PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00087815001
Common NameGSBRNA2T00087815001
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: 605aa    MW: 68577.8 Da    PI: 6.4611
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00087815001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.2e-24106207199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f kvlt sd++++g +++ +k+a+e+       +  ++ +++l+ ed +g +W++k+i+r++++r++lt+GW+ Fv +++L +gD++vF 
  GSBRNA2T00087815001 106 FTKVLTASDTSTHGGFSVLRKHATEClppldmtQ--QTPTQELVAEDVHGYKWKFKHIFRGQPRRHLLTTGWSTFVTSKKLVAGDTFVFL 193
                          89****************************9643..445569************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + +++el+v+v+r+
  GSBRNA2T00087815001 194 --RGENGELRVGVRRA 207
                          ..449999******97 PP
2Auxin_resp112.93e-37232310182
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                          a ha++t+s+F+v+Y+Pr+  s+F+++++k+++a+++k+svGmRfkm+fe++ds+err+sGtvvgv+d++p +W++SkWrsL
  GSBRNA2T00087815001 232 ACHATQTRSMFTVYYKPRT--SQFIISLNKYLEAMNNKFSVGMRFKMRFEGDDSPERRFSGTVVGVQDCSP-HWKDSKWRSL 310
                          6899**************6..9*************************************************.********99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.98E-3997235IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-4299221IPR015300DNA-binding pseudobarrel domain
CDDcd100176.97E-21104206No hitNo description
PROSITE profilePS5086312.816106208IPR003340B3 DNA binding domain
PfamPF023621.3E-22106207IPR003340B3 DNA binding domain
SMARTSM010191.2E-24106208IPR003340B3 DNA binding domain
PfamPF065072.3E-33232310IPR010525Auxin response factor
PfamPF023093.1E-7472528IPR033389AUX/IAA domain
SuperFamilySSF542775.79E-12488568No hitNo description
PROSITE profilePS5174525.019492592IPR000270PB1 domain
PfamPF023091.7E-6535580IPR033389AUX/IAA domain
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: 605 aa     Download sequence    Send to blast
MYEELWKLSA GPLVDVPQAE ERVYYFPQGH MEQLEASTQQ DLNTMKPLFD LPPKILCRVM  60
NVRLQAEKDT DEVYAQIMLM PEVTVDEPMS PDPSPPEPQR PKFHSFTKVL TASDTSTHGG  120
FSVLRKHATE CLPPLDMTQQ TPTQELVAED VHGYKWKFKH IFRGQPRRHL LTTGWSTFVT  180
SKKLVAGDTF VFLRGENGEL RVGVRRANRQ QSSMPSSVIS SHSMHLGVLA TACHATQTRS  240
MFTVYYKPRT SQFIISLNKY LEAMNNKFSV GMRFKMRFEG DDSPERRFSG TVVGVQDCSP  300
HWKDSKWRSL VVNWDEPASF TRPDKVSPWE MEPFAASENV PQSVNKRPRH VNEVSALDVG  360
VPSSNFWSSA LTQSHEFAQS CITSQRNPPQ NSDWPVSPYS TLNGQMVFPV EQKKPETTTA  420
SCRLFGIDLM SSSLPAPEEK TAPMRPINIT KPTLDSNTDP KSEISKLSEE KKQEPAQASP  480
KEVQSKQINS SRSRTKVQMQ GVPVGRAVDL TLINGYVELI DDLEKLFDIE GELKSRNQWE  540
IVFTDDEGDM MLVGDDPWPE FCNMVKRIFI WSKEEVKKMT PGNQLRILLT EVDTTISKTE  600
NYSN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-166133419355Auxin response factor 1
4ldw_A1e-166133419355Auxin response factor 1
4ldw_B1e-166133419355Auxin response factor 1
4ldx_A1e-166133419355Auxin response factor 1
4ldx_B1e-166133419355Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.218810.0root
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
PlantRegMapGSBRNA2T00087815001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794730.0JN979473.1 Brassica rapa subsp. pekinensis auxin response factor 9-1 (ARF9-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009137577.10.0PREDICTED: auxin response factor 9
SwissprotQ9XED80.0ARFI_ARATH; Auxin response factor 9
TrEMBLA0A078IBW50.0A0A078IBW5_BRANA; Auxin response factor
STRINGBra013748.1-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
AT4G23980.10.0auxin response factor 9
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]