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.9KG371000.1.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: 704aa    MW: 75462.7 Da    PI: 8.0323
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG371000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS290.15.8e-8930470215374
                 GRAS  15 gdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl.fsevsPilkfshltaNqaIl 103
                          +  +++q+l++ l+elasp+gd  q+la+yf+++L arl++s++++ ++l++ ++++  s e++  + l f+e+sP+  f+h++aN aIl
  Pavir.9KG371000.1.p 304 EVSQRVQQLMWMLNELASPYGDVDQKLASYFLQGLFARLTSSGPRTLRTLAAASDRN-ASFESTRRTALkFQELSPWASFGHVAANGAIL 392
                          55789*********************************************9888874.444444444446******************** PP

                 GRAS 104 eavege............ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg....skeeleetgerLakfAeelgvpf 176
                          ea+ ++             r+Hi+D++ + ++QWp+Ll+aLa+R+ +++p+l iT+v+++++      ++ ++e+ +rL+kfA+ +gvpf
  Pavir.9KG371000.1.p 393 EAFLEAaaaaasssssqpPRLHILDLSNTFCTQWPTLLEALATRSsDDTPHLSITTVVPAAAPasaaAQRVMREITQRLEKFARLMGVPF 482
                          **9776666677777777789************************8889********9976657888999******************** PP

                 GRAS 177 efnvlvak.rledleleeLrvkp...gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnse........... 251
                          +f+++++  +l++l+l+ L++++     alaVn+v +l  +   ++  +  rd+++  +++l+P+vv+vve++ad+  +           
  Pavir.9KG371000.1.p 483 SFRAVHHAgDLAELDLDGLDLREggaTTALAVNCVNALRGVA--PGGARR-RDAFVASLRRLEPRVVTVVEEDADLVPPdpgaastseea 569
                          ****97767**************888889************8..555555.9*********************999555578999999** PP

                 GRAS 252 ......sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaak 335
                                 F++ f e l+++sa +dsle+++p++s+er  +Er+  gr+iv++v+c  +e+ er+et ++W +r+++aGF+pv++s+++a+
  Pavir.9KG371000.1.p 570 gaddaaAFMKVFEEGLRFFSAYMDSLEESFPKASNERLALERA-AGRAIVDLVSCPASESAERRETGASWARRMRSAGFSPVAFSDDVAD 658
                          *******************************************.********************************************** PP

                 GRAS 336 qaklllrkvksdgyrveee......sgslvlgWkdrpLvsvSaWr 374
                          ++++llr++  +g++++e        + ++l Wk++p+v++SaWr
  Pavir.9KG371000.1.p 659 DVRSLLRRYR-EGWTLQEPgtddaaAAGVFLAWKEQPVVWTSAWR 702
                          *********9.99****7666666577788**************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098544.881264677IPR005202Transcription factor GRAS
PfamPF035142.0E-86304702IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 704 aa     Download sequence    Send to blast
MDTLFRLVSL HQHHHHPQAP SSPDQQQRHH QSPYNSRSTS RSTTSTGSRS SPGSHRTHNH  60
HYYPHSHYTS SSSYYYCDPA AGAGGYYYDH HQPAPYQQEC GSDHGGFYMD EDFSSSSSPS  120
RHFHHQPSSA APPASSPAPT PPPPPPPAPS SASAGGHAAL LEAADFSFPQ VDIDLDFGSP  180
AASSSGGSGA AAAGGAGRWA AQLLLECARA VAKISERHPR GRPARATRHH LGHQPRRAKI  240
TPSTLHALAG RNSLHRRASP SLPRLAARRG LTEGGEEGRR WRGVTLGRGK EGGGARRVAA  300
AGAEVSQRVQ QLMWMLNELA SPYGDVDQKL ASYFLQGLFA RLTSSGPRTL RTLAAASDRN  360
ASFESTRRTA LKFQELSPWA SFGHVAANGA ILEAFLEAAA AAASSSSSQP PRLHILDLSN  420
TFCTQWPTLL EALATRSSDD TPHLSITTVV PAAAPASAAA QRVMREITQR LEKFARLMGV  480
PFSFRAVHHA GDLAELDLDG LDLREGGATT ALAVNCVNAL RGVAPGGARR RDAFVASLRR  540
LEPRVVTVVE EDADLVPPDP GAASTSEEAG ADDAAAFMKV FEEGLRFFSA YMDSLEESFP  600
KASNERLALE RAAGRAIVDL VSCPASESAE RRETGASWAR RMRSAGFSPV AFSDDVADDV  660
RSLLRRYREG WTLQEPGTDD AAAAGVFLAW KEQPVVWTSA WRP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_B1e-15230870351420Protein SHORT-ROOT
5b3h_E1e-15230870351420Protein SHORT-ROOT
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In P3 leaf primordium, expressed ubiquitously in the L1 layer and in the inner cells at lower levels. Not limited to the developing stomata until the last cell divisions. {ECO:0000269|PubMed:12974810}.
UniprotTISSUE SPECIFICITY: Expressed in leaves and roots. Detected in the stele, the endodermis and part of the cortex. {ECO:0000269|PubMed:12974810, ECO:0000269|PubMed:17446396}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor required for the asymmetric cell division involved in radial pattern formation in roots. Essential for both cell division and cell specification. {ECO:0000269|PubMed:17446396}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG371000.1.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
GenBankKJ7270150.0KJ727015.1 Zea mays clone pUT3996 GRAS transcription factor (GRAS58) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796633.10.0protein SHORT-ROOT 2-like
SwissprotQ8H2X80.0SHR1_ORYSJ; Protein SHORT-ROOT 1
TrEMBLA0A2S3IPI40.0A0A2S3IPI4_9POAL; Uncharacterized protein
STRINGPavir.Ib01878.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP35263781
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37650.11e-131GRAS 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]