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.1NG539500.1.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 AP2
Protein Properties Length: 375aa    MW: 41635.1 Da    PI: 5.1054
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG539500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP249.21.3e-15290341155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr..krfslgkfgtaeeAakaaiaarkkleg 55 
                          s y+GV+++ k+grW A+I  +        + ++lg+f t+eeAa+a++ a+ +++g
  Pavir.1NG539500.1.p 290 SIYRGVTRRQKDGRWQARIGLV-----AgtRDIYLGTFKTEEEAAEAYDIAAIEIRG 341
                          57****************9995.....234************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.51E-17178257No hitNo description
SuperFamilySSF541712.09E-12178257IPR016177DNA-binding domain
PfamPF008474.8E-5179247IPR001471AP2/ERF domain
SMARTSM003808.7E-22179261IPR001471AP2/ERF domain
PROSITE profilePS5103216.818179255IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.7E-11179256IPR001471AP2/ERF domain
PfamPF008471.8E-9290341IPR001471AP2/ERF domain
SuperFamilySSF541712.09E-17290351IPR016177DNA-binding domain
CDDcd000181.11E-22290349No hitNo description
SMARTSM003802.2E-27291355IPR001471AP2/ERF domain
PROSITE profilePS5103218.571291349IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.9E-19291350IPR001471AP2/ERF domain
PRINTSPR003671.8E-5292303IPR001471AP2/ERF domain
PRINTSPR003671.8E-5331351IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 375 aa     Download sequence    Send to blast
MEESEEGVNL GKQMEEKAAR ESGDEGTIER SHSINLNTVP PVPVEARRTL ENGEIHGTGV  60
SGTKDSRTGE PEQPSDTDQK KLPKCEQVDY ESEVEGREKP ADEAALVTVV GNEGHAGYGD  120
DDERSQVLCI VKKDEPADEI GDSINPVPMT EAGCTEEKGA IVPSAGISAV RPAGSRSSSF  180
HGVTRHRWSG KYEAHLWDSS CRVEGRRRKG KQVYLGNYFF GKFYIGSYDA EEKAARAYDV  240
AALKYWGQNT RLNFPISLYE KELEDIRDLS REECVTYLRR RSSCFSRGAS IYRGVTRRQK  300
DGRWQARIGL VAGTRDIYLG TFKTEEEAAE AYDIAAIEIR GKNAVTNFDR SNYVDKGMHC  360
IEGEGLRLLM SKPE*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1204211GRRRKGKQ
2278299RRRSSCFSRGASIYRGVTRRQK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.124110.0callus| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Present in inflorescence meristem and later in young floral mersitems. Expressed in sepal, petal, stamen and carpel primordia. In petal, progressively confined to petal margin and epidermal cells. Restricted to sporogenous tissue in the stamen and to the medial ridge of the carpel. Present in tissues that develop from this ridge, such as placenta and ovule primordia. In ovules, first expressed in distal part of the funiculus and the outer integument, before being confined to the funiculus. {ECO:0000269|PubMed:15988559}.
UniprotTISSUE SPECIFICITY: Expressed in roots, seedlings, inflorescence, and siliques. Also detected at low levels in leaves. {ECO:0000269|PubMed:15988559}.
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Involved in the regulation of floral organs size. {ECO:0000250, ECO:0000269|PubMed:15988559}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG539500.1.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
GenBankEU9574601e-168EU957460.1 Zea mays clone 1593084 protein BABY BOOM 2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817227.10.0AP2-like ethylene-responsive transcription factor AIL1 isoform X1
SwissprotQ6PQQ33e-80AIL5_ARATH; AP2-like ethylene-responsive transcription factor AIL5
TrEMBLA0A2S3GT800.0A0A2S3GT80_9POAL; Uncharacterized protein
TrEMBLA0A2T7FCA60.0A0A2T7FCA6_9POAL; Uncharacterized protein
STRINGPavir.Aa00475.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP118882933
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G57390.16e-71AINTEGUMENTA-like 5
Publications ? help Back to Top
  1. Todd J,Post-Beittenmiller D,Jaworski JG
    KCS1 encodes a fatty acid elongase 3-ketoacyl-CoA synthase affecting wax biosynthesis in Arabidopsis thaliana.
    Plant J., 1999. 17(2): p. 119-30
    [PMID:10074711]
  2. Molitor AM,Bu Z,Yu Y,Shen WH
    Arabidopsis AL PHD-PRC1 complexes promote seed germination through H3K4me3-to-H3K27me3 chromatin state switch in repression of seed developmental genes.
    PLoS Genet., 2014. 10(1): p. e1004091
    [PMID:24465219]
  3. Feng J,Chen D,Berr A,Shen WH
    ZRF1 Chromatin Regulators Have Polycomb Silencing and Independent Roles in Development.
    Plant Physiol., 2016. 172(3): p. 1746-1759
    [PMID:27630184]
  4. Santuari L, et al.
    The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
    Plant Cell, 2016. 28(12): p. 2937-2951
    [PMID:27920338]
  5. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]