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 MDP0000123466
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: 864aa    MW: 96013 Da    PI: 7.6975
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000123466genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.41.5e-24150251199
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                    f kvltpsd++++g +++pk+ a+e+       ++++   ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv  ++L +gD ++F   + ++
  MDP0000123466 150 FSKVLTPSDTSTHGGFSVPKRQADEClppldmsQQPPV--QDLVAKDLQGYEWCFRHIFRGQPKRHLLTSGWSTFVTTKRLVAGDACIFA--RGEN 241
                    88*****************************7544444..48************************************************..4499 PP

                    E..EEEEE-S CS
             B3  90 felvvkvfrk 99 
                    +el+v+++r+
  MDP0000123466 242 GELCVGIRRA 251
                    99******97 PP
2Auxin_resp94.71.5e-31276359183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                    a ha+st+++F+v+Y+P++s++ F++++++++k+ ++ +s+GmRf+m  e+e+++e++   Gt+++++d d +rWp S+Wr+Lk
  MDP0000123466 276 AFHAISTGTMFTVYYHPWTSPAAFIIPFDQYMKSAENDYSIGMRFRMCSEGEECAEKKRlEGTIIDIEDNDCLRWPISEWRCLK 359
                    689**************************************************9988766**********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-34144279IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.9E-39145263IPR015300DNA-binding pseudobarrel domain
CDDcd100179.89E-23148250No hitNo description
PROSITE profilePS5086312.929150252IPR003340B3 DNA binding domain
PfamPF023628.2E-22150251IPR003340B3 DNA binding domain
SMARTSM010198.5E-23150252IPR003340B3 DNA binding domain
PfamPF065072.5E-29276359IPR010525Auxin response factor
PfamPF023091.5E-7598681IPR033389AUX/IAA domain
SuperFamilySSF542779.32E-8607679No hitNo description
PROSITE profilePS5174514.596610691IPR000270PB1 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: 864 aa     Download sequence    Send to blast
MARRTAAGVE GLPSTASVNA VESSGCTDAA VPAANNNQGE KDDLYHQLWH ACAGANVYVP  60
RPGEKVFYFL QGHMEQVEAY ANQDCKMEMP RYNLPSKILC NVVCVQLKAE AHTDEVYAQI  120
TLLPVTEEDQ VRAEEENTPP LPRRTSTRSF SKVLTPSDTS THGGFSVPKR QADECLPPLD  180
MSQQPPVQDL VAKDLQGYEW CFRHIFRGQP KRHLLTSGWS TFVTTKRLVA GDACIFARGE  240
NGELCVGIRR ATKTQDTAST SLISGHSMQH GILASAFHAI STGTMFTVYY HPWTSPAAFI  300
IPFDQYMKSA ENDYSIGMRF RMCSEGEECA EKKRLEGTII DIEDNDCLRW PISEWRCLKV  360
RLDTTLDTCL HSERLSPWNI IPLQPKKRAR LPDPPSPGVS SLGRKGSLVI SXESTPPRKK  420
KVFQGQETSD PPAHEPVTPK QXLLPQFIPP PNPDWDHTDL GLENNLNVPM NDPFYQCPGY  480
PKAPGLTNQW PPMFGFGVFD SGTYKRSMSV PNISSSXSQN LRAFELRSET QSPLVEQKST  540
MLFGVNIVTS HPELPSPQVA NSIELCSPCS IPPISHSSVS ETVQLSETSK SISGVCSEKQ  600
CKKCSSVNNR SCIKVLKYGA PVGRSIDLTR FDGYNELICE LDQMFDFKGS LIDGSSGCQV  660
TYMDDEGDRM LIGDYLWQLR TXTHAVTLTN SSPWRSDCSS VRKMKCRIQA PQMQYPSKSS  720
PRGHMCLSVH IRACSARERH GIDKXVYLKH QCAHCGMYAN AAXTIYCSSV ARPITSLRKL  780
PPTSTSCSKI SALANVATPA LNFRVPRHPI XRRNDIRKPQ TAVRSQFSSN PQSNEDPDAQ  840
VQDLVVPQHW LTPSXALEVL LSIF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-127333833355Auxin response factor 1
4ldw_A1e-127333833355Auxin response factor 1
4ldw_B1e-127333833355Auxin response factor 1
Search in ModeBase
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_028954746.10.0auxin response factor 2B-like isoform X1
SwissprotQ94JM31e-147ARFB_ARATH; Auxin response factor 2
TrEMBLA0A498K3A30.0A0A498K3A3_MALDO; Auxin response factor
STRINGXP_008368914.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF131052329
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-149auxin 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]