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 FANhyb_rscf00000221.1.g00004.1
Organism
Fragaria x ananassa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family ARF
Protein Properties Length: 1248aa    MW: 140013 Da    PI: 6.383
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
FANhyb_rscf00000221.1.g00004.1genomekazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B366.63.7e-21204305199
                                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT CS
                              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkang 73 
                                     f+k+lt sd++++g +++p++ ae++      +++++  ++l+ +d++   W++++iyr++++r++lt+GW+ F + ++
  FANhyb_rscf00000221.1.g00004.1 204 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfSMQPPA-QELVAKDLHDSAWTFRHIYRGQPKRHLLTTGWSVFISTKR 281
                                     99*****************************9445444.38************************************** PP

                                     --TT-EEEEEE-SSSEE..EEEEE-S CS
                              B3  74 LkegDfvvFkldgrsefelvvkvfrk 99 
                                     L +gD v+F   ++++ +l+++++r+
  FANhyb_rscf00000221.1.g00004.1 282 LFAGDAVLFI--RDEKSQLLLGIRRA 305
                                     **********..45677789999997 PP
2Auxin_resp121.56.4e-40330412183
                      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkW 79 
                                     aahaa+++s+F+++YnPras+seFvv+++k++ka++++vs+GmRf+m+fete+s  rr++Gt++g+s+ld+vrW+nS+W
  FANhyb_rscf00000221.1.g00004.1 330 AAHAAANNSAFTIFYNPRASPSEFVVPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISELDTVRWKNSQW 408
                                     79***************************************************************************** PP

                      Auxin_resp  80 rsLk 83 
                                     r+L+
  FANhyb_rscf00000221.1.g00004.1 409 RNLQ 412
                                     **97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.67E-44194333IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.9E-41196319IPR015300DNA-binding pseudobarrel domain
CDDcd100177.27E-18203304No hitNo description
PROSITE profilePS5086311.928204306IPR003340B3 DNA binding domain
SMARTSM010192.1E-20204306IPR003340B3 DNA binding domain
PfamPF023622.2E-19204305IPR003340B3 DNA binding domain
PfamPF065072.5E-35330412IPR010525Auxin response factor
PROSITE profilePS5174525.07411121205IPR000270PB1 domain
PfamPF023092.6E-811121198IPR033389AUX/IAA domain
SuperFamilySSF542772.06E-811261190No 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: 1248 aa     Download sequence    Send to blast
MWDCHFADSA CKVVAYTNII GIEILCYGGL KGNDGFLQVG EVCVFGGKVS FLLHFWDWSP  60
EFNAPTNGFL ATSVEGEFVM DLIAYQDMFH FYGEQKNINS ELWHACAGPL VSLPPVGSLV  120
VYFPQGHSEQ VAASMQKETD FIPNYPNLPS KLICMLHNVT LHADTETDEV YAQMTLQPVN  180
KYDKEAILAS DMGLKQSRQP SEFFCKTLTA SDTSTHGGFS VPRRAAEKIF PPLDFSMQPP  240
AQELVAKDLH DSAWTFRHIY RGQPKRHLLT TGWSVFISTK RLFAGDAVLF IRDEKSQLLL  300
GIRRANRQQP ALSSSVISSD SMHIGILAAA AHAAANNSAF TIFYNPRASP SEFVVPLAKY  360
NKAMYTQVSL GMRFRMMFET EESGVRRYMG TITGISELDT VRWKNSQWRN LQVGWDESTA  420
GDRPSRVSIW EIEPVVTPFY ICPPPFFRPK FPKQPGMPDD ESDIENAFKR AMPWLGDEFG  480
MKNSTSSIFP GLSLVQWMNM QQNNQFSAAQ SGFFPSMVPP TTLHSGIDDP SKLLNFQAPG  540
LTAPSQFNKA ALQNQVGQVQ QPTVTWPQQQ QLQQLMQNPM NQQQQNHSQQ QQLQQLMHTP  600
LNQQQQNLPQ QQQLQQLMQT PANQQLQNYS QQQQQQREQQ QRQEPQGHQQ LQNLHQIHQQ  660
QPQRQQPQQQ QLGQPTSVSN GLVTPNQIPS QNSQQPMMFT QLQQQHSLTS STQSQQTVHT  720
PNKNSFQLAA GTQDSQIQQQ LEPQPSLLQR QQQAQLQQSP LQLLQQSQKA QQQPQVQPSP  780
QQGLSEQQIH LQLLQKLQQQ QQQQQQQQQQ QQQLFSPSSP LLQQQMLQQQ LAHQQNQQLQ  840
QLQLPLSQHH QQQLSSNGFA ADKLLNSNNF SASPLLQPQH VSSIQQQNQH KQVTAIRSHS  900
NLTEGDGPSC STSPSTNNCQ VSPSNLLNRN QQGTAMLIAD PVPEPSSNLV HEFQSKSDIR  960
IKHELPISKG PDQIKYKGTI TDQLEASSSG TSYCLDASTM QQNYALPSFC LDGDVQSHPR  1020
NNLPFSANID GLAPDTLLSR GYDSQKDLQN LLANYGGTPR DIETELSTAA ISSQSFGAPN  1080
MPFKPGCSSD VALNDAGVLN NGLWGSQPPR MRTYTKVQKR GLVGRCIDVT RYKGYDELRH  1140
DLARMFGIEG QLEDPQRTDW KLVYVDHEND ILLVGDDPWE EFVSCVQSIK ILSSVEVQQM  1200
SLDGDLGNVP VSNQACSGTD SGNAWRAPYD DNSAASFNRY NSAASFNR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1679843351388Auxin 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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004287660.10.0PREDICTED: auxin response factor 19-like
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A251NDU40.0A0A251NDU4_PRUPE; Auxin response factor
STRINGXP_004287660.10.0(Fragaria vesca)
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]