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 676753500
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family ARF
Protein Properties Length: 666aa    MW: 73508 Da    PI: 7.0574
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676753500genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.31.7e-24113214199
                EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g +W++++iyr++++r++lt+GW++Fv++++L +gD++vF+  + +++ l+
  676753500 113 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM--RAENGDLC 208
                89****************************985444444..8999*********************************************..4488999* PP

                EEEE-S CS
         B3  94 vkvfrk 99 
                v+++r+
  676753500 209 VGIRRA 214
                ***997 PP
2Auxin_resp113.71.7e-37272355183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                 aa+ a ++ +FevvY+PrastseF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
   676753500 272 AATLAISGRPFEVVYYPRASTSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVNVSDPIRWPNSPWRLLQ 355
                 67788899**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.7E-39105220IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.59E-30108216IPR015300DNA-binding pseudobarrel domain
CDDcd100171.70E-22111213No hitNo description
SMARTSM010197.1E-23113215IPR003340B3 DNA binding domain
PfamPF023621.8E-22113214IPR003340B3 DNA binding domain
PROSITE profilePS5086313.352113215IPR003340B3 DNA binding domain
PfamPF065072.7E-31272355IPR010525Auxin response factor
PROSITE profilePS5174517.697580660IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009733Biological Processresponse to auxin
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 666 aa     Download sequence    Send to blast
MKSGSEKGLD PQLWHACAGG MVRMPPMNSK VFYFPQGHAE NAYDCVDFGN LPIPPMVLCR  60
VLAIKYMADA ESDEVFAKLR LIPLKDDDFV DRQYGDGEDS NGFESNNEKT PSFAKTLTQS  120
DANNGGGFSV PRYCAETIFP RLDYNAEPPV QTILAKDVHG DVWKFRHIYR GTPRRHLLTT  180
GWSNFVNQKK LVAGDSIVFM RAENGDLCVG IRRAKRGGIG NGPEYSAGWN PIGGSCGYSS  240
LLREDESNTL RRSNCSLADR KGKVTAESVI EAATLAISGR PFEVVYYPRA STSEFCVKAL  300
DARAAMRIPW CSGMRFKMAF ETEDSSRISW FMGTVSAVNV SDPIRWPNSP WRLLQVAWDE  360
PDLLQNVKRV NPWLVELVTH VHPIPLTSFS PPRKKMRLPQ HPDYNNLINS IPVPSFPSNP  420
LIRSSPLSSV LDNVPVGLQG ARHNAHQYYG LSSSDLHHYY LNRPHPPPPP PSSTLPLSPP  480
LGLRNIDSRN EKGFCFLTMG TSPCNDTESK KSHIVLFGKL ILPEEQISEK GSTDTANIEK  540
TQISSGGSNQ NCVAGREVSS SDEGSPCSNK AHDASSGLET GHCKVFMESD DVGRTLDLSV  600
LGSYEELSRK LSDMFGIQKS EMLSSVLYRD ASGAIKYAGN EPFSDFLKTA RRLTILSEQG  660
SESVVI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-77237643388Auxin 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. {ECO:0000269|PubMed:12036261}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap676753500
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0597920.0AY059792.1 Arabidopsis thaliana putative transcription factor (At4g30080) mRNA, complete cds.
GenBankAY0911980.0AY091198.1 Arabidopsis thaliana putative transcription factor (At4g30080) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006412761.10.0auxin response factor 16
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLV4MCQ20.0V4MCQ2_EUTSA; Auxin response factor
STRINGXP_006412761.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  8. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]