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 GSBRNA2T00060998001
Common NameGSBRNA2T00060998001
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: 848aa    MW: 93443.9 Da    PI: 6.5098
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00060998001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18.2e-24127228199
                          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 
  GSBRNA2T00060998001 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldytQQPPAQ--ELMARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI 214
                          99*****************************96555555..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r+
  GSBRNA2T00060998001 215 --WNDKNQLLLGIRRA 228
                          ..78888899999986 PP
2Auxin_resp118.26.6e-39253336183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+ dldp rW nS+Wrs+k
  GSBRNA2T00060998001 253 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGICDLDPARWANSHWRSVK 336
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.19E-48112256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-41120242IPR015300DNA-binding pseudobarrel domain
CDDcd100179.26E-21126227No hitNo description
PROSITE profilePS5086312.266127229IPR003340B3 DNA binding domain
SMARTSM010194.9E-23127229IPR003340B3 DNA binding domain
PfamPF023621.1E-21127228IPR003340B3 DNA binding domain
PfamPF065077.7E-34253336IPR010525Auxin response factor
PfamPF023098.0E-8702797IPR033389AUX/IAA domain
SuperFamilySSF542772.62E-7702783No hitNo description
PROSITE profilePS5174523.837708792IPR000270PB1 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: 848 aa     Download sequence    Send to blast
MRLSSAGFNP HPHEGEKRVL NSELWHACAG PLVSLPPLGS RVVYFPQGHS EQVAASTNKE  60
VDAHTPNYPS LQPQLICQLH NVTMHADVET DEVYAQMTLQ PLNGQEQKDP YLAAELGVPS  120
RQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDYTQ QPPAQELMAR DLHDNEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDKNQ LLLGIRRAHR PQTVMPSSVL  240
SSDSMHLGLL AAAAHAASTN SRFTIFYNPR ASPSEFVIPL AKYVKAVYHT RVSVGMRFRM  300
LFETEESSVR RYMGTITGIC DLDPARWANS HWRSVKVGWD ESTAGDRQPR VSLWEIEPLT  360
TFPMYPSPFP LRLKRPWPSG LPSFHGLKED DMGMGMGMSS PLMWDRGLQP MNFQGMGVNP  420
WMQPRPLDAS GLLGMQNDAY QAMAAAALQD MRGIDPAKAA ASLLQFQNPS GFSVQPPSLV  480
QPQMLQQQLT QQHQQQLSQQ QVVDNHNLSA SSAAMSQSNT SLLQSMTPLC HQQSFSDTNG  540
GNNPITQLHT LLSNFPQDES SQLLNLTRTN SAMTSSGWPS KRPAIDSSFQ HSTAVNNNQS  600
VMEQLGQSHT SNVSPNAVSL PPFPSGQEEN PSDPHSHLLF GVNIDSSSLL IPNGMSNLRS  660
IGIEGGDSTT LPFTSSTFNN EFSGTMTTPS SCIEEQGFLQ PSENQQSNTF VKVHKSGSFG  720
RSLDITKFSS YNELRSELAR MFGLEGQLED PVRSGWQLVF VDRENDVLLL GDDPWPEFVS  780
SVWCIKILSP QEVQQMGKRG LELLNSAPSS TNVDKVPSNG NCDDLGNRSD PRSLGNGIAS  840
VGGSFNY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1581635747388Auxin 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
PlantRegMapGSBRNA2T00060998001
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_013629483.10.0PREDICTED: auxin response factor 6-like isoform X2
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A078FIW50.0A0A078FIW5_BRANA; Auxin response factor
STRINGBo3g148950.10.0(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
AT1G30330.10.0auxin 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]