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 GSBRNA2T00117912001
Common NameGSBRNA2T00117912001
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 C2H2
Protein Properties Length: 386aa    MW: 43391.1 Da    PI: 9.4228
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00117912001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.84.4e-066991123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y+C++C++ F r  nL+ H r+H
  GSBRNA2T00117912001 69 YVCEICNQGFQRDQNLQMHRRRH 91
                         9*********************9 PP
2zf-C2H213.90.00016148169223
                          EETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                           C+ C+k +  +s++k H++t+
  GSBRNA2T00117912001 148 ICERCSKGYAVQSDYKAHLKTC 169
                          7*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.11E-56692No hitNo description
Gene3DG3DSA:3.30.160.601.5E-56891IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF128740.0186987No hitNo description
SMARTSM003550.00526991IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.976991IPR007087Zinc finger, C2H2
PROSITE patternPS0002807191IPR007087Zinc finger, C2H2
SMARTSM00355160111141IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.600.001138168IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM00355110147174IPR015880Zinc finger, C2H2-like
PfamPF095961.3E-4184219IPR019082Neurogenic mastermind-like, N-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007219Biological ProcessNotch signaling pathway
GO:0045944Biological Processpositive regulation of transcription from RNA polymerase II promoter
GO:0016607Cellular Componentnuclear speck
GO:0003676Molecular Functionnucleic acid binding
GO:0003713Molecular Functiontranscription coactivator activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 386 aa     Download sequence    Send to blast
MIYYERSNNT KNVNHHRNPP PSSSSSDLLP DGNGAAVTQK RKRRPAGTPD PEAEVVSLSP  60
RTLLESDRYV CEICNQGFQR DQNLQMHRRR HKVPWKLLKR ETNEEVKKRV YVCPEPTCLH  120
HNPCHALGDL VGIKKHFRRK HSNHKQWICE RCSKGYAVQS DYKAHLKTCG TRGHSCDCGR  180
VFSRVESFIE HQDNCTMRQS QPSSHRVQQQ QQHTANAAQT ASTAENIDLS IGPVLPGHPL  240
LRKSPPSDQQ PSDFFILSLA QPLVVALSFS YFHLGLVLMI PTLVSKRQIE IAELEYAEAK  300
RIRQHARGEL HKAQLYREEA SRRISATIMQ ITCHNCKKHF QAVAASSPSP RLPQPPCTDE  360
STSLAVSYAS SATTEGEKAS DRASS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-17145195555Zinc finger protein JACKDAW
5b3h_F5e-17145195555Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cotyledons and the vasculature of reosette leaves. Weak expression in hypocotyls and floral organs, but not detected in roots and inflorescence stems. {ECO:0000269|PubMed:24039602}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor regulating starch metabolism by binding directly to the promoter of QQS (PubMed:21556057). The IDD14beta isoform attenuates the transcription factor activity by competitively forming heterodimers with reduced DNA-binding capacity(PubMed:21556057). Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD16 in directing leaf and floral organ morphogenesis (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:21556057, ECO:0000269|PubMed:24039602}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00117912001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
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_013733476.10.0protein indeterminate-domain 14-like
SwissprotQ9C9X70.0IDD14_ARATH; Protein indeterminate-domain 14
TrEMBLA0A3P6GBL40.0A0A3P6GBL4_BRAOL; Uncharacterized protein
STRINGBo6g097320.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69328131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.10.0indeterminate(ID)-domain 14
Publications ? help Back to Top
  1. 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]
  2. Arendsee ZW,Li L,Wurtele ES
    Coming of age: orphan genes in plants.
    Trends Plant Sci., 2014. 19(11): p. 698-708
    [PMID:25151064]
  3. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]