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.J371200.1.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 MIKC_MADS
Protein Properties Length: 247aa    MW: 28158.2 Da    PI: 9.6376
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J371200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.82.2e-31959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       krienk+nrqvtfskRr g+lKKA+E+SvLCdaeva+iifs++gklyey++
  Pavir.J371200.1.p  9 KRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIIFSTKGKLYEYAT 59
                       79***********************************************86 PP
2K-box1081.1e-3577171397
              K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                        ++  +s+e++++ ++++e++kLk+++e++q+ q+hl+GedLe+L+lkeLqqLeqqLe+slk+iRs+K++l++e+i+elq+kek+lqeenk L
  Pavir.J371200.1.p  77 EKVLVSAESETQGNWCHEYTKLKAKVETIQKCQKHLMGEDLETLNLKELQQLEQQLESSLKHIRSRKSQLMMESISELQRKEKSLQEENKIL 168
                        5666778899999******************************************************************************* PP

              K-box  95 rkk 97 
                        +k+
  Pavir.J371200.1.p 169 QKE 171
                        997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.067161IPR002100Transcription factor, MADS-box
SMARTSM004325.2E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.4E-34289IPR002100Transcription factor, MADS-box
CDDcd002654.87E-42276No hitNo description
PRINTSPR004044.2E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-323859IPR002100Transcription factor, MADS-box
PfamPF014865.1E-3184171IPR002487Transcription factor, K-box
PROSITE profilePS5129717.65788183IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 247 aa     Download sequence    Send to blast
MGRGKVQLKR IENKINRQVT FSKRRSGLLK KAHEISVLCD AEVALIIFST KGKLYEYATD  60
TCMDKILERY ERYSYAEKVL VSAESETQGN WCHEYTKLKA KVETIQKCQK HLMGEDLETL  120
NLKELQQLEQ QLESSLKHIR SRKSQLMMES ISELQRKEKS LQEENKILQK EPAEKQKAQR  180
QQAQWDQNQQ QTSSSSSSFM MREAPPATNI SSYPVPVAAG GRVERAAAQP QALIGLPAWM  240
LSHISS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A3e-24174173MEF2 CHIMERA
6byy_B3e-24174173MEF2 CHIMERA
6byy_C3e-24174173MEF2 CHIMERA
6byy_D3e-24174173MEF2 CHIMERA
6bz1_A3e-24174173MEF2 CHIMERA
6bz1_B3e-24174173MEF2 CHIMERA
6bz1_C3e-24174173MEF2 CHIMERA
6bz1_D3e-24174173MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.174670.0leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at early stage of flower development in the spikelet (rice flower) apical meristem and later in developing stamens, pistil primordia and differentiated anthers.
UniprotTISSUE SPECIFICITY: Highly expressed in sterile lemmas, at intermediate levels in stamens, and weakly in lemmas, paleas and carpels. {ECO:0000269|PubMed:10444103}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. May be involved in the control of flowering time. {ECO:0000269|Ref.9}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J371200.1.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
GenBankAJ4306410.0AJ430641.1 Zea mays mRNA for putative MADS-domain transcription factor (m4 gene).
GenBankBT0856810.0BT085681.1 Zea mays full-length cDNA clone ZM_BFc0047E01 mRNA, complete cds.
GenBankKJ7275090.0KJ727509.1 Zea mays clone pUT5368 MADS transcription factor (MADS4) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004981740.11e-150MADS-box transcription factor 14 isoform X1
SwissprotQ10CQ11e-133MAD14_ORYSJ; MADS-box transcription factor 14
TrEMBLA0A1L5YF890.0A0A1L5YF89_PANVG; APL2
STRINGPavir.J03093.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP115137113
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.13e-76MIKC_MADS family protein
Publications ? help Back to Top
  1. Jia H, et al.
    Characterization and transcriptional profiles of two rice MADS-box genes.
    Plant Sci., 2000. 155(2): p. 115-122
    [PMID:10814814]
  2. Jang S,An K,Lee S,An G
    Characterization of tobacco MADS-box genes involved in floral initiation.
    Plant Cell Physiol., 2002. 43(2): p. 230-8
    [PMID:11867703]
  3. Kim SL,Lee S,Kim HJ,Nam HG,An G
    OsMADS51 is a short-day flowering promoter that functions upstream of Ehd1, OsMADS14, and Hd3a.
    Plant Physiol., 2007. 145(4): p. 1484-94
    [PMID:17951465]
  4. Li D, et al.
    Functional characterization of rice OsDof12.
    Planta, 2009. 229(6): p. 1159-69
    [PMID:19198875]
  5. Tanaka N, et al.
    The COP1 ortholog PPS regulates the juvenile-adult and vegetative-reproductive phase changes in rice.
    Plant Cell, 2011. 23(6): p. 2143-54
    [PMID:21705640]
  6. Kobayashi K, et al.
    Inflorescence meristem identity in rice is specified by overlapping functions of three AP1/FUL-like MADS box genes and PAP2, a SEPALLATA MADS box gene.
    Plant Cell, 2012. 24(5): p. 1848-59
    [PMID:22570445]
  7. Wei X, et al.
    Fine mapping of BH1, a gene controlling lemma and palea development in rice.
    Plant Cell Rep., 2013. 32(9): p. 1455-63
    [PMID:23689259]
  8. Su L,Shan JX,Gao JP,Lin HX
    OsHAL3, a Blue Light-Responsive Protein, Interacts with the Floral Regulator Hd1 to Activate Flowering in Rice.
    Mol Plant, 2016. 9(2): p. 233-244
    [PMID:26537047]
  9. Wu F, et al.
    The ABCs of flower development: mutational analysis of AP1/FUL-like genes in rice provides evidence for a homeotic (A)-function in grasses.
    Plant J., 2017. 89(2): p. 310-324
    [PMID:27689766]