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 Gh_D09G1013
Organism
Gossypium hirsutum
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: 821aa    MW: 91819.1 Da    PI: 6.8608
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D09G1013genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.84.8e-24159260199
                  EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                  f+k+lt sd++++g +++p++ ae++      ++++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +++el+
  Gh_D09G1013 159 FCKTLTASDTSTHGGFSVPRRAAEDCfppldYKQTRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVAGDAVLFL--RGEDGELR 254
                  99****************************8444556789************************************************..449999** PP

                  EEEE-S CS
           B3  94 vkvfrk 99 
                  ++++r+
  Gh_D09G1013 255 LGIRRA 260
                  ***996 PP
2Auxin_resp115.74.1e-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
  Gh_D09G1013 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:2.40.330.102.2E-41151272IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-44152276IPR015300DNA-binding pseudobarrel domain
CDDcd100171.06E-23157259No hitNo description
PfamPF023621.8E-22159260IPR003340B3 DNA binding domain
SMARTSM010197.2E-25159261IPR003340B3 DNA binding domain
PROSITE profilePS5086313.014159261IPR003340B3 DNA binding domain
PfamPF065074.3E-32285366IPR010525Auxin response factor
SuperFamilySSF542777.85E-10692774No hitNo description
PROSITE profilePS5174521.108696778IPR000270PB1 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: 821 aa     Download sequence    Send to blast
MEIDLNHALS EVEKTAVCNG DCDKLNCVCS SSSSNLASPP CTSSIYLELW HACAGPLTSL  60
PKKGNLVVYF PQGHLEQLAS ASPFSPLEIS TFDLPPHIFC KVVNVQLLAN KENDEVYTQL  120
TLLPQPELRG 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
AGANLSARLV ILLHFYTRLI YAFCVVFLSG GSRFLDFEEP LRSSKVLQGQ ENVGFVSPLY  480
GRDTVSRPLD FEMQSPAHHQ SIASTGIEKS NISEFMRVRS TTYTGFADSN RFPKVLQGQE  540
ICQLRSLTQK ADLNLGVWAK TNLGCNSFNM HQTLRTNCYP LASEGLRNMY FPYSEFLKTV  600
QEPTMSSYAC PLPRGNVPFN ASSIRTGVGV IVDGFRKPNQ QNEHKPLENI PSPASENNLR  660
NQQDDSFKRN VAGCKLFGFP LNVESPTPNS QNSGKRSCTK VHKQGSLVGR AIDLSRLYGY  720
DDLMIELEHL FGMEGVLSDP DKGWRVLYTD SENDVMVVGD DPWHEFCEVV SKIHVYTQEE  780
VEKMTIGTGS DDTQSCLEQA AVIMEVSKSS SVGQPDSSSP M
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1244838922354Auxin response factor 1
4ldw_A1e-1244838922354Auxin response factor 1
4ldw_B1e-1244838922354Auxin response factor 1
4ldx_A1e-1244838922354Auxin response factor 1
4ldx_B1e-1244838922354Auxin response factor 1
4ldy_A1e-1244838922354Auxin response factor 1
4ldy_B1e-1244838922354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.134371e-158ovule
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016671805.10.0PREDICTED: auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1U8I0N90.0A0A1U8I0N9_GOSHI; 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. 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]