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.9KG536700.1.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: 554aa    MW: 60412 Da    PI: 6.9425
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG536700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2513.6e-16217276155
                  AP2   1 sgykGVrwdkkrgrWvAeIrd.pse.ng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV++++++gr++A+++d  +  +g  ++ ++++lg ++t+++Aa+a++ a++k++g
  Pavir.9KG536700.1.p 217 SRYRGVTRHRWTGRYEAHLWDnTCRkDGqtRKgRQVYLGGYDTEDKAARAYDLAALKYWG 276
                          79*******************755577788446**********99*************98 PP
2AP245.51.9e-14319370155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s y+GV+++++ grW ++I  +     +k  +lg+f t eeAa+a++ a+ k++g
  Pavir.9KG536700.1.p 319 SIYRGVTRHHQHGRWQSRIGRVAG---NKDLYLGTFTTQEEAAEAYDIAAIKFRG 370
                          57****************988532...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541716.54E-17217286IPR016177DNA-binding domain
CDDcd000185.91E-21217285No hitNo description
PfamPF008476.5E-13217276IPR001471AP2/ERF domain
SMARTSM003802.7E-28218290IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.109.3E-16218285IPR001471AP2/ERF domain
PROSITE profilePS5103219.638218284IPR001471AP2/ERF domain
PRINTSPR003673.7E-6219230IPR001471AP2/ERF domain
CDDcd000181.14E-23319380No hitNo description
SuperFamilySSF541714.32E-17319379IPR016177DNA-binding domain
PfamPF008471.1E-8319370IPR001471AP2/ERF domain
SMARTSM003801.8E-32320384IPR001471AP2/ERF domain
PROSITE profilePS5103218.624320378IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.109.6E-18320378IPR001471AP2/ERF domain
PRINTSPR003673.7E-6360380IPR001471AP2/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: 554 aa     Download sequence    Send to blast
MPAPYPGYYC VGGAYGDGTS SAGVYYSHLP SVPIKSDGSI CSIEGMMPPS PPKLEDFLGG  60
GNGNGGGQET ATYYSHQQQG QEEASRDYHQ YQHHQLDPYN FQPLTGAEML QEDAAPIDDV  120
EAMAAAKNFL MTSYGACYSN GETHPLSLSM MSPGSQSSSC VSAAPQQQLQ HHQMAAAQGC  180
SNGGGEQGVG RKRGSGKGGQ KQPVHRKSID TFGQRTSRYR GVTRHRWTGR YEAHLWDNTC  240
RKDGQTRKGR QVYLGGYDTE DKAARAYDLA ALKYWGPATH INFPVESYQD ELEEMKSMTR  300
QEFVAHLRRR SSGFSRGASI YRGVTRHHQH GRWQSRIGRV AGNKDLYLGT FTTQEEAAEA  360
YDIAAIKFRG LNAVTNFDIT RYDVDKIMES SNLLPVEEAR KVKAIEASSS VPMMHNDNGG  420
RELNLTEETS AVWRMVHHGS SQEAGHGPEA VDPRNSLHSI DGLDVSCVAH DHHLDVPAKS  480
GGVNFSNSSS LVTSLGNSRE GSPERLGLAM MYGKQQQPHA VSLAVMSPWM SMPVPAAQHV  540
VSHLPVFAAW ADA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.177800.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in floral primordia, in STM-negative region, then in sepal primordia. As sepal develops, progressively confined to a basal core before disappearing. Present in stamen primordia, then confined to a central region as they become stalked and develop locules. Later reduced to procambial cells as stamen mature. From petal primordia, expressed on the lateral edges of developing petals and finally confined to petal epidermis before disappearing. Present in carpel primordia, then in inner side of carpels especially in the placenta. Strong levels in ovules primordia and young ovules, then localized in integuments initiation zone before being confined to inner integument cells that will differentiate into the endothelium. Expressed in the distal half of the funiculus throughout ovule development and later extends into the chalaza. After fertilization, expression shift to the embryo. First on the apical part at the globular stage, then in cotyledons primordia, and later in cotyledons during the torpedo stage. As cotyledons grow out, expression becomes limited to a plane separating adaxial and abaxial parts. Excluded from the embryonic central region (ECR). In seedlings, found in leaf primordia then in central and lateral actively developing regions of extending leaves. {ECO:0000269|PubMed:10656774, ECO:0000269|PubMed:8742707, ECO:0000269|PubMed:9671577}.
