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 Pavir.J359100.1.p
Organism
Panicum virgatum
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; Panicinae; Panicum
Family ARF
Protein Properties Length: 244aa    MW: 27399.1 Da    PI: 8.8935
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J359100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B379.14.6e-2533134199
                        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++F + ++L +gD v+F   
  Pavir.J359100.1.p  33 FCKTLTTSDTSTHGGFSVPRRAAEDCfppldyeQLRP--SQELIAKDLHGMKWRFRHIYRGQPRRHLLTTGWSSFINKKKLVSGDAVLFL-- 120
                        99****************************9866664..459************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        + s++el+++v+r+
  Pavir.J359100.1.p 121 RGSDGELRLGVRRA 134
                        449999*****996 PP
2Auxin_resp98.21.1e-32159240183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        +a++++++s+F++ +nPr+++seF+v++ k++k+l++++s+Gm+fk+  e+ed+++r+  G+++g+s++d++ Wp+SkWr+L+
  Pavir.J359100.1.p 159 VASSLDNRSIFHISFNPRTGASEFIVPYCKFLKSLNCPFSIGMKFKVGSENEDANQRS-CGLISGISEVDSIGWPGSKWRCLQ 240
                        578899**************************************************99.8**********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.46E-4423164IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.2E-3929136IPR015300DNA-binding pseudobarrel domain
CDDcd100172.17E-2131133No hitNo description
PfamPF023625.2E-2333134IPR003340B3 DNA binding domain
PROSITE profilePS5086313.18333135IPR003340B3 DNA binding domain
SMARTSM010191.5E-2333135IPR003340B3 DNA binding domain
PfamPF065074.9E-27160240IPR010525Auxin 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 244 aa     Download sequence    Send to blast
MFDQNTRDGE TEEKNCEMED GDGQKKLRTP HMFCKTLTTS DTSTHGGFSV PRRAAEDCFP  60
PLDYEQLRPS QELIAKDLHG MKWRFRHIYR GQPRRHLLTT GWSSFINKKK LVSGDAVLFL  120
RGSDGELRLG VRRAVQLKNE ALLEAVNSTD SKLRTLSAVA SSLDNRSIFH ISFNPRTGAS  180
EFIVPYCKFL KSLNCPFSIG MKFKVGSENE DANQRSCGLI SGISEVDSIG WPGSKWRCLQ  240
VSF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-7033243158370Auxin response factor 5
4ldy_A1e-70124391335Auxin response factor 1
4ldy_B1e-70124391335Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J359100.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0339890.0BT033989.1 Zea mays full-length cDNA clone ZM_BFc0044P12 mRNA, complete cds.
GenBankBT0648530.0BT064853.1 Zea mays full-length cDNA clone ZM_BFb0215K23 mRNA, complete cds.
GenBankBT0674270.0BT067427.1 Zea mays full-length cDNA clone ZM_BFc0041D22 mRNA, complete cds.
GenBankJX4285100.0JX428510.1 Zea mays subsp. mays clone pUT3108 ARF23 ARF type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807097.11e-162auxin response factor 14-like isoform X2
RefseqXP_025807099.11e-163auxin response factor 14-like isoform X4
SwissprotQ0DGS11e-127ARFN_ORYSJ; Auxin response factor 14
TrEMBLA0A2T7EBI21e-161A0A2T7EBI2_9POAL; Auxin response factor
TrEMBLA0A3L6STX81e-161A0A3L6STX8_PANMI; Auxin response factor
STRINGPavir.J17623.1.p1e-180(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-106ARF family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]