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 GSBRNA2T00108406001
Common NameGSBRNA2T00108406001
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 RAV
Protein Properties Length: 341aa    MW: 38250.3 Da    PI: 10.1216
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00108406001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2431.2e-1365113155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s++kGV   + +grW A+I++      +kr++lg+f  +eeAa+ ++ a+ +++g
  GSBRNA2T00108406001  65 SKFKGVVPQP-NGRWGAQIYEK-----HKRVWLGTFNEEEEAARVYDVAAHRFRG 113
                          79****9888.8*********3.....5************************998 PP
2B399.81.7e-31186287196
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+ tpsdv+k++rlv+pk+ ae+h      g ++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD + Fk+
  GSBRNA2T00108406001 186 FEKTVTPSDVGKLNRLVIPKHQAEKHfplpltGDVSVRGTLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISFKR 275
                          99******************************99999****************************************************8 PP

                          -SSSEE..EEEE CS
                   B3  85 dgrsefelvvkv 96 
                          ++ ++++l++ +
  GSBRNA2T00108406001 276 SNGQDQQLYIVW 287
                          876777777766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008473.2E-865113IPR001471AP2/ERF domain
SuperFamilySSF541712.81E-1765122IPR016177DNA-binding domain
CDDcd000182.63E-2665123No hitNo description
SMARTSM003805.8E-2866127IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.108.1E-2066121IPR001471AP2/ERF domain
PROSITE profilePS5103219.7766121IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.0E-38179290IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-30184291IPR015300DNA-binding pseudobarrel domain
CDDcd100176.43E-28185278No hitNo description
SMARTSM010192.6E-25186291IPR003340B3 DNA binding domain
PfamPF023621.1E-27186289IPR003340B3 DNA binding domain
PROSITE profilePS5086313.874186290IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 341 aa     Download sequence    Send to blast
MEAVSSVDES STSTVSIHTP AKITPPPKTA KSSSPASLYR MGSGSSVVLD SQNGVEAESR  60
KLPSSKFKGV VPQPNGRWGA QIYEKHKRVW LGTFNEEEEA ARVYDVAAHR FRGSDAVTNF  120
KPDTTFRNGE GDGDEVKFLN AHSKYEIVDM LRKHTYKEEL EQRKRKQTAF ANVTVVTGFK  180
TAECLFEKTV TPSDVGKLNR LVIPKHQAEK HFPLPLTGDV SVRGTLLNFE DVNGKVWRFR  240
YSYWNSSQSY VLTKGWSRFV KEKRLCAGDL ISFKRSNGQD QQLYIVWKSK AGLEQDTGRV  300
VVRLFGVDIA SVKSRNDVVM KEETEMSLSS NKKQRLVTTI *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-6418229710124DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1161166QRKRKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.218560.0flower
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). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00031PBMTransfer from AT3G25730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00108406001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0286071e-104AB028607.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K13N2.
GenBankAJ4410731e-104AJ441073.1 Arabidopsis thaliana mRNA for putative auxin response factor 14 (arf14 gene).
GenBankAK2294151e-104AK229415.1 Arabidopsis thaliana mRNA for AP2 domain transcription factor, complete cds, clone: RAFL16-68-B16.
GenBankAY0879511e-104AY087951.1 Arabidopsis thaliana clone 39877 mRNA, complete sequence.
GenBankCP0026861e-104CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
GenBankFJ4414681e-104FJ441468.1 Arabidopsis thaliana clone E At3g25740 gene, partial sequence.
GenBankFJ4414691e-104FJ441469.1 Arabidopsis thaliana clone L At3g25740 gene, partial sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013619184.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor ARF14-like
RefseqXP_013675138.10.0AP2/ERF and B3 domain-containing transcription factor ARF14-like
SwissprotQ9LS061e-171RAVL4_ARATH; AP2/ERF and B3 domain-containing transcription factor ARF14
TrEMBLA0A0D3AVW70.0A0A0D3AVW7_BRAOL; Uncharacterized protein
TrEMBLA0A3P6DQU20.0A0A3P6DQU2_BRAOL; Uncharacterized protein
STRINGBo2g138650.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G25730.11e-163ethylene response DNA binding factor 3
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]