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.9NG226700.1.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 MYB
Protein Properties Length: 387aa    MW: 43378.2 Da    PI: 12.0181
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG226700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding52.11.5e-164390148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +g+WTt Ed  lvd v+++G g+W+++ r  g+ R++k+c++rw ++l
  Pavir.9NG226700.1.p 43 KGPWTTAEDAMLVDHVRRHGEGNWNAVQRLTGLLRCGKSCRLRWTNHL 90
                         79******************************99***********996 PP
2Myb_DNA-binding50.45.2e-1696139146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                          +g+++++E+ l++++++qlG++ W++ a++++ gRt++++k++w++
  Pavir.9NG226700.1.p  96 KGSFSPDEEILIAQLHAQLGNK-WARMAAHLP-GRTDNEIKNYWNT 139
                          799*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.3053890IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.0E-204193IPR009057Homeodomain-like
SuperFamilySSF466891.16E-2842137IPR009057Homeodomain-like
SMARTSM007172.1E-134292IPR001005SANT/Myb domain
PfamPF002494.4E-144390IPR001005SANT/Myb domain
CDDcd001674.93E-104590No hitNo description
PROSITE patternPS0017505867IPR001345Phosphoglycerate/bisphosphoglycerate mutase, active site
PROSITE profilePS5129422.51391145IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.5E-2494144IPR009057Homeodomain-like
SMARTSM007172.4E-1495143IPR001005SANT/Myb domain
PfamPF002495.8E-1596139IPR001005SANT/Myb domain
CDDcd001674.60E-1098139No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008152Biological Processmetabolic process
GO:0003677Molecular FunctionDNA binding
GO:0003824Molecular Functioncatalytic activity
Sequence ? help Back to Top
Protein Sequence    Length: 387 aa     Download sequence    Send to blast
MERSPGAALT SSPEEEEEKA ADGHGEEAVE QEDEEAAPVV LKKGPWTTAE DAMLVDHVRR  60
HGEGNWNAVQ RLTGLLRCGK SCRLRWTNHL RPNLKKGSFS PDEEILIAQL HAQLGNKWAR  120
MAAHLPGRTD NEIKNYWNTR TKRRQRAGLP VYPPEVQLQL ALAKRCRYDD FSPLASPQLP  180
GAANVQALDA ASTGYTSSRP APLDLARQLA ATSQTAVQFL PRRPSRHRRL RGRSRSRGTR  240
STSSSRTRRP CPRPRRPGRC TRPRRTSPSA TACAAPTRAG SRRSRRPLAP EWSSLQTNSA  300
RRCRRPRPPP PAAAQRCRII STRTRRAWRR CCRSCTTPSR STRHRWPRRT ETPSAMAAAL  360
SWSGMVAERT NWMASIGMTT WVRCST*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C2e-274114425127MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In germinating seeds, present in the root tip and in a linear array of up to 20 to 30 cells above the root tip. Weak expression in the vegetative shoot apex. High levels in primordial leaves. Strongly expressed in the inflorescence apex, and, to some extent, in the inflorescence stem, the vascular tissue, and the vascular tissue in leaf primordia. In the gynoecium, confined to ovules. In developing anthers detected in developing locules of immature anthers and later, at low levels, in pollen grains (PubMed:11743113). In flowers, expressed in sepals, style, receptacle, anther filaments, especially in young anthers, and connective but not in anthers themselves (PubMed:15722475). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15722475}.
