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 GSBRNA2T00117913001
Common NameGSBRNA2T00117913001
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: 360aa    MW: 40488.6 Da    PI: 8.3336
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00117913001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94e-062749123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y+C++C++ F r  nL+ H r+H
  GSBRNA2T00117913001 27 YVCEICNQGFQRDQNLQMHRRRH 49
                         9*********************9 PP
2zf-C2H2140.00015106127223
                          EETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                           C+ C+k +  +s++k H++t+
  GSBRNA2T00117913001 106 ICERCSKGYAVQSDYKAHLKTC 127
                          7*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.55E-52450No hitNo description
Gene3DG3DSA:3.30.160.601.4E-52649IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00522749IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.972749IPR007087Zinc finger, C2H2
PROSITE patternPS0002802949IPR007087Zinc finger, C2H2
SMARTSM003551606999IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.1E-496126IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM00355110105132IPR015880Zinc finger, C2H2-like
PfamPF095961.3E-4142177IPR019082Neurogenic 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: 360 aa     Download sequence    Send to blast
MIIFNILYPE AEVVSLSPRT LLESDRYVCE ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET  60
NEEVKKRVYV CPEPTCLHHN PCHALGDLVG IKKHFRRKHS NHKQWICERC SKGYAVQSDY  120
KAHLKTCGTR GHSCDCGRVF SRVESFIEHQ DNCTMRQPQP SSHRLQQQQQ HTANAAQTAS  180
TAENIDLNIG PVLPGHPLLR QSPPSDQQPS DLLYPFVGSS ASTGSGIELQ LLPSRASADG  240
TSLSLSIGMD TTMSSYEKGE TSLLLGEREE AKRQIEIAEL EYAEAKRIRQ HARGELHKAQ  300
LYREEARRRI SATIMQITCH NCKKHFQAPP CTDESTSLAV SYASSATTEG EKASDRASS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-17103153555Zinc finger protein JACKDAW
5b3h_F1e-17103153555Zinc 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
PlantRegMapGSBRNA2T00117913001
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894891e-177AC189489.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB084K02, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009105062.10.0PREDICTED: protein indeterminate-domain 14-like
RefseqXP_022544774.10.0protein indeterminate-domain 14
SwissprotQ9C9X70.0IDD14_ARATH; Protein indeterminate-domain 14
TrEMBLA0A078EZ840.0A0A078EZ84_BRANA; BnaA07g24790D protein
TrEMBLA0A397YPQ50.0A0A397YPQ5_BRACM; Uncharacterized protein
TrEMBLM4CIL60.0M4CIL6_BRARP; Uncharacterized protein
STRINGBra004050.1-P0.0(Brassica rapa)
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]