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.04G257100.1.p
Common NameLOC100785089
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: 223aa    MW: 25731.4 Da    PI: 9.8113
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.04G257100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.41.4e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtf+kRrng+lKKA+ELSvLCdaev++i+fss+g+lyeys+
  Glyma.04G257100.1.p  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSN 59
                         79***********************************************95 PP
2K-box108.29.1e-3676172399
                K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 
                          +ss + ++e +a+++qqe+akL+++i++Lq+++Rhl+G+ L++L++keL+qLe++Le++l++iRskK+e+ll++ie+ qk+e el++en 
  Glyma.04G257100.1.p  76 HSSASTTTEINAQYYQQESAKLRQQIQMLQNSNRHLMGDALSTLTVKELKQLENRLERGLTRIRSKKHEMLLAEIEYFQKREIELENENL 165
                          4566668999******************************************************************************** PP

                K-box  93 aLrkkle 99 
                          +Lr+k+ 
  Glyma.04G257100.1.p 166 CLRTKIT 172
                          ****986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.95161IPR002100Transcription factor, MADS-box
SMARTSM004324.6E-42160IPR002100Transcription factor, MADS-box
CDDcd002656.73E-44278No hitNo description
SuperFamilySSF554555.76E-33276IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.7E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-333859IPR002100Transcription factor, MADS-box
PfamPF014866.3E-2784171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.30187177IPR002487Transcription 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: 223 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVSLIVFSS RGRLYEYSNN  60
NIRSTIERYK KACSDHSSAS TTTEINAQYY QQESAKLRQQ IQMLQNSNRH LMGDALSTLT  120
VKELKQLENR LERGLTRIRS KKHEMLLAEI EYFQKREIEL ENENLCLRTK ITDVERIQQV  180
NMVSGPELNV IQALASRNFF NPNMLDGGTV YPQTDKKILH LG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P6e-22182182Myocyte-specific enhancer factor 2B
1tqe_Q6e-22182182Myocyte-specific enhancer factor 2B
1tqe_R6e-22182182Myocyte-specific enhancer factor 2B
1tqe_S6e-22182182Myocyte-specific enhancer factor 2B
6c9l_A6e-22182182Myocyte-specific enhancer factor 2B
6c9l_B6e-22182182Myocyte-specific enhancer factor 2B
6c9l_C6e-22182182Myocyte-specific enhancer factor 2B
6c9l_D6e-22182182Myocyte-specific enhancer factor 2B
6c9l_E6e-22182182Myocyte-specific enhancer factor 2B
6c9l_F6e-22182182Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.407610.0seed coat
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds (Ref.1). Expressed in endotesta cell layer of developing seeds (PubMed:28369525). {ECO:0000269|PubMed:28369525, ECO:0000269|Ref.1}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.04G257100.1.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
GenBankDQ3718990.0DQ371899.1 Glycine max MADS domain transporter AGL11 (AGL11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003523484.11e-163agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_006579009.11e-163agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_006579010.11e-163agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_006579011.11e-163agamous-like MADS-box protein AGL11 isoform X2
RefseqXP_014630506.11e-163agamous-like MADS-box protein AGL11 isoform X1
SwissprotF6I4571e-135AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A368UIA51e-162A0A368UIA5_SOYBN; Uncharacterized protein
STRINGGLYMA04G43640.41e-163(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68429102
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-119MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  4. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]