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 Cotton_A_03644_BGI-A2_v1.0
Common NameF383_22205
Organism
Gossypium arboreum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family ARF
Protein Properties Length: 859aa    MW: 95556 Da    PI: 6.5504
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_03644_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.89.8e-24161262199
                                 EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
                          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                                 f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +g
  Cotton_A_03644_BGI-A2_v1.0 161 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAG 242
                                 99*****************************7333.34459****************************************** PP

                                 -EEEEEE-SSSEE..EEEEE-S CS
                          B3  78 DfvvFkldgrsefelvvkvfrk 99 
                                 D ++F   + +++el+v+v+r+
  Cotton_A_03644_BGI-A2_v1.0 243 DAFIFL--RGENGELRVGVRRA 262
                                 ******..449999*****996 PP
2Auxin_resp118.84.4e-39287369183
                  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                                 a+ha  tk++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp +W++SkWr+Lk
  Cotton_A_03644_BGI-A2_v1.0 287 AWHAYMTKTIFTVYYKPRTSPAEFIVPFDQYMESMKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPKKWQDSKWRCLK 369
                                 79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.11E-41155290IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.2E-41157276IPR015300DNA-binding pseudobarrel domain
CDDcd100177.88E-22159261No hitNo description
PROSITE profilePS5086312.012161263IPR003340B3 DNA binding domain
PfamPF023621.2E-21161262IPR003340B3 DNA binding domain
SMARTSM010192.0E-23161263IPR003340B3 DNA binding domain
PfamPF065079.4E-36287369IPR010525Auxin response factor
PfamPF023091.3E-5725772IPR033389AUX/IAA domain
SuperFamilySSF542773.78E-13730816No hitNo description
PROSITE profilePS5174524.764736820IPR000270PB1 domain
PfamPF023094.2E-7782821IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 859 aa     Download sequence    Send to blast
MTNTEVAMKG NCVNGRGGES FSSGYSEPND GRNTVEGQNG HSTRQAPATD PETALYNELW  60
HACAGPLVTV PREQDRVFYF PQGHIEQVEA STSQVADEQM PVYNLPSKIL CRVINVQLKA  120
EPDTDEVFAQ VTLLPEPNQD ENTVNKEPPA PQPPRFHVHS FCKTLTASDT STHGGFSVLR  180
RHADECLPPL DMSRQPPTQE LVAKDLHGNE WRFRHIFRGQ PRRHLLQSGW SVFVSSKRLV  240
AGDAFIFLRG ENGELRVGVR RAMRQQGNVP SSVISSHSMH LGVLATAWHA YMTKTIFTVY  300
YKPRTSPAEF IVPFDQYMES MKNNYSIGMR FKMRFEGEEA PEQRFTGTIV GIEDADPKKW  360
QDSKWRCLKV RWDETSTIPR PERVSPWKIE PALAPPALNP LPMPRPKRPR SNAVPSSPDS  420
SVLTREGSSK AIVDPSPATG FSRVLQGQEF STLRGNFAES HESDTAEKSV IWRPTVDDEK  480
IDVVHTSRRF GSENWMSSGR HEPAAYTDLL SGFRSNADSS LGYCPPMVDQ TSLAGNPMRR  540
QLLDQEGKLG SWSLMSSGLS LKLVDSNAKP SVQGSEVPYQ ARGNGRFSGF GEYPVLQGHR  600
IEHPHGNWLM PPPTSSNYEN PIQSRDLMPK ASLGQDHENG KSREGSCKLF GIPLISNSVA  660
SEPTVSPINA TNKAASHVEA APNQAHTFTF DQKSEQPKFS RLAENLSIFN EQEKSFQLGQ  720
PHTREVQSKS PSASTRSCTK VLMQGSALGR SVDLTKFNNY DELIAELDQL FEFGGELMAP  780
KKNWLVVYTD DEGDMMLVGD DPWQEFCSMV RKIGIYTREE VQKMKPGSLN SKGEDNPVSV  840
EGPDAKDVKC TPASSTENC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1795439118354Auxin response factor 1
4ldw_A1e-1795439118354Auxin response factor 1
4ldw_B1e-1795439118354Auxin 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017605621.10.0PREDICTED: auxin response factor 2
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A0B0MIX70.0A0A0B0MIX7_GOSAR; Auxin response factor
STRINGGorai.001G054600.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53482647
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]