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 orange1.1g003949m
Common NameCISIN_1g003544mg
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: 785aa    MW: 87472.1 Da    PI: 6.0215
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g003949mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B366.73.3e-21127215184
                        EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                        f+k+lt sd++++g +++p++ ae+       +++++  ++l+ +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  orange1.1g003949m 127 FCKTLTASDTSTHGGFSVPRRAAEKVfpsldfSLQPPA-QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIC 215
                        99*****************************9777666.49***********************************************74 PP
2Auxin_resp116.22.9e-38226309183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        aahaa+t+s F+v++nPras+seFv+++ k++ka+  ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrW+nS+Wrs+k
  orange1.1g003949m 226 AAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVK 309
                        79********************************86599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.2E-40113220IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.6E-34120235IPR015300DNA-binding pseudobarrel domain
CDDcd100171.38E-19126213No hitNo description
PROSITE profilePS5086310.955127226IPR003340B3 DNA binding domain
SMARTSM010193.9E-17127226IPR003340B3 DNA binding domain
PfamPF023622.6E-19127214IPR003340B3 DNA binding domain
PfamPF065073.8E-33226309IPR010525Auxin response factor
SuperFamilySSF542772.35E-7660738No hitNo description
PfamPF023091.9E-7661748IPR033389AUX/IAA domain
PROSITE profilePS5174524.273664748IPR000270PB1 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 785 aa     Download sequence    Send to blast
MKLSTSGLCQ QGHEGDNKCL NSELWHACAG PLVSLPTVGT RVVYFPQGHS EQVAATTNKE  60
VDSHIPNYPN LPPQLICQLH NVTMHADVET DEVYAQMTLQ PLSPEEQKDT FVPIELGIPS  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPSLDFSL QPPAQELIAR DLHDVEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFICDSMHI GLLAAAAHAA ATNSCFTVFF  240
NPRASPSEFV IPLTKYVKAV FHTRVSVGMR FRMLFETEES SVRRYMGTIT GISDLDPVRW  300
SNSHWRSVKV GWDESTAGER QPRVSLWEIE PLTTFPMYPS LFPLRLKRPW HPSTSSFNDN  360
RDETASGLNW LRGGTGEQGL TTLNFQSLGM FPWMQQRVEP SFLGNDHNQQ YQAMLAAGMQ  420
SGDPVRQQFM QLQQPFQYLQ QSGSQNPLQL KQQQHLLQQL NSQAEDRAQQ QQQPQQHMYH  480
DALQIRTDEL LQRQQSNLPS PSFSKANFMD SSTEISVSIS PMQNMLGSLP EGSGNLLNFS  540
GAGPSMLRQQ FPQQSLGSKY EPSQVRDFVH SMSLPSSYNG KDAAVGTENC NTDSQNSVVF  600
GVHIDSSGLL LPTTVSSFTT SVDPGVSSMP LGDSGFHNSM YGCMQDSSEL LHNVGQIDQL  660
TPTRTFVKVY KSGSVGRSLD ISRFSSYNEL REELGQMFGI EGKFEDPLRS GWQLVFVDRE  720
NDVLLLGDDP WEAFVSNVWY IKILSPEDVQ KMGEQGVESF SPSSGQRANS RGNCGRDPVG  780
SLEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1392033051388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in sepals at stages 11, 12 and 13 of flower development. Highly expressed in petals at stages 9-10, decreases at stage 11 and disappears after flower stage 12. In anthers, expressed at stage 11 in the tapetum, disappears early in stage 12 when the tapetum degrades and reappears throughout the anther late in stage 12 to persist at least until stage 13. In stamen filaments, expressed at stages 12 to 13, especially near the apical end of the filament. Expressed throughout the gynoecium at early stages up to stage 12, especially strongly in ovules. Expression in gynoecium decreases late in stage 12, but persists through stage 13, especially near the apical end including the style. Expressed in the mesocarp of the fruit and the carpel septum during fruit growth. {ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015387037.10.0auxin response factor 8 isoform X3
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLA0A067EQ720.0A0A067EQ72_CITSI; Auxin response factor
STRINGXP_006430416.10.0(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.20.0auxin response factor 8
Publications ? help Back to Top
  1. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  2. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  3. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  4. Wang Y, et al.
    MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development.
    Plant Physiol., 2015. 168(3): p. 984-99
    [PMID:25941314]
  5. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  6. 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]
  7. Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V
    Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8.
    Plant Physiol., 2016. 172(3): p. 1853-1861
    [PMID:27688620]
  8. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  9. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  10. Zheng K, et al.
    Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1813
    [PMID:29114256]
  11. 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]
  12. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]