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 XP_009137407.1
Organism
Brassica rapa
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: 629aa    MW: 70914 Da    PI: 6.6594
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009137407.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.76.2e-25115216199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvlt sd++++g +++ +k+a+e+       +  ++ +++l+ ed +g +W++k+i+r++++r++lt+GW+ Fv a++L +gD++vF   + +
  XP_009137407.1 115 FSKVLTASDTSTHGGFSVLRKHATEClppldmtQ--QTPTQELVAEDVHGYQWKFKHIFRGQPRRHLLTTGWSTFVTAKRLVAGDTFVFL--RGE 205
                     88****************************9643..445569************************************************..449 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++el+v+v+r+
  XP_009137407.1 206 NGELRVGVRRA 216
                     999******97 PP
2Auxin_resp101.51.1e-33241320183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a ha++t+s+F+v+Y+Pr+  s+F+++++k+++a+++k+svG Rfkm+fe+eds+errlsGtv g +d+++ +W++S+Wr+L+
  XP_009137407.1 241 ACHATQTRSMFTVYYKPRT--SQFIISLNKYLEAMSNKFSVGIRFKMRFEGEDSPERRLSGTVGGGKDCST-HWKDSNWRCLE 320
                     6899**************6..9**********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.7E-43106230IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.24E-38108244IPR015300DNA-binding pseudobarrel domain
CDDcd100171.53E-21113215No hitNo description
PfamPF023621.2E-22115216IPR003340B3 DNA binding domain
PROSITE profilePS5086312.788115217IPR003340B3 DNA binding domain
SMARTSM010191.3E-24115217IPR003340B3 DNA binding domain
PfamPF065074.3E-30241319IPR010525Auxin response factor
PfamPF023099.5E-8492549IPR033389AUX/IAA domain
SuperFamilySSF542771.18E-12508589No hitNo description
PROSITE profilePS5174525.719513605IPR000270PB1 domain
PfamPF023091.8E-6556601IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 629 aa     Download sequence    Send to blast
MTTGEHMYGE LWKLCAGPVV DVPQAAERVF YFPQGHMEQL EASTQQDLNA VKPTKPLFDL  60
PPKILCRVMD VRLQAEKDTD EVYAQIMLMP EGTVDEPMSP DPSPPESQRP KVHSFSKVLT  120
ASDTSTHGGF SVLRKHATEC LPPLDMTQQT PTQELVAEDV HGYQWKFKHI FRGQPRRHLL  180
TTGWSTFVTA KRLVAGDTFV FLRGENGELR VGVRRANRQQ TNMPSSVISS HSMHLGVLAT  240
ACHATQTRSM FTVYYKPRTS QFIISLNKYL EAMSNKFSVG IRFKMRFEGE DSPERRLSGT  300
VGGGKDCSTH WKDSNWRCLE VHWDEPASIS RPDKVSPWEI EPFVTSENVP HSVMPKNKRP  360
RHYSEVSALG KTASNLWSSA LTQSHEFAQS CITSQRNSPQ QCYRDATEDA KNSDWSASPY  420
SATLNNQMVF PVEQKKPETT ASYRLFGIDL LSSSIPATEE KTAPTLPINI TKPTPDSNSD  480
PKSEVSKLSE EKKQEPAQAS SKEVQSKEIS STRSRTKVQM QGVPVGRAVD LTVLNGYSEL  540
IDDLEKLFDI EGELKSRNQW EIVFTDDEGD MMLVGDDPWP EFCNMVKRIF IWSKEEVKKM  600
TPGNQLRKLL TEVDTTLTTT ISKTENHSN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1601034322355Auxin response factor 1
4ldw_A1e-1601034322355Auxin response factor 1
4ldw_B1e-1601034322355Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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
PlantRegMapXP_009137407.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794740.0JN979474.1 Brassica rapa subsp. pekinensis auxin response factor 9 (ARF9-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009137407.10.0PREDICTED: auxin response factor 9
SwissprotQ9XED80.0ARFI_ARATH; Auxin response factor 9
TrEMBLH9B4D50.0H9B4D5_BRARP; Auxin response factor
STRINGBra019255.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM27642762
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.20.0auxin response factor 9