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.9NG141800.1.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 GRAS
Protein Properties Length: 622aa    MW: 65422.3 Da    PI: 4.7928
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG141800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS463.11.6e-1412396171374
                 GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl...fsev 87 
                          lv++Ll+cAeav+++++++a+al++++  las++g +m+++aayf eALa+r++r        ++p ++s  +  ++++a+ l   f+e 
  Pavir.9NG141800.1.p 239 LVHALLACAEAVQQENFTAAEALVKQIPMLASSQGGAMRKVAAYFGEALARRVYR--------FRPAPDS--SLLDAAFADLLhahFYES 318
                          689****************************************************........4444443..34444444433445**** PP

                 GRAS  88 sPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfe 177
                          +P+lkf+h+taNqaIlea++g++rvH++Df+i+qG+QWpaLlqaLa Rp+gpps+R+Tgvg+p+++++++l+++g++La+fA++++v+f+
  Pavir.9NG141800.1.p 319 CPYLKFAHFTANQAILEAFAGCRRVHVVDFGIKQGMQWPALLQALALRPGGPPSFRLTGVGPPQPDETDALQQVGWKLAQFAHTIRVDFQ 408
                          ****************************************************************************************** PP

                 GRAS 178 fnvlvakrledleleeLrvkp......gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerfleal 261
                          ++ lva +l+dle+ +L+ +        E++aVn+v++lhrll+++++le+    vL +v+ ++P++v+vveqea+hns sFl+rf+e+l
  Pavir.9NG141800.1.p 409 YRGLVAATLADLEPFMLQPDGedtddePEVIAVNSVFELHRLLAQPGALEK----VLGTVRAVRPRIVTVVEQEANHNSVSFLDRFTESL 494
                          *****************65544556689***********************....*********************************** PP

                 GRAS 262 eyysalfdsleak........lpres.eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllr 342
                          +yys++fdsle          +p+++  +++++++++lgr+i+nvvacegaer+erhetl++Wr+rl+ aGF+pv+l+++a+kqa++ll+
  Pavir.9NG141800.1.p 495 HYYSTMFDSLEGAgsgqsadaAPAAAgGTDQVMSEVYLGRQICNVVACEGAERTERHETLGQWRNRLGGAGFEPVHLGSNAYKQASTLLA 584
                          **********8776888888656555899************************************************************* PP

                 GRAS 343 kvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                           ++ +dgyrvee++g+l+lgW++rpL+++SaWr
  Pavir.9NG141800.1.p 585 LFAgGDGYRVEEKDGCLTLGWHTRPLIATSAWR 617
                          ********************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120411.9E-3535111IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011297.2E-3235117No hitNo description
PROSITE profilePS5098568.115213596IPR005202Transcription factor GRAS
PfamPF035145.5E-139239617IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009723Biological Processresponse to ethylene
GO:0009737Biological Processresponse to abscisic acid
GO:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0009938Biological Processnegative regulation of gibberellic acid mediated signaling pathway
GO:0010187Biological Processnegative regulation of seed germination
GO:0010218Biological Processresponse to far red light
GO:0042176Biological Processregulation of protein catabolic process
GO:0042538Biological Processhyperosmotic salinity response
GO:2000033Biological Processregulation of seed dormancy process
GO:2000377Biological Processregulation of reactive oxygen species metabolic process
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 622 aa     Download sequence    Send to blast
MKREYQDAGG SGGDMGSSKD KMMAAAAGEQ DEEVDELLAA LGYKVRSSDM ADVAQKLEQL  60
EMAMGMGGVG GAATAVDDGF VSHLATDTVH YNPSDLSSWV ESMLSELNAP PPPLPTAPPA  120
PRLASTSSTV TGGAAAGGGY FDLPPAVDSS SSTYALKPIP SPVAASADPS TDSTREPKRM  180
RTGGGSTSSS SSSSSSLDGG RTRSSVVEAA PPATQASAAA NAPAVPVVVV DTQEAGIRLV  240
HALLACAEAV QQENFTAAEA LVKQIPMLAS SQGGAMRKVA AYFGEALARR VYRFRPAPDS  300
SLLDAAFADL LHAHFYESCP YLKFAHFTAN QAILEAFAGC RRVHVVDFGI KQGMQWPALL  360
QALALRPGGP PSFRLTGVGP PQPDETDALQ QVGWKLAQFA HTIRVDFQYR GLVAATLADL  420
EPFMLQPDGE DTDDEPEVIA VNSVFELHRL LAQPGALEKV LGTVRAVRPR IVTVVEQEAN  480
HNSVSFLDRF TESLHYYSTM FDSLEGAGSG QSADAAPAAA GGTDQVMSEV YLGRQICNVV  540
ACEGAERTER HETLGQWRNR LGGAGFEPVH LGSNAYKQAS TLLALFAGGD GYRVEEKDGC  600
LTLGWHTRPL IATSAWRVAA P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-5924661626378Protein SCARECROW
5b3h_A1e-5924661625377Protein SCARECROW
5b3h_D1e-5924661625377Protein SCARECROW
5hyz_A9e-602396174375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.20220.0callus| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Upon GA application, it is degraded by the proteasome, allowing the GA signaling pathway.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00611ChIP-seqTransfer from AT2G01570Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG141800.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ2425300.0AJ242530.1 Zea mays partial d8 gene for gibberellin response modulator.
GenBankBT0542620.0BT054262.1 Zea mays full-length cDNA clone ZM_BFb0203D23 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025795582.10.0DELLA protein DWARF8
SwissprotQ9ST480.0DWRF8_MAIZE; DELLA protein DWARF8
TrEMBLA0A2T8I1120.0A0A2T8I112_9POAL; Uncharacterized protein
STRINGPavir.Ia00840.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP99838138
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14920.10.0GRAS family protein
Publications ? help Back to Top
  1. Tenaillon MI, et al.
    Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp. mays L.).
    Proc. Natl. Acad. Sci. U.S.A., 2001. 98(16): p. 9161-6
    [PMID:11470895]