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 evm.model.supercontig_9.161
Organism
Carica papaya
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family ARF
Protein Properties Length: 699aa    MW: 77679.1 Da    PI: 7.3394
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_9.161genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.71.3e-24138237197
                                  EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS
                           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 
                                  f+k+ltpsd++++g +++pk++ae++       ++++ +  +l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L 
  evm.model.supercontig_9.161 138 FIKKLTPSDTSTHGGFSVPKRHAEDClppldlaQQPPVQ--DLVATDLHGDQWHFRHIFRGQPKRHLLTSGWSTFVSSKKLV 217
                                  99*****************************96555555..7**************************************** PP

                                  TT-EEEEEE-SSSEE..EEEEE CS
                           B3  76 egDfvvFkldgrsefelvvkvf 97 
                                  +gD ++F   + +++el+v+v+
  evm.model.supercontig_9.161 218 AGDACIFL--RGQNGELRVGVR 237
                                  ********..347888999986 PP
2Auxin_resp98.41e-32264346183
                   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                                  a ha+ t+s+F+v+Y+P++s++eF+++++k+++++++++s+G Rfkm fe e+  e+rl+Gtvvg +d+d +rWpnS Wr+L
  evm.model.supercontig_9.161 264 AYHAVCTGSMFSVYYHPWTSPAEFIIPYDKYMRTTEIEYSLGARFKMIFEAEEGGEQRLAGTVVGNEDIDHIRWPNSDWRCL 345
                                  67999****************************************************************************9 PP

                   Auxin_resp  83 k 83 
                                  k
  evm.model.supercontig_9.161 346 K 346
                                  6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-34130265IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.9E-38133249IPR015300DNA-binding pseudobarrel domain
CDDcd100173.31E-23137238No hitNo description
SMARTSM010194.7E-20138240IPR003340B3 DNA binding domain
PROSITE profilePS5086312.534138240IPR003340B3 DNA binding domain
PfamPF023621.2E-21138237IPR003340B3 DNA binding domain
PfamPF065076.7E-30264346IPR010525Auxin response factor
PROSITE profilePS5174518.161611693IPR000270PB1 domain
SuperFamilySSF542771.11E-8612688No hitNo description
PfamPF023091.5E-5652690IPR033389AUX/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: 699 aa     Download sequence    Send to blast
MGRDQREGVR IAQTRKAVDV HGGNQGGHES DLFNELWHAC AGPLVYVPRD GEKVFYFPQG  60
HIEQIEAYTN QSGEVEMPIY NLPPKILCKV VYVRLEAEIT TDEVFAHITL LPLREQDGSI  120
LENGCSLPVP RTSHSSFFIK KLTPSDTSTH GGFSVPKRHA EDCLPPLDLA QQPPVQDLVA  180
TDLHGDQWHF RHIFRGQPKR HLLTSGWSTF VSSKKLVAGD ACIFLRGQNG ELRVGVRCGA  240
KLHNNAAATV LSAHSMQHGI LASAYHAVCT GSMFSVYYHP WTSPAEFIIP YDKYMRTTEI  300
EYSLGARFKM IFEAEEGGEQ RLAGTVVGNE DIDHIRWPNS DWRCLKVKWD IKSDRLPCPE  360
RLSPWSIELM ECNRKKKTSV QHLQKRARVH SLSIPGVSSM VQDGLFRNAV KHFPHLGVLQ  420
GQESKGKGII IETDAPGMRP RKNPGWKPTQ PELEDHLAFA MDDPFDKCHI SSILFSGGNI  480
GSSIPKGCPS AHAVQNKAKG KQILSVPNVN FSNSESSDRR ALELRDQNDA PPMQQSCLGG  540
YKLFGVNLFN SPPELPSPQV ANSSDFECFS YVPPTSQSSI SGTKRVTDPS NSLSGSLSKK  600
KCNTFCSVTN RSCTKVLKYG TALGRSIDLT KFNGYEELVC TLDQMFDFKG SLMDGTSGWH  660
VAYTDDEGDM MLMGDYPWQG FQGMVRKMFI CPKEDPEN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-134223688353Auxin response factor 1
4ldw_A1e-134223688353Auxin response factor 1
4ldw_B1e-134223688353Auxin 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. 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapevm.model.supercontig_9.161
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_021906938.10.0auxin response factor 23-like
SwissprotQ94JM31e-151ARFB_ARATH; Auxin response factor 2
TrEMBLA0A067H8T00.0A0A067H8T0_CITSI; Auxin response factor
STRINGevm.model.supercontig_9.1610.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM157971016
Representative plantOGRP1325645
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-153auxin 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]