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 Sevir.3G149200.4.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family ARF
Protein Properties Length: 578aa    MW: 64291.4 Da    PI: 9.1993
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.3G149200.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.47.6e-255106199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   
  Sevir.3G149200.4.p   5 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL-- 92 
                         99****************************963.3445679************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++v+r+
  Sevir.3G149200.4.p  93 RGDDGELRLGVRRA 106
                         3489999***9996 PP
2Auxin_resp111.67.5e-37131211182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +aha++tksvF+++YnPr s+seF+++++k++k++++++s+G Rfkm++e++d+ err++G+++g+s++dp  W++SkW++L
  Sevir.3G149200.4.p 131 VAHAVATKSVFHIYYNPRLSQSEFIIPYSKFMKSFSQPFSAGLRFKMRYESDDATERRYTGIIAGISEADP-MWRGSKWKCL 211
                         79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-402108IPR015300DNA-binding pseudobarrel domain
CDDcd100176.59E-233105No hitNo description
SuperFamilySSF1019365.49E-433121IPR015300DNA-binding pseudobarrel domain
PfamPF023629.4E-235106IPR003340B3 DNA binding domain
PROSITE profilePS5086313.4935107IPR003340B3 DNA binding domain
SMARTSM010195.3E-235107IPR003340B3 DNA binding domain
PfamPF065077.4E-31131211IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 578 aa     Download sequence    Send to blast
MPHMFCKTLT ASDTSTHGGF SVPRRAAEDC FPPLDYSQQR PSQELVAKDL HGTEWRFRHI  60
YRGQPRRHLL TTGWSAFVNK KKLVSGDAVL FLRGDDGELR LGVRRAAQLK NGSAFPALYN  120
QCSNLGSLAN VAHAVATKSV FHIYYNPRLS QSEFIIPYSK FMKSFSQPFS AGLRFKMRYE  180
SDDATERRYT GIIAGISEAD PMWRGSKWKC LMVRWDDDVD FRRPNRISPW EIELTSSVSG  240
SHLSAPNAKR LKPCLPHVNP DYLVPNGSGR PDFAESAQFH KVLQGQELLG YRTHDNAAVA  300
TSQPCEARNM QYIDERSCSN DASNSIPGVP RLGVRTPLGS PGFSYHCSGF GESQRFQKVL  360
QGQEVFRPYR GSLVDACLRN NAFHPQDGSH APSAVNKWHT QLHGCAFRGP QAPMLPSQSS  420
SPPSVLMFQR GNSKISRFEF GHGSLDKNED DRPAMFGHDG GIGGTEQSLM LQPHHDSGEV  480
RNRHVTVEKF HSTVVARKDG PDNREVNTNS CKIFGISLTE KVPANKEKDS GDVNYPSPFL  540
SLKQQVPKSL GNSCATVHEQ RPVVGRVIDV STMDMMI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-903241122361Auxin response factor 1
4ldw_A2e-903241122361Auxin response factor 1
4ldw_B2e-903241122361Auxin response factor 1
4ldx_A2e-903241122361Auxin response factor 1
4ldx_B2e-903241122361Auxin response factor 1
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00021PBMTransfer from AT2G33860Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.3G149200.4.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004961223.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A368QH030.0A0A368QH03_SETIT; Auxin response factor (Fragment)
STRINGSi021595m0.0(Setaria italica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-128ARF family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]