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 Cucsa.052860.3
Common NameCsa_6G291920, LOC101212503
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family ARF
Protein Properties Length: 638aa    MW: 70746.6 Da    PI: 8.3922
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.052860.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.72.1e-23169270199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+lt sd++++g +++p++ ae++       ++ +  s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +
  Cucsa.052860.3 169 FCKTLTASDTSTHGGFSVPRRAAEDCfppldytQLRP--SQELIAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLISGDAVLFL--RGE 259
                     99****************************9887775..458************************************************..449 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++el+++++r+
  Cucsa.052860.3 260 NGELRLGIRRA 270
                     9999****996 PP
2Auxin_resp122.23.9e-40295376182
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                     +++a+stks+F+v+YnPra +++F+++++k++k+++++vsvG+Rfkm+fe++ds+err+ G+vvg+sd+d++rWpnSkWr+L
  Cucsa.052860.3 295 VVKAISTKSTFDVFYNPRAYHAQFIISCQKYVKSINNPVSVGTRFKMRFEMDDSPERRFNGVVVGISDMDSFRWPNSKWRCL 376
                     6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.7E-39162279IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.62E-43163280IPR015300DNA-binding pseudobarrel domain
CDDcd100177.02E-23167269No hitNo description
PfamPF023623.0E-21169270IPR003340B3 DNA binding domain
SMARTSM010197.5E-24169271IPR003340B3 DNA binding domain
PROSITE profilePS5086312.915169271IPR003340B3 DNA binding domain
PfamPF065075.7E-34296376IPR010525Auxin response factor
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: 638 aa     Download sequence    Send to blast
MEIDLNQTAS EVGKNAYCYG NCEEGLCNCC LSSSTSSCSS NSSSTPVSSS TYLELWHACA  60
GPLTSLPKKG NVVVYFPQGH LEQIASASPF SPMEMRTFDL QPHILCRVIN VHLLANKEND  120
EVYTQLTLRP LPELLGTGVA GKELEELALN GADGDGSGGS PTRSTPHMFC KTLTASDTST  180
HGGFSVPRRA AEDCFPPLDY TQLRPSQELI AKDLHGVEWR FRHIYRGQPR RHLLTTGWSI  240
FVSQKNLISG DAVLFLRGEN GELRLGIRRA VRPRNGLPDS IVGNQNSCAN DLARVVKAIS  300
TKSTFDVFYN PRAYHAQFII SCQKYVKSIN NPVSVGTRFK MRFEMDDSPE RRFNGVVVGI  360
SDMDSFRWPN SKWRCLTVRW DKDSDHQERV SPWEIDPSVS LPPLSVQSSP RLKKLRTSLQ  420
AAPPNNAFTG RGGFMDFEDS VRSSKVLQGQ ENVGFMESDR FLKVLQGQEI CSLRPPTSKP  480
EYSLGVWGKF NLSDNSFNTF QSPNSNFYHM ASNSAQKMYF PRSEMHSTGQ AAMMLSNDSN  540
FPRESALFNP SAVGANVIRT KMERTSRSLD RESLHLASAP PTLGSNMRNS KDEHVNDNAT  600
GCKLFGFSLT TETATNVQSS GKRSCTKVRI GCREFDR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-122373972354Auxin response factor 1
4ldw_A1e-122373972354Auxin response factor 1
4ldw_B1e-122373972354Auxin 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB1126750.0AB112675.1 Cucumis sativus CsARF5 mRNA for auxin response factor 5, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011657217.10.0PREDICTED: auxin response factor 4
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0A0KFX80.0A0A0A0KFX8_CUCSA; Auxin response factor
STRINGXP_004169481.10.0(Cucumis sativus)
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. Saito Y, et al.
    Isolation of cucumber CsARF cDNAs and expression of the corresponding mRNAs during gravity-regulated morphogenesis of cucumber seedlings.
    J. Exp. Bot., 2004. 55(401): p. 1315-23
    [PMID:15133054]
  2. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  3. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  4. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  10. 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]