PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.006G120400.1
Common NameB456_006G120400, LOC105799306
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family ARF
Protein Properties Length: 794aa    MW: 88605.2 Da    PI: 6.7496
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.006G120400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.94.6e-24159260199
                         EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                         f+k+lt sd++++g +++p++ ae++      ++++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   +
  Gorai.006G120400.1 159 FCKTLTASDTSTHGGFSVPRRAAEDCfppldYKQTRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVAGDAVLFL--R 247
                         99****************************8444556789************************************************..4 PP

                         SSEE..EEEEE-S CS
                  B3  87 rsefelvvkvfrk 99 
                          +++el+++++r+
  Gorai.006G120400.1 248 GEDGELRLGIRRA 260
                         49999*****996 PP

2Auxin_resp115.83.9e-38285366182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +a+a+s+ks+F+v+Y+Pras++eFv++++k+ k++ ++v++G+Rfkm+f+++ds+err+sG+v+g+ d+dp++WpnS+Wr+L
  Gorai.006G120400.1 285 VANALSMKSMFHVFYSPRASHAEFVIPFRKYFKSIANSVCIGTRFKMRFDMDDSPERRFSGVVMGMGDSDPYKWPNSRWRCL 366
                         689******************************************************************************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-41151272IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-44152276IPR015300DNA-binding pseudobarrel domain
CDDcd100176.89E-24157259No hitNo description
SMARTSM010197.2E-25159261IPR003340B3 DNA binding domain
PfamPF023621.7E-22159260IPR003340B3 DNA binding domain
PROSITE profilePS5086313.014159261IPR003340B3 DNA binding domain
PfamPF065074.1E-32285366IPR010525Auxin response factor
SuperFamilySSF542772.06E-9664746No hitNo description
PROSITE profilePS5174520.444668750IPR000270PB1 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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 794 aa     Download sequence    Send to blast
MEIDLNHALS EVEKTAVCNG GCDKLNCVCS SSSSNLASPP CTSSIYLELW HACAGPLTSL  60
PKKGNLVVYF PQGHLEQLAS ASPFSPLEIS TFDLPPHIFC KVVNVQLLAN KENDEVYTQL  120
TLLPQPELRE PNLESKQLDE LGVDEGDDGS PKRSTPHMFC KTLTASDTST HGGFSVPRRA  180
AEDCFPPLDY KQTRPSQELV AKDLHGVEWR FRHIYRGQPR RHLLTTGWSI FVSQKNLVAG  240
DAVLFLRGED GELRLGIRRA VRPRNCLPES VIAKQNSYLN VLSPVANALS MKSMFHVFYS  300
PRASHAEFVI PFRKYFKSIA NSVCIGTRFK MRFDMDDSPE RRFSGVVMGM GDSDPYKWPN  360
SRWRCLMVRW DEDNMIDRHE RVSPWEIDPS ASLPPFSIQS SPRLKKLRTG PQAATPDTLI  420
AGGSRFLDFE EPLRSSKVLQ GQENVGFVSP LYGRDTVSRP LDFEMQSPAH HQSLASTGIE  480
KSNISEFMRV RSTTYTGFAD SNRFPKVLQG QEICQLRSLT QKADLNPGVW AKTNLGCNSF  540
NMHQTLRTNC YPLASEGLRN MYFPYGEFLK TVQEPTMSSY ACPLRRGNVP FNASSIRTGV  600
GVIVDGFRKP NQQNEHKPLE NIPSPASENN LRNQQDDSFK RNVAGCKLFG FPLNVESPTP  660
NSQNSGKRSC TKVHKQGSLV GRAIDLSRLY GYDDLMIELE HLFGMEGVLS DPDKGWRVLY  720
TDGENDVMVV GDDPWHEFCE VVSKIHVYTQ EEVEKMTIGT GSDDTQSCLE QAAVIMEASK  780
SSSVGQPDSS SPM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1254838922354Auxin response factor 1
4ldw_A1e-1254838922354Auxin response factor 1
4ldw_B1e-1254838922354Auxin response factor 1
Search in ModeBase
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}.
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_012485239.10.0PREDICTED: auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0D2NQV40.0A0A0D2NQV4_GOSRA; Auxin response factor
STRINGGorai.006G120400.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95302636
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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  7. 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]