UniprotTISSUE SPECIFICITY: Mostly expressed in developing flowers. Also present in mature flowers, siliques and seedlings, but not in mature roots, leaves and stems. Expressed in ovules and in vegetative and floral primordia. {ECO:0000269|PubMed:15988559, ECO:0000269|PubMed:8742706, ECO:0000269|PubMed:8742707}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that recognizes and binds to the DNA consensus sequence 5'-CAC[AG]N[AT]TNCCNANG-3'. Required for the initiation and growth of ovules integumenta, and for the development of female gametophyte. Plays a critical role in the development of gynoecium marginal tissues (e.g. stigma, style and septa), and in the fusion of carpels and of medial ridges leading to ovule primordia. Also involved in organs initiation and development, including floral organs. Maintains the meristematic competence of cells and consequently sustains expression of cell cycle regulators during organogenesis, thus controlling the final size of each organ by controlling their cell number. Regulates INO autoinduction and expression pattern. As ANT promotes petal cell identity and mediates down-regulation of AG in flower whorl 2, it functions as a class A homeotic gene. {ECO:0000269|PubMed:10528263, ECO:0000269|PubMed:10639184, ECO:0000269|PubMed:10948255, ECO:0000269|PubMed:11041883, ECO:0000269|PubMed:12183381, ECO:0000269|PubMed:12271029, ECO:0000269|PubMed:12655002, ECO:0000269|PubMed:8742706, ECO:0000269|PubMed:8742707, ECO:0000269|PubMed:9001406, ECO:0000269|PubMed:9093862, ECO:0000269|PubMed:9118807}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG536700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796858.10.0AP2-like ethylene-responsive transcription factor CRL5
SwissprotQ389141e-132ANT_ARATH; AP2-like ethylene-responsive transcription factor ANT
TrEMBLA0A3L6SCT80.0A0A3L6SCT8_PANMI; AP2-like ethylene-responsive transcription factor ANT
STRINGPavir.Ib00946.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP94838133
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37750.11e-106AP2 family protein
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Horstman A,Willemsen V,Boutilier K,Heidstra R
    AINTEGUMENTA-LIKE proteins: hubs in a plethora of networks.
    Trends Plant Sci., 2014. 19(3): p. 146-57
    [PMID:24280109]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Wynn AN,Seaman AA,Jones AL,Franks RG
    Novel functional roles for PERIANTHIA and SEUSS during floral organ identity specification, floral meristem termination, and gynoecial development.
    Front Plant Sci, 2014. 5: p. 130
    [PMID:24778638]
  5. Randall RS, et al.
    AINTEGUMENTA and the D-type cyclin CYCD3;1 regulate root secondary growth and respond to cytokinins.
    Biol Open, 2015. 4(10): p. 1229-36
    [PMID:26340943]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D
    AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis.
    Plant Physiol., 2016. 170(1): p. 283-93
    [PMID:26537561]
  8. Krizek BA, et al.
    RNA-Seq Links the Transcription Factors AINTEGUMENTA and AINTEGUMENTA-LIKE6 to Cell Wall Remodeling and Plant Defense Pathways.
    Plant Physiol., 2016. 171(3): p. 2069-84
    [PMID:27208279]
  9. Han H,Krizek BA
    AINTEGUMENTA-LIKE6 can functionally replace AINTEGUMENTA but alters Arabidopsis flower development when misexpressed at high levels.
    Plant Mol. Biol., 2016. 92(4-5): p. 597-612
    [PMID:27605095]
  10. Karpinska B,Alomrani SO,Foyer CH
    Inhibitor-induced oxidation of the nucleus and cytosol in Arabidopsis thaliana: implications for organelle to nucleus retrograde signalling.
    Philos. Trans. R. Soc. Lond., B, Biol. Sci., 2018.
    [PMID:28808105]
  11. Li B, et al.
    Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis.
    Plant Cell, 2018. 30(1): p. 178-195
    [PMID:29317470]