UniprotTISSUE SPECIFICITY: Mostly expressed in stems, shoot apices, flowers and floral shoot tips, and, to a lower extent, in roots (e.g. root tips), seedlings, leaves and siliques. {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:24278028, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of alpha-amylase expression that binds to 5'-CAACTGTC-3' motif in target gene promoter (PubMed:11743113). Positive regulator of abscisic acid (ABA) responses leading to growth arrest during seed germination (PubMed:17217461). In vegetative tissues, inhibits growth by reducing cell proliferation. Promotes the expression of aleurone-related genes (e.g. CP1, CP, GASA1, BXL1 and BXL2) in seeds. Together with MYB65 and MYB101, promotes the programmed cell death (PCD) the vacuolation of protein storage vacuoles (PSVs) in the aleurone layers during seed germination (PubMed:20699403). Binds to a GARE site (GA-response element) in the LEAFY promoter, essential for its gibberellic acid (GA)-mediated induction (PubMed:15226253). Together with MYB65, facilitates anther and tapetum development (PubMed:15722475). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15226253, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:17217461, ECO:0000269|PubMed:20699403}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG226700.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates at the shoot apex upon the transition from short- to long-day photoperiods leading to flowering and after gibberellins (GAs) treatment (PubMed:11743113). Repressed by microRNA159 (miR159a and miR159b) in vegetative tissues (PubMed:15226253, PubMed:20699403, PubMed:17916625). Specific expression in floral organs and in the shoot apices is regulated via miR159-mediated degradation (PubMed:15722475). Repressed in germinating seeds by miR159-mediated cleavage in an abscisic acid (ABA) and ABI3-dependent manner, probably to desensitize hormone signaling during seedling stress responses (PubMed:17217461, PubMed:18305205). Slightly induced by ethylene and cytokinins (PubMed:9839469). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15226253, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:17217461, ECO:0000269|PubMed:17916625, ECO:0000269|PubMed:18305205, ECO:0000269|PubMed:20699403, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0425370.0BT042537.1 Zea mays full-length cDNA clone ZM_BFb0325G13 mRNA, complete cds.
GenBankKJ7275320.0KJ727532.1 Zea mays clone pUT5392 MYB transcription factor (MYB129) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025791606.11e-153transcription factor MYB101-like
SwissprotQ8W1W68e-66MYB33_ARATH; Transcription factor MYB33
TrEMBLA0A2S3IL201e-150A0A2S3IL20_9POAL; Uncharacterized protein
STRINGPavir.Ib03827.1.p1e-126(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP74203750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G32460.16e-68myb domain protein 101
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Allen RS, et al.
    Genetic analysis reveals functional redundancy and the major target genes of the Arabidopsis miR159 family.
    Proc. Natl. Acad. Sci. U.S.A., 2007. 104(41): p. 16371-6
    [PMID:17916625]
  3. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  4. Li J,Reichel M,Millar AA
    Determinants beyond both complementarity and cleavage govern microR159 efficacy in Arabidopsis.
    PLoS Genet., 2014. 10(3): p. e1004232
    [PMID:24626050]
  5. Li Y,Alonso-Peral M,Wong G,Wang MB,Millar AA
    Ubiquitous miR159 repression of MYB33/65 in Arabidopsis rosettes is robust and is not perturbed by a wide range of stresses.
    BMC Plant Biol., 2016. 16(1): p. 179
    [PMID:27542984]
  6. Liu B,De Storme N,Geelen D
    Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis.
    Plant Physiol., 2017. 173(1): p. 338-353
    [PMID:27621423]
  7. Zhang F, et al.
    Phosphorylation of CBP20 Links MicroRNA to Root Growth in the Ethylene Response.
    PLoS Genet., 2016. 12(11): p. e1006437
    [PMID:27870849]
  8. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]
  9. Guo C, et al.
    Repression of miR156 by miR159 Regulates the Timing of the Juvenile-to-Adult Transition in Arabidopsis.
    Plant Cell, 2017. 29(6): p. 1293-1304
    [PMID:28536099]
  10. Xue T,Liu Z,Dai X,Xiang F
    Primary root growth in Arabidopsis thaliana is inhibited by the miR159 mediated repression of MYB33, MYB65 and MYB101.
    Plant Sci., 2017. 262: p. 182-189
    [PMID:28716415]
  11. Medina C, et al.
    Characterization of microRNAs from Arabidopsis galls highlights a role for miR159 in the plant response to the root-knot nematode Meloidogyne incognita.
    New Phytol., 2017. 216(3): p. 882-896
    [PMID:28906559]
  12. Kim MH, et al.
    Poplar MYB transcription factor PtrMYB012 and its Arabidopsis AtGAMYB orthologs are differentially repressed by the Arabidopsis miR159 family.
    Tree Physiol., 2018. 38(6): p. 801-812
    [PMID:29301041]