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 Ote100228140031
Organism
Ocimum tenuiflorum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Ocimeae; Ocimum
Family ARF
Protein Properties Length: 1065aa    MW: 118459 Da    PI: 6.4479
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ote100228140031genomeOteDB-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3733.7e-23102203199
                                   EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT- CS
                            B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangL 74 
                                   f+k+lt sd++++g +++p++ ae++       + +++  ++lt +d++ + W++++iyr++++r++lt+GW+ Fv++++L
  Ote100228140031|100228140031 102 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELTARDLHDQAWTFRHIYRGQPKRHLLTTGWSVFVSSKRL 180
                                   99*****************************954.4444.48*************************************** PP

                                   -TT-EEEEEE-SSSEE..EEEEE-S CS
                            B3  75 kegDfvvFkldgrsefelvvkvfrk 99 
                                    +gD v+F   ++++ +l+++++r+
  Ote100228140031|100228140031 181 VAGDAVLFI--RDEKSQLLLGIRRA 203
                                   *********..45677789999997 PP
2Auxin_resp117.31.2e-38233310683
                    Auxin_resp   6 stksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                                    ++s+F+++YnPras+seFv++++k++ka++++vs+GmRf+m+fete+s  rr++Gt++g+sdldp rW+nS+Wr+L+
  Ote100228140031|100228140031 233 XNNSPFTIFYNPRASPSEFVIPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPARWKNSQWRNLQ 310
                                   689*************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.24E-4491225IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.3E-4295217IPR015300DNA-binding pseudobarrel domain
CDDcd100172.82E-21101202No hitNo description
PROSITE profilePS5086312.506102204IPR003340B3 DNA binding domain
PfamPF023622.2E-21102203IPR003340B3 DNA binding domain
SMARTSM010191.3E-22102204IPR003340B3 DNA binding domain
PfamPF065071.5E-33233310IPR010525Auxin response factor
PfamPF023095.0E-99351024IPR033389AUX/IAA domain
PROSITE profilePS5174526.9759381022IPR000270PB1 domain
SuperFamilySSF542774.27E-99491016No 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: 1065 aa     Download sequence    Send to blast
MKIPSNGFLT NPAEGSLVVY FPQGHSEQVA ASMQKEADGI PSYPNLPSKL ICMLHNVTLH  60
ADAETDEVYA QMTLLPVTKY DQEALLVSDI GLKHSRQPAE FFCKTLTASD TSTHGGFSVP  120
RRAAEKIFPP LDFSMQPPAQ ELTARDLHDQ AWTFRHIYRG QPKRHLLTTG WSVFVSSKRL  180
VAGDAVLFIR DEKSQLLLGI RRANRQQPAL SSSVISSDSM HIGILXXXXX XXXNNSPFTI  240
FYNPRASPSE FVIPLAKYNK AMYTQVSLGM RFRMMFETEE SGVRRYMGTI TGISDLDPAR  300
WKNSQWRNLQ VGWDESTAGE RPSRVSIWEI EPVVTPFYIC PPPFFRPKFP RHPGLPDSAH  360
ANICFFSPSS LPLVLSTDDS DIESMFKRGM PWLAADDFGL KDASSSIFPG LSLVQWMNMQ  420
QNNQLSANQS GMFPNMVSSA ALQSNIGTDD PSKLLNFQSP GLAAQNLQMS KGSHQNPQFN  480
QPPQSNATWP QQVLQSPTSN XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXSMP  540
MPPATSSVSS EQVVGRNLQQ TAAYPQLLQQ QMLPGNTHVQ QHGVSSIRAT FPMASLTQDL  600
PFQPPHVEQP SSLLQRSQEX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX  660
XXXXXXXXXX XXXPLNTVME PQLPQKQQVQ QHMQQLNGNC FSASTLVQPP QFPVNQFQSQ  720
QKTPPLVRAH SSQTDGDAPS CSTSPTKNNA QVLQSSFLKN QTGPAGIVDN SIVHPPNHVQ  780
DSHNKLDSRI KHELPNSKVP EQPKYKVNAG EHMDATSSAT SYCLDAGGLQ QSFPLTGLDG  840
DVQSHTRSAV PFTAGIDGLA PDALLSRGFD AGKDIQNLLS NYSETPRDIE TDLSSGINSQ  900
SFGVPNMSFK PGSSNDAALN DTAVMNGGLW PNQTQRMRTY TKVQKRGSVG RTIDVNRYKG  960
YDELRHDLAR MFGIQGLLED PQRTEWKLVY VDHENDILLV GDDPWEEFVT CVQSIKILSA  1020
AEVQQMSLDG DLAQLPVANQ ACSGTDSGNA WRVHYDDNSA TSFNR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1551233167388Auxin 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_011093873.10.0auxin response factor 19 isoform X1
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A4D9A5Y50.0A0A4D9A5Y5_SALSN; Uncharacterized protein
STRINGXP_010089663.10.0(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA13022465
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]