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 GSBRNA2T00113721001
Common NameGSBRNA2T00113721001
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: 874aa    MW: 96064.7 Da    PI: 6.236
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00113721001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.75.2e-24129230199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F 
  GSBRNA2T00113721001 129 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQQPPA--QELMARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI 216
                          99*****************************8544444..48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r+
  GSBRNA2T00113721001 217 --WNDKNQLLLGIRRA 230
                          ..7888889****997 PP
2Auxin_resp1187.6e-39255338183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+ dldp+rW nS+Wrs+k
  GSBRNA2T00113721001 255 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGICDLDPTRWANSHWRSVK 338
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-48114258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.7E-42122244IPR015300DNA-binding pseudobarrel domain
CDDcd100179.79E-21128229No hitNo description
PfamPF023624.7E-22129230IPR003340B3 DNA binding domain
SMARTSM010191.9E-24129231IPR003340B3 DNA binding domain
PROSITE profilePS5086312.464129231IPR003340B3 DNA binding domain
PfamPF065078.5E-34255338IPR010525Auxin response factor
PfamPF023094.5E-8723819IPR033389AUX/IAA domain
SuperFamilySSF542772.49E-7726805No hitNo description
PROSITE profilePS5174523.582730814IPR000270PB1 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: 874 aa     Download sequence    Send to blast
MRLSTAGFNP QPHEVTGEKR VLNSELWHAC AGPLVSLPPV GSRVVYFPQG HSEQVAASTN  60
KEVDAHIPNY PSLHPQLICQ LHNVTMHADV ETDEVYAQMT LQPLNAQEQK DPYLPAELGV  120
PSRQPTNYFC KTLTASDTST HGGFSVPRRA AEKVFPPLDY SQQPPAQELM ARDLHDNEWK  180
FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSVLFIWNDK NQLLLGIRRA NRPQTVMPSS  240
VLSSDSMHLG LLAAAAHAAA TNSRFTIFYN PRASPSEFVI PLAKYVKAVY HTRVSVGMRF  300
RMLFETEESS VRRYMGTITG ICDLDPTRWA NSHWRSVKVG WDESTAGERQ PRVSLWEIEP  360
LTTFPMYPSP FPLRLKRPWP PGLPSFHEDD MSMGMGMSSP LMWDRGLQSL NFQGMGVNPW  420
MQPRLDASGL LGMQNDVYQA MAAAALQDMR GIDPAKAAAS LLQFQNPSGF SMQPPSLMQP  480
QMLQQQLSQQ QQQQQQLSQQ QQQQSYLPSA STAAAVSAMS QFGSASQSMT SLCQQQSFLD  540
TNGGNNNPMS PLHTLLSNFS QDESSQLLNL TRTTNSAAMT SSGWPSKRPA VDLSSFGNNS  600
NTQSVIEQLG QSHNTSNVPP NAVSLPPFPG GGRECSIEQE GGSPSDPHSH LLFGVNIDSS  660
SLLMPNGMSN LRSIGIEGGD STTLPFTTSN FNNDFSGGNL AMTTPSSCID EPGFLQSSEN  720
LGSENQQSNN TFVKVYKSGS FGRSLDITKF SSYHELRSEL ARMFGLEGQL EDPVRSGWQL  780
VFVDRENDVL LLGDDPWPEF VSSVWCIKIL SPQEVQQMGK RGLELLNSAP PSSNNNVVEK  840
LPSNNGNCDD FGNRSDPRNL GNGIASVGGS FNY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1591835947388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00113721001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794680.0JN979468.1 Brassica rapa subsp. pekinensis auxin response factor 6 (ARF6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013662473.10.0auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A3P5Y2Y20.0A0A3P5Y2Y2_BRACM; Auxin response factor
STRINGBo5g062810.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. 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]