PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Tp57577_TGAC_v2_mRNA11936
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family ARF
Protein Properties Length: 831aa    MW: 92257.1 Da    PI: 6.997
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA11936genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.6e-23173274199
                                EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                                f+k+lt sd++++g +++p++ ae++      +++   s++l+ +d++g  W++++iyr++++r++lt+GW+ Fv++++L +gD
  Tp57577_TGAC_v2_mRNA11936 173 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKLER-PSQELVAKDLHGVDWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGD 255
                                99****************************985554.4569******************************************* PP

                                EEEEEE-SSSEE..EEEEE-S CS
                         B3  79 fvvFkldgrsefelvvkvfrk 99 
                                 v+F   + +++el+++++r+
  Tp57577_TGAC_v2_mRNA11936 256 AVLFL--RGENGELRLGIRRA 274
                                *****..4499999****996 PP
2Auxin_resp118.94.1e-39299381182
                 Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                                +a+a+s ks+F+v+Y+Pras+++Fvv+++k++k+++++v++G+Rfkm+fe+++sserr+ sG+v+g+sdldp++Wp+SkWr+L
  Tp57577_TGAC_v2_mRNA11936 299 VANAISAKSMFHVFYSPRASHADFVVPYQKYVKSIRSPVTIGTRFKMKFEMDESSERRFsSGIVIGMSDLDPYKWPKSKWRCL 381
                                689*******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-43165283IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.6E-38170285IPR015300DNA-binding pseudobarrel domain
CDDcd100175.91E-22171273No hitNo description
PROSITE profilePS5086313.07173275IPR003340B3 DNA binding domain
SMARTSM010196.2E-23173275IPR003340B3 DNA binding domain
PfamPF023623.3E-21173274IPR003340B3 DNA binding domain
PfamPF065074.6E-33299381IPR010525Auxin response factor
PfamPF023096.5E-8693786IPR033389AUX/IAA domain
PROSITE profilePS5174522.782702784IPR000270PB1 domain
SuperFamilySSF542771.03E-10705782No hitNo description
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: 831 aa     Download sequence    Send to blast
MEIDLNDEVT EVEDKNKNKK NNVSCNGDCE KSVCVCTLSS SSPTCSSSSS SSALVSSYLE  60
LWHACAGPLT SLPKKGNVVV YFPQGHLEQF SSLSLLSPLE IPTFDLQPQI FCRVVNVQLL  120
ANKENDEVYT QVTLLPQAEL AGMCLDGKEC EGLEADGNGN GKTTPAKLAS HMFCKTLTAS  180
DTSTHGGFSV PRRAAEDCFP PLDYKLERPS QELVAKDLHG VDWKFRHIYR GQPRRHLLTT  240
GWSIFVSQKN LVSGDAVLFL RGENGELRLG IRRAARPRNG LPESIIGNQS CSPSFLSSVA  300
NAISAKSMFH VFYSPRASHA DFVVPYQKYV KSIRSPVTIG TRFKMKFEMD ESSERRFSSG  360
IVIGMSDLDP YKWPKSKWRC LMVRWDEDIE NNQQDRISPW EIDPSNSLPP LNIQSSRRLK  420
KLRTGLQADS PSHLITGDGG FMDFDESIRS PKVLQGQEKT SFMSLYYGCD TVTKKTEFDI  480
NSLSHSHTNL ASTGARKITS AEFRRVHPSS YAGFTETNRF PMVLQGQEIC PLRSLTGKVD  540
LNLNSWGQEI CPLRSLTGKV DLNLNSWGKT NVSYTNYTLH QATKPNFHSL GSEILQNSYF  600
PYGQGSSILC SKPTNFNLEN VPFNTPSAQI GTLKNEVGLS SFAIRNEQKL QDNTSAATSL  660
GANIRILNDE NFKGKINPCK LFGFSLSAAE TTSQNLQNSA KRSCTKVHKQ GSLVGRAVDL  720
SRLSSYNDLM SELERLFGME GLLRDSDKGW RILYTDSEND IMVVGDDPWH EFCDMVSKIH  780
IHTQEEVEKM TIGMMNDDNQ SCLEQTPLIM EASKSSSVGQ PDSSPTVVRI *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1186040722357Auxin response factor 1
4ldy_B1e-1186040722357Auxin response factor 1
Search in ModeBase
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
PlantRegMapTp57577_TGAC_v2_mRNA11936
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003597191.20.0auxin response factor 4 isoform X2
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A2K3P3S90.0A0A2K3P3S9_TRIPR; Auxin response factor
STRINGAES674420.0(Medicago truncatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]