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 MDP0000310875
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family ARF
Protein Properties Length: 849aa    MW: 94622.2 Da    PI: 6.7957
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000310875genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.91.9e-23159260199
                    EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                    f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +++
  MDP0000310875 159 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGSEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFV--RGENG 251
                    99*****************************7333.34459************************************************..44999 PP

                    ..EEEEE-S CS
             B3  91 elvvkvfrk 99 
                    el+v+v+r+
  MDP0000310875 252 ELRVGVRRA 260
                    9*****996 PP
2Auxin_resp1141.3e-37285367183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha+ t+++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e++++Gt++g++d+d+ rW++SkWr+Lk
  MDP0000310875 285 AWHAILTGTMFTVYYKPRTSPAEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQKFTGTIIGTEDADTKRWRDSKWRCLK 367
                    79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.8E-41155274IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.84E-40156288IPR015300DNA-binding pseudobarrel domain
CDDcd100175.74E-21157259No hitNo description
PfamPF023622.8E-21159260IPR003340B3 DNA binding domain
SMARTSM010192.8E-23159261IPR003340B3 DNA binding domain
PROSITE profilePS5086311.956159261IPR003340B3 DNA binding domain
PfamPF065073.5E-35285367IPR010525Auxin response factor
SuperFamilySSF542777.36E-11721799No hitNo description
PROSITE profilePS5174523.282722806IPR000270PB1 domain
PfamPF023096.3E-7768807IPR033389AUX/IAA 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: 849 aa     Download sequence    Send to blast
MTSSEVSIKD NCGNPKGESF SSGFRDHNDA RTVGEGQNGH STVSDGRDAE TALYTELWHA  60
CAGPLVTVPR ERERVFYFPQ GHIEQVEAST NQVADQQMPM YNLPSKILCR VINVSLKAEP  120
DTDEVFAQVT LLPEPNQDEN AVEKEPPPPP PPRFQVHSFC KTLTASDTST HGGFSVLRRH  180
ADECLPPLDM SRQPPTQELV AKDLHGSEWR FRHIFRGQPR RHLLQSGWSV FVSSKRLVAG  240
DAFIFVRGEN GELRVGVRRA MRQQGSVPSS VISSHSMHLG VLATAWHAIL TGTMFTVYYK  300
PRTSPAEFIV PFDQYMESVK NNYSIGMRFK MRFEGEEAPE QKFTGTIIGT EDADTKRWRD  360
SKWRCLKVRW DETSTISRPE RVSPWKIEPA LAPPALNPLP MPRPKRPRTH MVPSSPDSSV  420
LSREVGSSKV NVDPAMPGGF SRVLQGQEFP TLRGNFAESQ SDTAEKSVAW PPSIDEEKID  480
VVSASRRYGS ENWMSSGRHE PTYTDLLSGF GNNVDSSHGI CPPFVDQGVA SANSMRKHSL  540
DQEGKYNSRS WSMLPSSLSL SLDSNQKGPL GNMSHQAQGN SRYGGFGDYS VVNGHRIELP  600
HGNWMMPLPP PSPFENPGNA RDIMPRPQML LDKREAVNPK DGNCKLFGIP LITPDPALLH  660
RNMMNESPRN NQAHTFESDL NSEKSRGLKS TDNLVAVSEP ALQTSQQHIR DVQGKSQGGS  720
TRSCTKVHKQ GIALGRSVDL TKFNNYKELI AELDMLFEFG GELMSPKKNW MIVYTDDEGD  780
MMLVGDDPWQ EFCGIVRKIF IYTREEVQKM NPGTLNAQWE DNLSSGAEGV DAREGKSQPR  840
PSASTAEKC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-178383894354Auxin response factor 1
4ldw_A1e-178383894354Auxin response factor 1
4ldw_B1e-178383894354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mdo.33380.0bud| fruit| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. Expressed in developing siliques. {ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078, ECO:0000269|PubMed:15960614}.
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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952, ECO:0000269|PubMed:16339187}.
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_008374175.10.0auxin response factor 2B
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A498JQ110.0A0A498JQ11_MALDO; Auxin response factor
STRINGXP_008374175.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV
    Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula).
    PLoS ONE, 2012. 7(8): p. e42839
    [PMID:22916167]
  2. 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]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Lyons R, et al.
    Fusarium oxysporum triggers tissue-specific transcriptional reprogramming in Arabidopsis thaliana.
    PLoS ONE, 2015. 10(4): p. e0121902
    [PMID:25849296]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Zhao S,Zhang ML,Ma TL,Wang Y
    Phosphorylation of ARF2 Relieves Its Repression of Transcription of the K+ Transporter Gene HAK5 in Response to Low Potassium Stress.
    Plant Cell, 2016. 28(12): p. 3005-3019
    [PMID:27895227]
  8. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  9. 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]
  10. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]
  11. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]
  12. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  13. 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]
  14. Sarkar Das S, et al.
    Expression dynamics of miRNAs and their targets in seed germination conditions reveals miRNA-ta-siRNA crosstalk as regulator of seed germination.
    Sci Rep, 2018. 8(1): p. 1233
    [PMID:29352229]