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.7KG421100.2.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: 363aa    MW: 39101.6 Da    PI: 7.6448
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG421100.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP223.71.2e-0727601755
                  AP2 17 AeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55
                         +++rd      + k+++lg f+ta  Aa+a+++a+ k++g
  Pavir.7KG421100.2.p 27 VQCRD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 60
                         79999......55************************997 PP
2AP246.87.2e-15103153155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV+ +k  grW+A+   +     +k+++lg f+t+eeAa+a+++a+ k +g
  Pavir.7KG421100.2.p 103 SKYRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 153
                          89********.7******5553..2.26**********************99776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5103211.206168IPR001471AP2/ERF domain
SMARTSM003806.1E-122274IPR001471AP2/ERF domain
SuperFamilySSF541713.73E-93269IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.7E-113368IPR001471AP2/ERF domain
PfamPF008477.3E-11103153IPR001471AP2/ERF domain
SuperFamilySSF541711.37E-18103163IPR016177DNA-binding domain
CDDcd000185.86E-26103163No hitNo description
Gene3DG3DSA:3.30.730.101.9E-17104161IPR001471AP2/ERF domain
SMARTSM003801.2E-33104167IPR001471AP2/ERF domain
PROSITE profilePS5103216.489104161IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010073Biological Processmeristem maintenance
GO:0010093Biological Processspecification of floral organ identity
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 363 aa     Download sequence    Send to blast
MPCSFSHRRL LSLSVLSLSS PPCFLFVQCR DCGKQVYLGG FDTAHAAARA YDRAAIKFRG  60
VEADINFSLE DYDDDMKQMG NLSKEEFVHV LRRQSTGFPR GSSKYRGVTL HKCGRWEARM  120
GQFLGKKYVY LGLFDTEEEA ARAYDRAAIK CNGKDAVTNF DPSIYAEEIE PAAAKGGDEH  180
NLDLSLGSSA GSKRGSLDGG DDETSDQRVP MAFDLDWQTA AARSTKAKFD ASSKQPQMPP  240
PPPPAFQAGH HLAFDPRQHQ QFLGNGADPG TAGGLSLAIG GAGGGHWPPH LQQQQQQQQR  300
LLHGWGIGGG TSWPLPPHPP PPTNAAAATA AAASSRFPPY VTTQGPPSWA QQNGFHSLAR  360
PT*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.230140.0root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In developing panicles, highly expressed in the spikelet abscission zone (AZ) and the inner floral organs of 2 mm long spikelets. Later present at weak levels in the apiculus as well as in the palea and lemma to progressively fades out in 8 mm long spikelets. {ECO:0000269|PubMed:22408071}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, leaves, stems, nodes, sheaths, panicles and young spikelets. Accumulates in the spikelet abscission zone (AZ) via a positive regulation by the transcription factor SH4. {ECO:0000269|PubMed:22408071}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor (PubMed:22408071). Involved in spikelet transition and development (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269|PubMed:22408071}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7KG421100.2.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
GenBankBT0561880.0BT056188.1 Zea mays full-length cDNA clone ZM_BFb0070P06 mRNA, complete cds.
GenBankBT0626960.0BT062696.1 Zea mays full-length cDNA clone ZM_BFb0334I17 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025824499.10.0AP2-like ethylene-responsive transcription factor TOE3 isoform X2
SwissprotB8AVJ91e-150APL25_ORYSI; APETALA2-like protein 5
TrEMBLA0A2T7D0V31e-180A0A2T7D0V3_9POAL; Uncharacterized protein
TrEMBLA0A2T8IE451e-180A0A2T8IE45_9POAL; Uncharacterized protein
STRINGPavir.J06508.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36920.28e-79AP2 family protein
Publications ? help Back to Top
  1. Zhou Y, et al.
    Genetic control of seed shattering in rice by the APETALA2 transcription factor shattering abortion1.
    Plant Cell, 2012. 24(3): p. 1034-48
    [PMID:22408071]