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 GSBRNA2T00024780001
Common NameGSBRNA2T00024780001
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 ARF
Protein Properties Length: 564aa    MW: 64147 Da    PI: 6.9511
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00024780001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.93.9e-23114214198
                          EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                          f kvl+ sd++k+g +vl k++a e+      +  ++s+++  +d +g +W++k+  +++++r+++t+GW+eF+ka++L +gD++vF   
  GSBRNA2T00024780001 114 FTKVLSASDTSKKGGFVLNKRHAIEClppldTSHLTQSQEINATDIHGHEWKFKHALKGTPQRHLFTSGWNEFAKAKKLVVGDSFVFF-- 201
                          89**************************99844445899*************************************************.. PP

                          SSSEE..EEEEE- CS
                   B3  86 grsefelvvkvfr 98 
                          +++++e +v++++
  GSBRNA2T00024780001 202 REENGESRVGIRK 214
                          4577888999987 PP
2Auxin_resp71.91.9e-24241320183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a +a++ k++F v+Y+   ++s+Fvv+++k+ + +++k+ +G+Rf m+fe++d++e+r++G +  v+d+++ +W++S+Wr+L+
  GSBRNA2T00024780001 241 ALNAIKRKCMFVVFYK--LGSSQFVVNIDKFIDGVNKKFGIGSRFLMKFEGKDFNEIRYYGSILKVRDFST-NWKDSEWRCLE 320
                          6799***********7..789***********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.3E-34108228IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-27110215IPR015300DNA-binding pseudobarrel domain
CDDcd100176.67E-20112214No hitNo description
PfamPF023622.5E-20114215IPR003340B3 DNA binding domain
PROSITE profilePS5086312.802114216IPR003340B3 DNA binding domain
SMARTSM010191.2E-22114216IPR003340B3 DNA binding domain
PfamPF065072.0E-21241319IPR010525Auxin response factor
PfamPF023091.4E-6428535IPR033389AUX/IAA domain
PROSITE profilePS5174519.553452532IPR000270PB1 domain
SuperFamilySSF542771.9E-7456527No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 564 aa     Download sequence    Send to blast
MASDQIMHAQ PEFLATDETN NYMYDQLWKL CAGHLFDLPK IGEELVTYIN DELCQLKPVF  60
NIPSKIRCNV FSIKLKAETT TDEIYAEISL LPDTSEVEIP IPKCENHIQN IKCFTKVLSA  120
SDTSKKGGFV LNKRHAIECL PPLDTSHLTQ SQEINATDIH GHEWKFKHAL KGTPQRHLFT  180
SGWNEFAKAK KLVVGDSFVF FREENGESRV GIRKAAHHQQ ENIPSSVIST ESMHHGVVAT  240
ALNAIKRKCM FVVFYKLGSS QFVVNIDKFI DGVNKKFGIG SRFLMKFEGK DFNEIRYYGS  300
ILKVRDFSTN WKDSEWRCLE VQWDEAATIP RPDKVSPWEI EPLTHSSDIL KSGSNMWVPT  360
LTQGQEVGHS SIQSSMSYSF PTTMSKPNYN EQMVQVMKET STTTATTSYR LFGVDLKIPA  420
VTKDSIEPIN SYKKSKISKF FDEEKVDHNQ TRSHTKVRME GSVERTVDLS VFDGYNQLTD  480
ELERLFDIKG KLHMHNQWKI VFINADGDMM LLGDDPWLKF CNTAKEIFIC SKNDAKIGDA  540
DNKFSKGHPT LRTTILPPDV NNN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1022034316355Auxin response factor 1
4ldw_A1e-1022034316355Auxin response factor 1
4ldw_B1e-1022034316355Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00024780001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794870.0JN979487.1 Brassica rapa subsp. pekinensis auxin response factor 26 (ARF26) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013651392.10.0auxin response factor 22-like
SwissprotQ9C8N90.0ARFU_ARATH; Putative auxin response factor 21
TrEMBLA0A078GHR20.0A0A078GHR2_BRANA; Auxin response factor
STRINGBra018124.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7653631
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34410.10.0auxin response factor 21
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]