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 Lus10033635
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family ARF
Protein Properties Length: 821aa    MW: 90932.6 Da    PI: 5.7325
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10033635genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.42.3e-2292192198
                  EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                  f+k+lt sd++++g +++p++ ae++       ++++++  +l+ +d++ + W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F   ++++++
  Lus10033635  92 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfaMQPPAQ--ELVARDLHDNAWTFRHIYRGQPKRHLLTTGWSVFVSNKRLFAGDSVLFI--RDEKQQ 185
                  99*****************************95444444..8************************************************..557888 PP

                  .EEEEE- CS
           B3  92 lvvkvfr 98 
                  l+++++ 
  Lus10033635 186 LLLGIRH 192
                  8999886 PP
2Auxin_resp123.12e-40218300183
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                  aahaa+++s+F+v+YnPras+seFv++++k++ka++++vs GmRf+m+fete+s  rr++Gtv+gv+dldpvrW+ S+Wr+L+
  Lus10033635 218 AAHAAANNSPFTVFYNPRASPSEFVIPFSKYNKAMYTQVSSGMRFRMMFETEESGVRRYMGTVTGVTDLDPVRWKSSQWRNLQ 300
                  79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-4482221IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.3E-4084207IPR015300DNA-binding pseudobarrel domain
CDDcd100173.93E-1991183No hitNo description
SMARTSM010195.7E-2192194IPR003340B3 DNA binding domain
PfamPF023621.5E-2092193IPR003340B3 DNA binding domain
PROSITE profilePS5086311.81592194IPR003340B3 DNA binding domain
PfamPF065071.4E-35218300IPR010525Auxin response factor
PfamPF023097.2E-10688777IPR033389AUX/IAA domain
PROSITE profilePS5174525.292691784IPR000270PB1 domain
SuperFamilySSF542777.85E-9707769No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0010311Biological Processlateral root formation
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 821 aa     Download sequence    Send to blast
MPPIGSLVVY FPQGHSEQVA ASMQKQTDCI PSYPNLPSKL ICMLHNVTLH ADPETDEVYA  60
QMTLQPVSKC DREALIASDM GMKQNRQPAE FFCKTLTASD TSTHGGFSVP RRAAEKIFPP  120
LDFAMQPPAQ ELVARDLHDN AWTFRHIYRG QPKRHLLTTG WSVFVSNKRL FAGDSVLFIR  180
DEKQQLLLGI RHANRQQPAL SSSVISSDSM HIGILAAAAH AAANNSPFTV FYNPRASPSE  240
FVIPFSKYNK AMYTQVSSGM RFRMMFETEE SGVRRYMGTV TGVTDLDPVR WKSSQWRNLQ  300
VRWDESTAGE RPSRVSIWDI EPVVTPFYIC PPPFFRPRFP KQPGMPDDES DIENAFKRAM  360
PWLADDFGMK EGGQSSIFPG LSLVQWMSMQ QNNNQLASTQ TGFFPSMLPS NTLHSNLSTD  420
DPTKLLNFQT AGLSAAASNA LSVPSIQFNK TNTQNQANQF PPQSATSWTQ KQQPQNPPPN  480
QPQQAPSSQP MQQPVNVLQQ QQEQQQLVLQ QQQHSGGVDP SNNILQDVPS RADARIKHEF  540
SGSKGSDQQL KSKATVADQL EASSSGTSYC LEPGSTPLQN FALPSFGLDG DVQSHQRMNN  600
LPFSANIEGL APDSLLSRGY DSQKDLQNLL SNYGTNPPRD IETELSSAGM SSQSFGVPNM  660
SFKPSCSADV AINDAGVLNN GLWANQTQRM RTYTKVQKRG SVGRSIDVTR YKDYDELRHD  720
LARMFGIEGQ LEDPQSSDWK LVYVDHENDI LLVGDDPWEE FVSCVQSIKI LSSVEVQQMS  780
LDGDLGNIAP PVADQACSGS DSGNAWRGHY EDNSAASFNR *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-158132166388Auxin response factor 5
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. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16461383, ECO:0000269|PubMed:17259263}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10033635
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}.
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_012851206.10.0PREDICTED: auxin response factor 19-like
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A103Y2650.0A0A103Y265_CYNCS; Auxin response factor
STRINGLus100336350.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF49183352
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Perilli S, et al.
    RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling.
    Plant Cell, 2013. 25(11): p. 4469-78
    [PMID:24285791]
  3. Sun Y, et al.
    Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas.
    Sci Rep, 2017. 7: p. 40844
    [PMID:28102350]
  4. 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]
  5. Olmo R, et al.
    Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program?
    Front Plant Sci, 2017. 8: p. 875
    [PMID:28603536]
  6. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  7. Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J
    Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana.
    Plant Sci., 2017. 264: p. 168-178
    [PMID:28969797]
  8. Nakamura M, et al.
    Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells.
    Plant Physiol., 2018. 176(1): p. 378-391
    [PMID:29084900]
  9. Hong L, et al.
    Alternative polyadenylation is involved in auxin-based plant growth and development.
    Plant J., 2018. 93(2): p. 246-258
    [PMID:29155478]
  10. Lee K,Park OS,Seo PJ
    Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation.
    Sci Signal, 2018.
    [PMID:29184030]
  11. Kimura T, et al.
    Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 823-835
    [PMID:29401292]
  12. Schoenaers S, et al.
    The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth.
    Curr. Biol., 2018. 28(5): p. 722-732.e6
    [PMID:29478854]
  13. Huang KL, et al.
    The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots.
    Plant Physiol., 2018. 178(1): p. 413-427
    [PMID:30026290]