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 Glyma.U018000.1.p
Common NameGLYMA_U018000
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family MIKC_MADS
Protein Properties Length: 243aa    MW: 27490.4 Da    PI: 7.8468
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.U018000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.91.5e-29959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       kri+n s rqvtfskRr+g++KKA+ELS+LCdaevavi+fs+tgkl+e+ss
  Glyma.U018000.1.p  9 KRIDNASSRQVTFSKRRTGLFKKAQELSILCDAEVAVIVFSNTGKLFEFSS 59
                       79***********************************************96 PP
2K-box67.83.7e-238617214100
              K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                        +++ ++ ++ L++eie+L+++q +l+G+dL+ L lkeLq+LeqqL+++l +++++K+ell+eq+e+++ +e+++  en++Lr+++ee
  Glyma.U018000.1.p  86 QKEDSKMVEILREEIEKLETKQLQLVGKDLTGLGLKELQNLEQQLNEGLLSVKARKEELLMEQLEQSRVQEQRVMLENETLRRQIEE 172
                        5667778899**************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.408161IPR002100Transcription factor, MADS-box
SMARTSM004324.1E-42160IPR002100Transcription factor, MADS-box
CDDcd002658.10E-43275No hitNo description
SuperFamilySSF554551.44E-32274IPR002100Transcription factor, MADS-box
PRINTSPR004043.4E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.4E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.4E-293859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.92286176IPR002487Transcription factor, K-box
PfamPF014861.5E-1689170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010047Biological Processfruit dehiscence
GO:0010262Biological Processsomatic embryogenesis
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
GO:0060862Biological Processnegative regulation of floral organ abscission
GO:0060867Biological Processfruit abscission
GO:0071365Biological Processcellular response to auxin stimulus
GO:2000692Biological Processnegative regulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 243 aa     Download sequence    Send to blast
MGRGKIEIKR IDNASSRQVT FSKRRTGLFK KAQELSILCD AEVAVIVFSN TGKLFEFSSS  60
GMKRTLSRYN KCLGSTDAAV AEIMTQKEDS KMVEILREEI EKLETKQLQL VGKDLTGLGL  120
KELQNLEQQL NEGLLSVKAR KEELLMEQLE QSRVQEQRVM LENETLRRQI EELRCLFPQS  180
ESMVPFQYQH TERKNTFVNT GARCLNLANN CGNEKGSSDT AFHLGLPAGV QEEGPQERNL  240
FK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-21189193MEF2C
5f28_B2e-21189193MEF2C
5f28_C2e-21189193MEF2C
5f28_D2e-21189193MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the reproductive phase, accumulates in immature buds and at the base of the floral organs, and in the receptacle, ovules, anther filaments, and stigma and style of open flowers. Accumulates before fertilization in the cytoplasm in the cells of the egg apparatus and moves into the nucleus during early stages of development following fertilization in the suspensor, embryo, and endosperm, mainly double fertilization derived tissues (at protein level). Highly expressed in developing embryos. In young seedlings, present in the shoot and root apices, lateral root primordia and throughout the vascular system. {ECO:0000269|PubMed:10318690, ECO:0000269|PubMed:10662856, ECO:0000269|PubMed:15686521, ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:8953767}.
UniprotTISSUE SPECIFICITY: Expressed at low levels in flowers and siliques. Also present in seedlings. Detected during embryogenesis and accumulates during early seed development (at protein level). Expressed in shoot apices and the base of leaf petioles. {ECO:0000269|PubMed:10318690, ECO:0000269|PubMed:10662856, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:15686521, ECO:0000269|PubMed:16028119, ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:8953767}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Acts as both an activator and a repressor of transcription. Binds DNA in a sequence-specific manner in large CArG motif 5'-CC (A/T)8 GG-3'. Participates probably in the regulation of programs active during the early stages of embryo development. Prevents premature perianth senescence and abscission, fruits development and seed desiccation. Stimulates the expression of at least DTA4, LEC2, FUS3, ABI3, AT4G38680/CSP2 and GRP2B/CSP4. Can enhance somatic embryo development in vitro. {ECO:0000269|PubMed:10318690, ECO:0000269|PubMed:10662856, ECO:0000269|PubMed:12226488, ECO:0000269|PubMed:12743119, ECO:0000269|PubMed:14615187, ECO:0000269|PubMed:15084721, ECO:0000269|PubMed:15686521, ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:18305206, ECO:0000269|PubMed:19269998, ECO:0000269|PubMed:19767455, ECO:0000269|PubMed:8953767}.
