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 Cc03_g11270
Common NameGSCOC_T00007137001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family ARF
Protein Properties Length: 221aa    MW: 25345.1 Da    PI: 10.568
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc03_g11270genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B330.85.1e-108833399
                 -SEEEEEETTS-EEEEEE.............EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
           B3 33 sktltledesgrsWevkliy...........rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99
                 +++l+ +d++g++W++++i+           + + +++++++  + F+++++L +gD+++F   + +++el+v+v+r+
  Cc03_g11270  8 NQELVAKDLHGNEWRFRHIFrgiikafsvdfQVNHEATTFRAVGSVFASSKRLVAGDVFIFL--RGENGELRVGVRRT 83
                 4589**************999999999999988999999***********************..449999******97 PP
2Auxin_resp91.61.3e-30108188183
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafeteds..serrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                  a+ha++tk++ +v+Y+Pr     F+v+++++++++k+++s+GmRfk++fe+e++  +e+r++G +vg++++dp rWp+SkWr+Lk
  Cc03_g11270 108 AWHAIQTKTMLTVYYKPRH----FIVPFDHYMESVKNSYSIGMRFKIRFEGEEAqaPEQRFTGAIVGTEEADPKRWPESKWRCLK 188
                  89****************6....*****************************963368999**********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.8E-17196IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-151111IPR015300DNA-binding pseudobarrel domain
PfamPF065076.0E-28108188IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 221 aa     Download sequence    Send to blast
DMSQHPPNQE LVAKDLHGNE WRFRHIFRGI IKAFSVDFQV NHEATTFRAV GSVFASSKRL  60
VAGDVFIFLR GENGELRVGV RRTKRQQGNA PSSVMSSLSM HLGVLAKAWH AIQTKTMLTV  120
YYKPRHFIVP FDHYMESVKN SYSIGMRFKI RFEGEEAQAP EQRFTGAIVG TEEADPKRWP  180
ESKWRCLKVR WDETSTILRP DRVSPWKIEP ALNPLPVPRL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-781210154354Auxin response factor 1
4ldw_A1e-781210154354Auxin response factor 1
4ldw_B1e-781210154354Auxin response factor 1
4ldx_A2e-781210154354Auxin response factor 1
4ldx_B2e-781210154354Auxin 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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
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_011073189.11e-111auxin response factor 2-like
SwissprotQ2LAJ31e-108ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A068VM631e-163A0A068VM63_COFCA; Uncharacterized protein (Fragment)
STRINGMigut.I00613.1.p1e-109(Erythranthe guttata)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-107auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]
  3. Xu T, et al.
    SlARF2a plays a negative role in mediating axillary shoot formation.
    Sci Rep, 2016. 6: p. 33728
    [PMID:27645097]
  4. Ren Z,Liu R,Gu W,Dong X
    The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence.
    Plant Sci., 2017. 256: p. 103-111
    [PMID:28167023]