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.7KG421100.1.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: 462aa    MW: 48787.7 Da    PI: 7.0459
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG421100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP253.65.7e-17110159155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV++++++grW+++I+d      + k+++lg f+ta  Aa+a+++a+ k++g
  Pavir.7KG421100.1.p 110 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 159
                          78*******************......55************************997 PP
2AP246.31e-14202252155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+y+GV+ +k  grW+A+   +     +k+++lg f+t+eeAa+a+++a+ k +g
  Pavir.7KG421100.1.p 202 SKYRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 252
                          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
SuperFamilySSF541719.81E-16110168IPR016177DNA-binding domain
PfamPF008475.2E-9110159IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.104.2E-17111167IPR001471AP2/ERF domain
SMARTSM003801.1E-31111173IPR001471AP2/ERF domain
PROSITE profilePS5103217.701111167IPR001471AP2/ERF domain
PfamPF008471.0E-10202252IPR001471AP2/ERF domain
SuperFamilySSF541711.96E-18202262IPR016177DNA-binding domain
CDDcd000187.22E-25202262No hitNo description
PROSITE profilePS5103216.489203260IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.7E-17203260IPR001471AP2/ERF domain
SMARTSM003801.2E-33203266IPR001471AP2/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: 462 aa     Download sequence    Send to blast
MWDLNDSPAA EATPPSPSAD DSGASSSSAA AHVDIPDDAD DDSAADAVVT RQFFPAPAPA  60
AAAGPRGGWL RLSAAAPPPA AAANGATPAG PAGASAASKK SRRGPRSRSS QYRGVTFYRR  120
TGRWESHIWD CGKQVYLGGF DTAHAAARAY DRAAIKFRGV EADINFSLED YDDDMKQMGN  180
LSKEEFVHVL RRQSTGFPRG SSKYRGVTLH KCGRWEARMG QFLGKKYVYL GLFDTEEEAA  240
RAYDRAAIKC NGKDAVTNFD PSIYAEEIEP AAAKGGDEHN LDLSLGSSAG SKRGSLDGGD  300
DETSDQRVPM AFDLDWQTAA ARSTKAKFDA SSKQPQMPPP PPPAFQAGHH LAFDPRQHQQ  360
FLGNGADPGT AGGLSLAIGG AGGGHWPPHL QQQQQQQQRL LHGWGIGGGT SWPLPPHPPP  420
PTNAAAATAA AASSRFPPYV TTQGPPSWAQ QNGFHSLARP T*
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.7KG421100.1.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
GenBankBT0561880.0BT056188.1 Zea mays full-length cDNA clone ZM_BFb0070P06 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-179APL25_ORYSI; APETALA2-like protein 5
TrEMBLA0A2T8IE450.0A0A2T8IE45_9POAL; Uncharacterized protein
STRINGPavir.J06508.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP55143658
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36920.23e-94AP2 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]