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.2NG102600.1.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: 430aa    MW: 46145.6 Da    PI: 8.4644
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG102600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP254.52.9e-17106155155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV++++++grW+++I+d      + k+++lg f+ta  Aa+a+++a+ k++g
  Pavir.2NG102600.1.p 106 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 155
                          78*******************......55************************998 PP
2AP242.81.3e-13198248155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpseng...krkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV+ +k  grW+A+       g    +k+++lg f+++ eAa+a+++a+ +++g
  Pavir.2NG102600.1.p 198 SKYRGVTLHK-CGRWEAR---M---GqllGKKYIYLGLFDSEIEAARAYDRAAIRFNG 248
                          89********.7******...5...334336**********99**********99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.9E-9106155IPR001471AP2/ERF domain
SuperFamilySSF541718.5E-16106164IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.105.2E-17107163IPR001471AP2/ERF domain
CDDcd000189.09E-11107162No hitNo description
PROSITE profilePS5103217.754107163IPR001471AP2/ERF domain
SMARTSM003801.8E-30107169IPR001471AP2/ERF domain
PfamPF008473.0E-9198248IPR001471AP2/ERF domain
SuperFamilySSF541714.58E-17198257IPR016177DNA-binding domain
CDDcd000181.42E-25198258No hitNo description
Gene3DG3DSA:3.30.730.104.0E-16199257IPR001471AP2/ERF domain
PROSITE profilePS5103216.081199256IPR001471AP2/ERF domain
SMARTSM003801.2E-32199262IPR001471AP2/ERF domain
PRINTSPR003671.4E-6200211IPR001471AP2/ERF domain
PRINTSPR003671.4E-6238258IPR001471AP2/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: 430 aa     Download sequence    Send to blast
MVLDLNAADS PTPGSASATS SSSGFFRFDL LGGSPDEEGC SHSPPVVTRQ LFPSPHPDAV  60
ASPPPEAAGP LARRAADLRG PTAAVAAPSS PAAGKKSRRG PRSRSSQYRG VTFYRRTGRW  120
ESHIWDCGKQ VYLGGFDTAH AAARAYDRAA IKFRGLDADI NFHLKDYEAD LKQMKNWTKE  180
EFVHILRRQS TGFARGSSKY RGVTLHKCGR WEARMGQLLG KKYIYLGLFD SEIEAARAYD  240
RAAIRFNGPD AVTNFDSSSY DGDVPLPPEI EKDVVDADIL DLNLRISQPN VHDPKSDGIL  300
TGFGVNCNSP EASSSIVSQP ISPQWLAHPH STLVPPQQPH LYASPSPGFF VNLREAPPDT  360
EKRPEPGPGP GPGPQASFLP WAWQMQGSPA PLLPATAASS GFSAAGAPPP SGPRPFAGCH  420
HQLRFPPTA*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First detected in the boundary region of the shoot apical meristem (SAM) and the surrounding sheath. Expressed at low levels in vegetative organs, mostly in the sheaths. In inflorescence tissues, observed in the branch meristem and spikelet meristem regions, as well as in their vasculature and surrounding sheath (PubMed:17144896). Accumulates in incipient rudimentary- and empty-glume primordia (PubMed:22003982). Highly abundant in young developing panicles, but becomes later present at low levels in developing panicles and seeds. Found primarily in the boundary region of glume primordia (PubMed:17144896). {ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:22003982}.
UniprotTISSUE SPECIFICITY: Highly expressed in seedlings and developing panicles (PubMed:17144896, PubMed:20017947, PubMed:22003982). Mostly expressed in newly emerging spikelet meristems and, at low levels, in shoots, roots, panicles, mature spikelets and sheaths (PubMed:17144896). {ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:20017947, ECO:0000269|PubMed:22003982}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor (By similarity). Involved in spikelet transition (Probable). Together with IDS1, controls synergistically inflorescence architecture and floral meristem establishment via the regulation of spatio-temporal expression of B- and E-function floral organ identity genes in the lodicules and of spikelet meristem genes (PubMed:22003982). Prevents lemma and palea elongation as well as grain growth (PubMed:28066457). Regulates the transition from spikelet meristem to floral meristem, spikelet meristem determinancy and the floral organ development (PubMed:17144896). {ECO:0000250|UniProtKB:P47927, ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:22003982, ECO:0000269|PubMed:28066457, ECO:0000305|PubMed:26631749}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG102600.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Target of miR172 microRNA mediated cleavage, particularly during floral organ development. {ECO:0000269|PubMed:20017947, ECO:0000269|PubMed:22003982, ECO:0000305|PubMed:26631749, ECO:0000305|PubMed:28066457}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0882490.0BT088249.1 Zea mays full-length cDNA clone ZM_BFc0098F06 mRNA, complete cds.
GenBankEU9741860.0EU974186.1 Zea mays clone 442332 floral homeotic protein mRNA, complete cds.
GenBankFJ6866970.0FJ686697.1 Zea mays sister of indeterminate spikelet 1 (sid1) mRNA, partial cds.
GenBankKJ7269390.0KJ726939.1 Zea mays clone pUT3485 AP2-EREBP transcription factor (EREB121) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025804503.10.0floral homeotic protein APETALA 2-like isoform X2
SwissprotQ8H4430.0AP23_ORYSJ; APETALA2-like protein 3
TrEMBLA0A1E5V8N50.0A0A1E5V8N5_9POAL; Floral homeotic protein APETALA 2
STRINGPavir.Ba03394.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP24483890
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28550.32e-89related to AP2.7
Publications ? help Back to Top
  1. Lee DY,An G
    Two AP2 family genes, supernumerary bract (SNB) and Osindeterminate spikelet 1 (OsIDS1), synergistically control inflorescence architecture and floral meristem establishment in rice.
    Plant J., 2012. 69(3): p. 445-61
    [PMID:22003982]
  2. Wang L, et al.
    Coordinated regulation of vegetative and reproductive branching in rice.
    Proc. Natl. Acad. Sci. U.S.A., 2015. 112(50): p. 15504-9
    [PMID:26631749]
  3. Dai Z,Wang J,Zhu M,Miao X,Shi Z
    OsMADS1 Represses microRNA172 in Elongation of Palea/Lemma Development in Rice.
    Front Plant Sci, 2016. 7: p. 1891
    [PMID:28066457]