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.5KG766900.1.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 SRS
Protein Properties Length: 350aa    MW: 35866.5 Da    PI: 7.8353
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG766900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702223.73.7e-691122782154
               DUF702   2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa......aeaaskrkrelkskkqsa 85 
                          +sg+++CqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpaa+rrerqq +a+ s++++ ++      a++ask++r    ++q++
  Pavir.5KG766900.1.p 112 GSGATTCQDCGNQAKKDCGHNRCRTCCKSRGFDCSTHVKSTWVPAARRRERQQLAASGSASSSPATasasaaAASASKKPR--LLSSQTT 199
                          57889**********************************************999887655443332345543444455555..5699999 PP

               DUF702  86 lsstklssaeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                          +s+t++s+a+++++++t+s          lP++v+++avf+cvrv+s++dge+e+aYq+ v+i+Gh+fkG+LydqG+++
  Pavir.5KG766900.1.p 200 TSHTSTSNATTPRSFDTTSshqdalfrdsLPRQVRAPAVFKCVRVTSIEDGEDEYAYQAMVTINGHLFKGFLYDQGPDD 278
                          9***************9999*********************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051427.2E-64115277IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016237.8E-27117159IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016241.5E-27229276IPR006511Lateral Root Primordium type 1, C-terminal
Sequence ? help Back to Top
Protein Sequence    Length: 350 aa     Download sequence    Send to blast
MRQAAALNYG MPDVGMFVVA PAASFHHTHH HHHHHDAAAD PIFPLLSGGP CVLDPDAAKS  60
ASGAPPASSA IQFWQPQSPS SAAGANPNPS ATPFAYIKKP LPMLDAAAGS SGSGATTCQD  120
CGNQAKKDCG HNRCRTCCKS RGFDCSTHVK STWVPAARRR ERQQLAASGS ASSSPATASA  180
SAAAASASKK PRLLSSQTTT SHTSTSNATT PRSFDTTSSH QDALFRDSLP RQVRAPAVFK  240
CVRVTSIEDG EDEYAYQAMV TINGHLFKGF LYDQGPDDGR HAATSNEDSA AGVPNISELH  300
LGAASASGGA GGSGVREGGS SMVAPTELYG GGAGQHHILG GSSYGNTIN*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.177120.0root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269|PubMed:7647564}.
UniprotTISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269|PubMed:7647564}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269|PubMed:16740146, ECO:0000269|PubMed:18835563}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG766900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269|PubMed:18835563}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ8587810.0HQ858781.1 Zea mays clone UT1767 SRS transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818814.11e-173protein LATERAL ROOT PRIMORDIUM 1
SwissprotQ94CK99e-64LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBLA0A2S3HN061e-171A0A2S3HN06_9POAL; Uncharacterized protein
TrEMBLA0A2T7DBH91e-171A0A2T7DBH9_9POAL; Uncharacterized protein
TrEMBLA0A3L6SLU11e-171A0A3L6SLU1_PANMI; Protein LATERAL ROOT PRIMORDIUM 1
STRINGPavir.Ea03961.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP35793679
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12330.21e-47Lateral root primordium (LRP) protein-related
Publications ? help Back to Top
  1. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]