PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00058888001
Common NameGSBRNA2T00058888001
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 AP2
Protein Properties Length: 564aa    MW: 61855.7 Da    PI: 6.4743
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00058888001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP236.51.2e-11189245155
                  AP2   1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s y+GV++++++gr++A+++d  +     ++ k  + g ++ +e+Aa+a++ a++k++g
  GSBRNA2T00058888001 189 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEEKAARAYDLAALKYWG 245
                          57*******************5444.2455536655.779999**************98 PP
2AP247.44.7e-15291340355
                  AP2   3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          y+GV+++++ grW A+I  +     +k  +lg+f t+eeAa+a++ a+ k++g
  GSBRNA2T00058888001 291 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFTTEEEAAEAYDIAAIKFRG 340
                          9***************988532...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008474.2E-9189245IPR001471AP2/ERF domain
SuperFamilySSF541711.5E-13189254IPR016177DNA-binding domain
CDDcd000188.55E-18189255No hitNo description
Gene3DG3DSA:3.30.730.108.0E-11190253IPR001471AP2/ERF domain
SMARTSM003802.8E-21190259IPR001471AP2/ERF domain
PROSITE profilePS5103216.884190253IPR001471AP2/ERF domain
PRINTSPR003675.0E-6191202IPR001471AP2/ERF domain
SuperFamilySSF541711.05E-17289349IPR016177DNA-binding domain
CDDcd000187.49E-24289350No hitNo description
PROSITE profilePS5103219.427290348IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.0E-18290348IPR001471AP2/ERF domain
SMARTSM003801.1E-31290354IPR001471AP2/ERF domain
PfamPF008472.8E-9291340IPR001471AP2/ERF domain
PRINTSPR003675.0E-6330350IPR001471AP2/ERF 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
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 564 aa     Download sequence    Send to blast
MNSNNWLAFP LSPTHSSLPP HIHSSQTSQF NLGLVNDNMD NSFQNQEWNM INPHGGGGEG  60
GEIPKVADFL GVSKSDNHQA DHNLVPYNDI HQTNDSDYYF QTNSLLPTVV TCASNTPNNY  120
ELQESAHNLQ SLTLSMGSAG GAAAAAAAVK ASPAETSADN SSSTTNISGG TIVEAAPRRT  180
VETFGQRTSI YRGVTRHRWT GRYEAHLWDN SCRREGQSRK GRQGGYDKEE KAARAYDLAA  240
LKYWGPSTTT NVPITNYEKE VEEMKNMTRQ EFVAAIRRLK SSGFSRGASM YRGVTRHHQH  300
GRWQARIGRV AGNKDLYLGT FTTEEEAAEA YDIAAIKFRG LNAVTNFEIN RYDVKAILES  360
NTLPIGGGAF KRLKEAQALE SSRKREEMIA LSSNFHQYGA ASGSSSGLQL QPYPLSIQQP  420
FEHLHHQPLL TLQNNDVSQY NTNVHDSYSY IQTQLHLHQQ QTNNCLQSSS HSSQLYNAYL  480
QSNPGLLHGF VSDNNNASAV YGNNGIGIGS TSTVGTSAEE EFPTVKVDYD MPPSGEATGY  540
EGWTNAEHGQ GSNPGGVFTM WNE*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.2370.0seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates in the basal embryo region that gives rise to hypocotyl, root, and root stem cells. Expressed in the root meristem throughout embryo development. {ECO:0000269|PubMed:15454085, ECO:0000269|PubMed:20190735}.
UniprotTISSUE SPECIFICITY: Expressed in roots, seedlings, flowers, and siliques. Also detected at low levels in leaves. In roots, specifically detected in the distal root meristem, including the QC. This tissue specificity is regulated by auxin gradient and depends on PIN proteins. {ECO:0000269|PubMed:15454085, ECO:0000269|PubMed:15635403, ECO:0000269|PubMed:15988559, ECO:0000269|PubMed:16424342, ECO:0000269|PubMed:20190735}.
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Master regulator of basal/root fate. Essential for root quiescent center (QC) and columella specification, stem cell activity, as well as for establishment of the stem cell niche during embryogenesis. Modulates the root polar auxin transport by regulating the distribution of PIN genes. Essential role in respecifying pattern and polarity in damaged roots. Direct target of the transcriptional corepressor TPL. Expression levels and patterns regulated post-transcriptionally by root meristem growth factors (RGFs). {ECO:0000250, ECO:0000269|PubMed:15454085, ECO:0000269|PubMed:15635403, ECO:0000269|PubMed:16424342, ECO:0000269|PubMed:20190735}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00058888001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin accumulation. {ECO:0000269|PubMed:15454085}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5065500.0AY506550.1 Arabidopsis thaliana PLETHORA2 (PLT2) mRNA, complete cds.
GenBankAY5856810.0AY585681.1 Arabidopsis thaliana clone at1g51190 AP2/EREBP transcription factor mRNA, complete cds.
GenBankBT0202770.0BT020277.1 Arabidopsis thaliana At1g51190 mRNA, complete cds.
GenBankBT0204600.0BT020460.1 Arabidopsis thaliana At1g51190 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022558376.10.0AP2-like ethylene-responsive transcription factor PLT2
SwissprotQ5YGP70.0PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBLA0A078HCY50.0A0A078HCY5_BRANA; BnaC05g27100D protein
STRINGBo5g081310.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30152767
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G51190.10.0AP2 family protein
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. Lee DK,Sieburth LE
    The bps signal: embryonic arrest from an auxin-independent mechanism in bypass triple mutants.
    Plant Signal Behav, 2012. 7(6): p. 698-700
    [PMID:22580686]
  3. Hong LW,Yan DW,Liu WC,Chen HG,Lu YT
    TIME FOR COFFEE controls root meristem size by changes in auxin accumulation in Arabidopsis.
    J. Exp. Bot., 2014. 65(1): p. 275-86
    [PMID:24277277]
  4. Tian H,Jia Y,Niu T,Yu Q,Ding Z
    The key players of the primary root growth and development also function in lateral roots in Arabidopsis.
    Plant Cell Rep., 2014. 33(5): p. 745-53
    [PMID:24504658]
  5. Zhao Q, et al.
    Sulfur nutrient availability regulates root elongation by affecting root indole-3-acetic acid levels and the stem cell niche.
    J Integr Plant Biol, 2014. 56(12): p. 1151-63
    [PMID:24831283]
  6. 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]
  7. Huang JB, et al.
    ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis.
    Plant Cell, 2014. 26(9): p. 3501-18
    [PMID:25217509]
  8. Yang S, et al.
    The Arabidopsis SWI2/SNF2 Chromatin Remodeling ATPase BRAHMA Targets Directly to PINs and Is Required for Root Stem Cell Niche Maintenance.
    Plant Cell, 2015. 27(6): p. 1670-80
    [PMID:25991732]
  9. Jia Y, et al.
    The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development.
    J. Exp. Bot., 2015. 66(15): p. 4631-42
    [PMID:25998905]
  10. Zhang M, et al.
    A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis.
    Plant J., 2015. 83(4): p. 582-99
    [PMID:26072661]
  11. Shinohara H,Mori A,Yasue N,Sumida K,Matsubayashi Y
    Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(14): p. 3897-902
    [PMID:27001831]
  12. Ou Y, et al.
    RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.
    Cell Res., 2016. 26(6): p. 686-98
    [PMID:27229312]
  13. Santuari L, et al.
    The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
    Plant Cell, 2016. 28(12): p. 2937-2951
    [PMID:27920338]
  14. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  15. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]
  16. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]