Function -- GeneRIF ? help Back to Top
  1. a potential ortholog of AGL15 in soybean (GmAGL15) up-regulates ethylene biosynthesis and response.
    [PMID: 23457229]
  2. Transcription factors important for embryogenesis responded directly to GmAGL15 and to ethylene accumulation.
    [PMID: 23838957]
  3. Constitutive expression of soybean orthologs of the Arabidopsis (Arabidopsis thaliana) MADS box genes Agamous-like15 (GmAGL15) and GmAGL18 increased embryogenic competence of explants from these transgenic soybean plants.
    [PMID: 24481137]
  4. AGL15 negatively regulates auxin signaling in both Arabidopsis and soybean at many levels of the pathway.
    [PMID: 27794101]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00508DAPTransfer from AT5G13790Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.U018000.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin (2,4-D). Feedback loop leading to direct down-regulation by itself. {ECO:0000269|PubMed:15686521}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3706590.0AY370659.1 Glycine max AGL15 (AGL15) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001237033.21e-176AGL15 protein
RefseqXP_028191850.11e-176agamous-like MADS-box protein AGL15
SwissprotQ388478e-75AGL15_ARATH; Agamous-like MADS-box protein AGL15
TrEMBLA0A445I1Z01e-174A0A445I1Z0_GLYSO; Agamous-like MADS-box protein AGL15
STRINGGLYMA11G16105.11e-175(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF35823260
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G13790.11e-66AGAMOUS-like 15
Publications ? help Back to Top
  1. Thakare D,Tang W,Hill K,Perry SE
    The MADS-domain transcriptional regulator AGAMOUS-LIKE15 promotes somatic embryo development in Arabidopsis and soybean.
    Plant Physiol., 2008. 146(4): p. 1663-72
    [PMID:18305206]
  2. Zheng Q,Zheng Y,Perry SE
    AGAMOUS-Like15 promotes somatic embryogenesis in Arabidopsis and soybean in part by the control of ethylene biosynthesis and response.
    Plant Physiol., 2013. 161(4): p. 2113-27
    [PMID:23457229]
  3. Zheng Q,Zheng Y,Perry SE
    Decreased GmAGL15 expression and reduced ethylene synthesis may contribute to reduced somatic embryogenesis in a poorly embryogenic cultivar of Glycine max.
    Plant Signal Behav, 2014.
    [PMID:23838957]
  4. Zheng Q,Perry SE
    Alterations in the transcriptome of soybean in response to enhanced somatic embryogenesis promoted by orthologs of Agamous-like15 and Agamous-like18.
    Plant Physiol., 2014. 164(3): p. 1365-77
    [PMID:24481137]
  5. Perry SE,Zheng Q,Zheng Y
    Transcriptome analysis indicates that GmAGAMOUS-Like 15 may enhance somatic embryogenesis by promoting a dedifferentiated state.
    Plant Signal Behav, 2016. 11(7): p. e1197463
    [PMID:27302197]
  6. Cosio C, et al.
    The class III peroxidase PRX17 is a direct target of the MADS-box transcription factor AGAMOUS-LIKE15 (AGL15) and participates in lignified tissue formation.
    New Phytol., 2017. 213(1): p. 250-263
    [PMID:27513887]
  7. Zheng Q,Zheng Y,Ji H,Burnie W,Perry SE
    Gene Regulation by the AGL15 Transcription Factor Reveals Hormone Interactions in Somatic Embryogenesis.
    Plant Physiol., 2016. 172(4): p. 2374-2387
    [PMID:27794101]
  8. Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD
    HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 600-619
    [PMID:29475938]