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_009109594.1
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: 844aa    MW: 93166.6 Da    PI: 6.5733
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009109594.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18.1e-24131232199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +++
  XP_009109594.1 131 FCKTLTASDTSTHGGFSVPRRAAEKVfppldytQQPPAQ--ELMARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WND 221
                     99*****************************96555555..8************************************************..788 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     + +l+++++r+
  XP_009109594.1 222 KNQLLLGIRRA 232
                     88899999986 PP
2Auxin_resp118.26.6e-39257340183
      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
  XP_009109594.1 257 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGICDLDPARWANSHWRSVK 340
                     79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-48115260IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.6E-41124246IPR015300DNA-binding pseudobarrel domain
CDDcd100179.20E-21130231No hitNo description
PfamPF023621.1E-21131232IPR003340B3 DNA binding domain
SMARTSM010194.9E-23131233IPR003340B3 DNA binding domain
PROSITE profilePS5086312.266131233IPR003340B3 DNA binding domain
PfamPF065077.7E-34257340IPR010525Auxin response factor
PROSITE profilePS5174519.344705789IPR000270PB1 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: 844 aa     Download sequence    Send to blast
MRLSSAGFNP HPHPHEVTGE KRVLNSELWH ACAGPLVSLP PLGSRVVYFP QGHSEQVAAS  60
TNKEVDAHTP NYPSLQPQLI CQLHNVTMHA DVETDEVYAQ MTLQPLNAQE QKDSYLAAEL  120
GVPSRQPTNY FCKTLTASDT STHGGFSVPR RAAEKVFPPL DYTQQPPAQE LMARDLHDNE  180
WKFRHIFRGQ PKRHLLTTGW SVFVSAKRLV AGDSVLFIWN DKNQLLLGIR RAHRPQTVMP  240
SSVLSSDSMH LGLLAAAAHA ASTNSRFTIF YNPRASPSEF VIPLAKYVKA VYHTRVSVGM  300
RFRMLFETEE SSVRRYMGTI TGICDLDPAR WANSHWRSVK VGWDESTAGD RQPRVSLWEI  360
EPLTTFPMYP SPFPLRLKRP WPSGLPSFHG LKEDDMGMGM GMSSPLMWDR GLQSMNFQGM  420
GVNPWMQPRL DASGLLGMQN DAYQAMAAAA LQDMRGIDPA KAAASLLQFQ SPSGFSMQPP  480
SLVQPQMLQQ QLSQQQQQVV DNHNLSASSA AMSQSNTSLL QSMTPLCHQQ SFSDTNGGNN  540
PITQLHTLLS NFPQDESSQL LNLTRTNSAM TSSGWPSKRP AIDSSFQHST AVNNNQSVME  600
QLGQSHTSNV SPNAVSLPPF PSGQEENHSD PHSHLLFGVN IDSSSLLIPN GMSNLRSIGI  660
EGGDSTTLPF TSSTFNNEFS GTMTTPSSCI EEPGFLQPSE NQQSNTFVKV YKSGSFGRSL  720
DITKFSSYNE LRSELARMFG LEGQLEDPVR SGWQLVFVGR EYYVLLLGDD PWPEFVSSVW  780
CIKILSPQEV QQMGKRGLEL LNSAPSSDNV DKVPSNGNCD DFGNRSDPRS LGNGIASVGG  840
SFNY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1592036147388Auxin 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
PlantRegMapXP_009109594.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
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_009109594.10.0PREDICTED: auxin response factor 6
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A3P6BTN80.0A0A3P6BTN8_BRACM; Auxin response factor
STRINGBra010776.1-P0.0(Brassica rapa)
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]