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 GSBRNA2T00072242001
Common NameGSBRNA2T00072242001
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: 316aa    MW: 35390 Da    PI: 9.9588
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00072242001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.67.2e-1465113155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s++kGV   + +grW A+I++      +kr++lg+f  +eeAa+ ++ a+ +++g
  GSBRNA2T00072242001  65 SKFKGVVPQP-NGRWGAQIYEK-----HKRVWLGTFNEEEEAARVYDVAAHRFRG 113
                          79****9888.8*********3.....5************************998 PP
2B3100.69.1e-32184285196
                          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+
  GSBRNA2T00072242001 184 FEKTVTPSDVGKLNRLVIPKHQAEKHfplpltGDVSVRGTLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISFKR 273
                          99******************************99999****************************************************9 PP

                          -SSSEE..EEEE CS
                   B3  85 dgrsefelvvkv 96 
                          ++ ++++l++++
  GSBRNA2T00072242001 274 SNGQDQQLYIGW 285
                          877888888887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008472.4E-865113IPR001471AP2/ERF domain
SuperFamilySSF541711.77E-1765122IPR016177DNA-binding domain
CDDcd000189.27E-2665123No hitNo description
Gene3DG3DSA:3.30.730.105.8E-2066121IPR001471AP2/ERF domain
PROSITE profilePS5103219.83666121IPR001471AP2/ERF domain
SMARTSM003801.4E-2766127IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.109.4E-39177295IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.22E-30182291IPR015300DNA-binding pseudobarrel domain
CDDcd100172.90E-28183276No hitNo description
SMARTSM010192.4E-24184289IPR003340B3 DNA binding domain
PfamPF023627.6E-28184286IPR003340B3 DNA binding domain
PROSITE profilePS5086313.366184287IPR003340B3 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:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 316 aa     Download sequence    Send to blast
MEAVSSVDES STSTVSIHTS AKIIPPPTTA KLSSPASLYR MGSGSSVVLD SENGVEAESR  60
KLPSSKFKGV VPQPNGRWGA QIYEKHKRVW LGTFNEEEEA ARVYDVAAHR FRGPDAVTNF  120
KPDATFRNGD GEEVEFLNAH SKYEIVDMLR KHTYKEELEQ RKRKQTAFAN VTVATGFKTA  180
ECLFEKTVTP SDVGKLNRLV IPKHQAEKHF PLPLTGDVSV RGTLLNFEDV NGKVWRFRYS  240
YWNSSQSYVL TKGWSRFVKE KRLCAGDLIS FKRSNGQDQQ LYIGWKSGLE QDTGRVVVRL  300
FGVDIASIKS RKTMS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-6318028710116DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1159164QRKRKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.218561e-160flower
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00072242001
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-103AB028607.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K13N2.
GenBankAJ4410731e-103AJ441073.1 Arabidopsis thaliana mRNA for putative auxin response factor 14 (arf14 gene).
GenBankAK2294151e-103AK229415.1 Arabidopsis thaliana mRNA for AP2 domain transcription factor, complete cds, clone: RAFL16-68-B16.
GenBankAY0879511e-103AY087951.1 Arabidopsis thaliana clone 39877 mRNA, complete sequence.
GenBankCP0026861e-103CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
GenBankFJ4414681e-103FJ441468.1 Arabidopsis thaliana clone E At3g25740 gene, partial sequence.
GenBankFJ4414691e-103FJ441469.1 Arabidopsis thaliana clone L At3g25740 gene, partial sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018511847.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor ARF14-like
SwissprotQ9LS061e-168RAVL4_ARATH; AP2/ERF and B3 domain-containing transcription factor ARF14
TrEMBLA0A078HW040.0A0A078HW04_BRANA; BnaA02g27630D protein
STRINGBra026509.1-P0.0(Brassica rapa)
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-164ethylene 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]