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.2NG178000.1.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: 451aa    MW: 48956.7 Da    PI: 11.247
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG178000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS2739.3e-845836321330
                 GRAS  21 qalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNqaIleavegee 110
                          q+lL ++ elasp g++ +R+aayf  AL ar+++s  + y+ l+ ++ +  +s +++ a+++++ +sP++kfsh+ aNqaI +a++ge+
  Pavir.2NG178000.1.p  58 QQLLPEIAELASPFGSSPERVAAYFGDALCARVLSSYLGAYSPLALRPLAAVQSRRVAGAFQAYNALSPLVKFSHFSANQAIQQALDGED 147
                          899*************************************************************************************** PP

                 GRAS 111 rvHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvl......vakrledleleeL 194
                           +H+iD+di+qGlQWp +++ LasRp++p slR+Tg+g+    s + le+tg+rLa+fA++lg+pfef+++      v       +  +L
  Pavir.2NG178000.1.p 148 YLHVIDLDIMQGLQWPGFFHILASRPRKPRSLRVTGLGA----SLDVLEATGRRLADFAASLGLPFEFQPIegkighV------ADAAAL 227
                          ***************************************....9**************************95544433......344444 PP

                 GRAS 195 .....rvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleak...lp 276
                               r k++Ea++V++++  h ++d ++s       +++l++sl+Pk++++veq++ h s++Fl rf+eal+yysalfd+l  +   ++
  Pavir.2NG178000.1.p 228 lsprhRQKQDEATVVHWMH--HCIYDVTGSDVG----TVRLLRSLRPKLITIVEQDLGH-SGDFLGRFMEALHYYSALFDALGDGagaAA 310
                          333336777**********..889988999999....**********************.899*******************55522245 PP

                 GRAS 277 reseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvpls 330
                          +es e + v r+llg ei+n+va+ g +r+ + + +e W + l++aGF+pv+ +
  Pavir.2NG178000.1.p 311 AESAEGHAVKRQLLGAEIRNIVAAGGPKRTGEVR-VEWWGDELRRAGFRPVSSR 363
                          566999**********************998887.9**************9865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098542.47812387IPR005202Transcription factor GRAS
PfamPF035143.2E-8158363IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 451 aa     Download sequence    Send to blast
MLSAVACPRA VGRAGRGVRA HAPATDAPAA AAMKAKRAPT SPDEEEDGEG RPARGKRQQL  60
LPEIAELASP FGSSPERVAA YFGDALCARV LSSYLGAYSP LALRPLAAVQ SRRVAGAFQA  120
YNALSPLVKF SHFSANQAIQ QALDGEDYLH VIDLDIMQGL QWPGFFHILA SRPRKPRSLR  180
VTGLGASLDV LEATGRRLAD FAASLGLPFE FQPIEGKIGH VADAAALLSP RHRQKQDEAT  240
VVHWMHHCIY DVTGSDVGTV RLLRSLRPKL ITIVEQDLGH SGDFLGRFME ALHYYSALFD  300
ALGDGAGAAA AESAEGHAVK RQLLGAEIRN IVAAGGPKRT GEVRVEWWGD ELRRAGFRPV  360
SSREPRRAGQ AAPRHVPVEG VLAGGGGRVP HRVGVGAGGR HRRTAESMEF RRGRRRSRRR  420
RWRRSRRRHS SSATRFDNDK LAKSIFTMAK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A1e-1195838638352Protein SCARECROW
5b3h_D1e-1195838638352Protein SCARECROW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1410418RRGRRRSRR
2413427RRRSRRRRWRRSRRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.48540.0callus| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, cotyledons, shoot apex, leaves and flowers.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG178000.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7269610.0KJ726961.1 Zea mays clone pUT3661 GRAS transcription factor (GRAS54) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025801132.10.0scarecrow-like protein 23
SwissprotQ9FHZ11e-128SCL23_ARATH; Scarecrow-like protein 23
TrEMBLA0A3L6QTZ50.0A0A3L6QTZ5_PANMI; Scarecrow-like protein 23
STRINGPavir.Ba00637.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP137138122
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G41920.11e-116GRAS family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Yoon EK, et al.
    Conservation and Diversification of the SHR-SCR-SCL23 Regulatory Network in the Development of the Functional Endodermis in Arabidopsis Shoots.
    Mol Plant, 2016. 9(8): p. 1197-1209
    [PMID:27353361]