IPR005539ELK domain
PfamPF037894.0E-9224245IPR005539ELK domain
PROSITE profilePS5007112.876244307IPR001356Homeobox domain
SuperFamilySSF466898.98E-20245317IPR009057Homeodomain-like
SMARTSM003898.1E-14246311IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.6E-28249308IPR009057Homeodomain-like
CDDcd000864.80E-13253308No hitNo description
PfamPF059207.7E-18264303IPR008422Homeobox KN domain
PROSITE patternPS000270282305IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0009736Biological Processcytokinin-activated signaling pathway
GO:0010094Biological Processspecification of carpel identity
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 327 aa     Download sequence    Send to blast
MDRMCGFRSA GDYSEKAELM MSSSESLMSL SDYHNLICSS AGENHVFGSN ELFSAAASAL  60
SSEVSIAPPA RRADQDNPSL GLIKSKIASH PLYPRLLQTY IDCQKVGAPL EIACVLEEIQ  120
RENDVYKRDV APLSCFGADP ELDEFMETYC DILVKYKSDL ARPFDEATTF LNKIETQLQD  180
LCTGPASARG LSVSDDGAVS SDEELRESDD VATQDSQQRS NDRELKDQLL RKFGSHISSL  240
KLEFSKKKKK GKLPREARQA LLDWWNVHYK WPYPTEADKI ALAEETGLDQ KQINNWFINQ  300
RKRHWKPSEN MPFAMMDDSS ETFFTEE
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.106850.0root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed predominantly in shoot apices of seedlings, in the receptacle and developing pistil of flowers and in axillary buds of inflorescence stems.
Functional Description ? help Back to Top
Source Description
UniProtMay play a role in meristem function, and may be involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009127805.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankX813530.0X81353.1 A.thaliana mRNA for ATK1 protein.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009127805.10.0PREDICTED: homeobox protein knotted-1-like 2
RefseqXP_013691260.10.0homeobox protein knotted-1-like 2
SwissprotP466400.0KNAT2_ARATH; Homeobox protein knotted-1-like 2
TrEMBLA0A398AAQ30.0A0A398AAQ3_BRACM; Uncharacterized protein
TrEMBLM4CUM50.0M4CUM5_BRARP; Uncharacterized protein
STRINGBra007920.1-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
AT1G70510.11e-170KNOTTED-like from Arabidopsis thaliana 2
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. Zhang XL,Yang ZP,Zhang J,Zhang LG
    Ectopic expression of BraYAB1-702, a member of YABBY gene family in Chinese cabbage, causes leaf curling, inhibition of development of shoot apical meristem and flowering stage delaying in Arabidopsis thaliana.
    Int J Mol Sci, 2013. 14(7): p. 14872-91
    [PMID:23863694]
  3. Kuijt SJ, et al.
    Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors.
    Plant Physiol., 2014. 164(4): p. 1952-66
    [PMID:24532604]
  4. Scofield S,Dewitte W,Murray JA
    STM sustains stem cell function in the Arabidopsis shoot apical meristem and controls KNOX gene expression independently of the transcriptional repressor AS1.
    Plant Signal Behav, 2018.
    [PMID:24776954]
  5. Lee JE,Lampugnani ER,Bacic A,Golz JF
    SEUSS and SEUSS-LIKE 2 coordinate auxin distribution and KNOXI activity during embryogenesis.
    Plant J., 2014. 80(1): p. 122-35
    [PMID:25060324]
  6. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  7. Li Z, et al.
    Transcription factors AS1 and AS2 interact with LHP1 to repress KNOX genes in Arabidopsis.
    J Integr Plant Biol, 2016. 58(12): p. 959-970
    [PMID:27273574]
  8. Lozano-Sotomayor P, et al.
    Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana.
    Plant J., 2016. 88(3): p. 437-451
    [PMID:27402171]