PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.010G091300.1
Organism
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: 1188aa    MW: 131258 Da    PI: 6.5117
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.010G091300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.81.8e-22126227199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      +++++  ++l+ +d++ ++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F + 
  Gorai.010G091300.1 126 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfSMQPPA-QELVAKDLHDNTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFIR- 214
                         99*****************************9445444.38************************************************4. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                          +++ +l+++ +r+
  Gorai.010G091300.1 215 -DEKSQLLLGTRRA 227
                         .5666679888876 PP

2Auxin_resp124.47.8e-41252334183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaa+++s+F+++YnPras+seFv++++k++ka++++vs+GmRf+m+fete+s  rr++Gt++g+sdldpvrW+nS+Wr+L+
  Gorai.010G091300.1 252 AAHAAANNSPFTIFYNPRASPSEFVIPLAKFNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPVRWKNSQWRNLQ 334
                         79*******************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-44116255IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.6E-41118241IPR015300DNA-binding pseudobarrel domain
CDDcd100172.54E-19125218No hitNo description
PROSITE profilePS5086311.984126228IPR003340B3 DNA binding domain
SMARTSM010191.0E-22126228IPR003340B3 DNA binding domain
PfamPF023621.2E-20126227IPR003340B3 DNA binding domain
PfamPF065071.0E-35252334IPR010525Auxin response factor
PROSITE profilePS5174523.75510601153IPR000270PB1 domain
PfamPF023099.5E-910651146IPR033389AUX/IAA domain
SuperFamilySSF542771.42E-810771138No 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:0009734Biological Processauxin-activated signaling pathway
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: 1188 aa     Download sequence    Send to blast
MKAPPNGFMA NSAEGERKSI NSELWHACAG PLVSLPPVGS LVIYFPQGHS EQVAASMQKE  60
TDFIPSYPNL PSKLICMLHN VTLHADPETD EVYAQMTLQP VNKYDKEALL ASDIGLKQSR  120
QPAEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQELVAKD LHDNTWTFRH  180
IYRGQPKRHL LTTGWSVFVS TKRLFAGDSV LFIRDEKSQL LLGTRRANRQ QPALSSSVIS  240
SDSMHIGILA AAAHAAANNS PFTIFYNPRA SPSEFVIPLA KFNKAMYTQV SLGMRFRMMF  300
ETEESGVRRY MGTITGISDL DPVRWKNSQW RNLQVGWDES TAGERPSRVS IWDIEPVITP  360
FYICPPPFFR PRFPKQPGMP DDESDIENAF KRAMPWLGDD FGMKDAPSSI FPGLSLVQWM  420
SMQQNNQFPA AQSGFFPSMV SSNLLHNSLG TDDPAKLLNF QAPALPASNM QFNKANTNQI  480
NQLTQAPMTW PQQQQLQQLL QAPLNQQQQS LQQLQRQLPQ PPQQQPQPHL FHQQQPQPQP  540
QPQPQSQSQS QSQSQSQSQS QSQSQPQPQP ATATATATAT STAAAAAAAA ATTSKKTTDA  600
ITAAAATSIP PFSINNGIIA SNQISNQNLH QPAVYSQLQQ QQLMTSSSQS AQTTASANKT  660
SYPLTSLPQD TQIQQQMEQQ PNLMQRQLQQ TQLQQSQLQL LQQSLSQRTQ QQPQLLQLSQ  720
QGFSEQQLQL QLLQKLQQQQ QQQQQSSQQL LSPAGSLLQP QMLQQQPTHQ QSQPLQQLPL  780
SQSQSQPLGS NGFSTSMPVQ PQQVSVNQPQ IHKPFTAMRT HSGLTDGDAP SCSTSPSTNN  840
CQVSSLNFLN KNQQVPSLLV SDPLVEPAST LVQELQSKPD IRIKHELPTS KGPELSKYKS  900
TVTDQLEASS SGTSYCLDAG TNQHNFSLPT FLEGDLQSHS RNNLPFTANI DGLAPDTLLS  960
RGYDSQKDLQ NMLSNYGGNP RDIDAELSTP AISSQSFGVP NIPFKTGCSN DVAIGDTGVL  1020
NGGLWANQTQ RMRTYSKSYY TRLVCLYNFL LENSKCLVVV EIMKVQKRGS VGRSIDVTRY  1080
KGYDELRHDL ARMFGIEGQL EDPQSSDWKL VYVDHENDIL LVGDDPWEEF VSCVQSIKIL  1140
SSGEVQQMSL EGDLGNVAVP NQACSGTDSG NAWRGQYDDT SAASFNR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1731535545388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.11090.0flower|seedling| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO488062960.0
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A0D2U8Z80.0A0A0D2U8Z8_GOSRA; Auxin response factor (Fragment)
STRINGGorai.010G091300.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM26292665
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]