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.9NG097300.1.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: 245aa    MW: 28001.1 Da    PI: 9.7696
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG097300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.61.3e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+nrqvtfskRr+g+lKKA+E+SvLCdaeva+iifs++gklyey++
  Pavir.9NG097300.1.p  9 KRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALIIFSTKGKLYEYAT 59
                         79***********************************************86 PP
2K-box104.81e-34781744100
                K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                          +   s+e++++ ++++e++ Lk+++e++q+ q+hl+GedLe+L+lkeLqqLeqqLe+slk+iRs+K++l++e+i+elq+kek+lqeenk 
  Pavir.9NG097300.1.p  78 KVLISAESETQGNWCHEYRMLKAKVETIQKCQKHLMGEDLETLNLKELQQLEQQLESSLKHIRSRKSQLMMESISELQRKEKSLQEENKI 167
                          555667888999****************************************************************************** PP

                K-box  94 Lrkklee 100
                          L+k+l+e
  Pavir.9NG097300.1.p 168 LQKELAE 174
                          ***9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.1E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.969161IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.66E-34289IPR002100Transcription factor, MADS-box
CDDcd002652.10E-42276No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-32323IPR002100Transcription factor, MADS-box
PfamPF003191.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-323859IPR002100Transcription factor, MADS-box
PfamPF014866.6E-3084172IPR002487Transcription factor, K-box
PROSITE profilePS5129717.87488178IPR002487Transcription 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: 245 aa     Download sequence    Send to blast
MGRGKVQLKR IENKINRQVT FSKRRAGLLK KAHEISVLCD AEVALIIFST KGKLYEYATD  60
TSMDKILERY ERYSYAEKVL ISAESETQGN WCHEYRMLKA KVETIQKCQK HLMGEDLETL  120
NLKELQQLEQ QLESSLKHIR SRKSQLMMES ISELQRKEKS LQEENKILQK ELAEKQKAQR  180
QQAQWDQTQQ QTSSSSSSFM MREAPPATNI SSYPVAAGGR VEGPAAQPQA RIGLPPWMLS  240
HISS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A6e-25174173MEF2 CHIMERA
6byy_B6e-25174173MEF2 CHIMERA
6byy_C6e-25174173MEF2 CHIMERA
6byy_D6e-25174173MEF2 CHIMERA
6bz1_A6e-25174173MEF2 CHIMERA
6bz1_B6e-25174173MEF2 CHIMERA
6bz1_C6e-25174173MEF2 CHIMERA
6bz1_D6e-25174173MEF2 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.9NG097300.1.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-151MADS-box transcription factor 14 isoform X1
SwissprotQ10CQ11e-137MAD14_ORYSJ; MADS-box transcription factor 14
TrEMBLA0A368SEI91e-149A0A368SEI9_SETIT; Uncharacterized protein
STRINGPavir.Ia00530.1.p1e-180(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
AT1G69120.14e-75MIKC_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]