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 orange1.1g006119m
Common NameCISIN_1g003580mg
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family ARF
Protein Properties Length: 661aa    MW: 73903.6 Da    PI: 8.4621
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g006119mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B331.23.8e-10771254899
                        EEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                 B3  48 vkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                        v++   ++++r++lt+GW+ Fv++++L +gD v+F   + +++el+++++r+
  orange1.1g006119m  77 VYY-LLGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGKDGELRLGIRRS 125
                        444.388999**************************..4499999****996 PP
2Auxin_resp121.56.4e-40150231182
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                        +a+a+stks+F+v+Y+Pra++++Fv++++k++k + +++++G+Rfkm+fe++ds+err+ G+v+g++dldp+rWpnSkWr+L
  orange1.1g006119m 150 VANAVSTKSMFHVFYSPRATHADFVIPYQKYVKIIMNPICIGTRFKMRFEMDDSPERRCNGVVTGITDLDPYRWPNSKWRCL 231
                        689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS508638.72764126IPR003340B3 DNA binding domain
SuperFamilySSF1019362.09E-965139IPR015300DNA-binding pseudobarrel domain
PfamPF023621.2E-775125IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.9E-1279135IPR015300DNA-binding pseudobarrel domain
PfamPF065071.2E-33150231IPR010525Auxin response factor
SuperFamilySSF542778.24E-10527610No hitNo description
PROSITE profilePS5174519.689531613IPR000270PB1 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: 661 aa     Download sequence    Send to blast
MRRGVEDHLQ NQLLICSAKH LQLLILVPMA GSLFLVGLPK IVSLLWTINS RDPLKSLLPR  60
TCMEWSGGFD IFIEFNVYYL LGQPRRHLLT TGWSIFVSQK NLVSGDAVLF LRGKDGELRL  120
GIRRSVQPRN GLPDSILSKQ NSYPNVLSVV ANAVSTKSMF HVFYSPRATH ADFVIPYQKY  180
VKIIMNPICI GTRFKMRFEM DDSPERRCNG VVTGITDLDP YRWPNSKWRC LMVRWDECIG  240
SDHQEQVSPW EIDRSVSLPP LSIQSSPRMK KLRTGLQAPP PDYPVSARGG GVLDFEESVR  300
SSKVLQGQEN VGFVSPLYGC DTVNHPLGFE MRAPAHQSLA LNGIRKDNIN ELVRALPTSY  360
TGFVESNRFP KVLQGQEICP LRSLTGKVDL NLGTWGKPNF GCNSMNMYQA SKPNIYPPPS  420
ESLSNMFFPY GDMPKTVQHH TMPPYASNLQ RENVKLNSSS IQMPAIGAEI RKANLLNEHK  480
PVENIPTPTF KANMRSHKDG SFNGTAAGCK LFGFSLTSET PTPSSQSPGK RSCTKVHKQG  540
SLVGRAIDLW RLNGYNDLLS ELEHLFNMEG LLRDPAKGWR ILYTDSENDV MVVGDDPWHE  600
FCNEVSKIHI YTQEEVEKMT IGTTDDTQSC LDQAPVIMEV SVSKSSSVSQ PDSSPTVVRV  660
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A9e-5078253178353Auxin response factor 1
4ldw_A9e-5078253178353Auxin response factor 1
4ldw_B9e-5078253178353Auxin response factor 1
4ldx_A1e-4978253178353Auxin response factor 1
4ldx_B1e-4978253178353Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.179370.0flower
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_006424619.10.0auxin response factor 4 isoform X2
RefseqXP_006488136.10.0auxin response factor 4 isoform X2
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A067G0V20.0A0A067G0V2_CITSI; Auxin response factor
STRINGXP_006424619.10.0(Citrus clementina)
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]