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.12G005000.1.p
Common NameGLYMA_12G005000, LOC100783345
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: 205aa    MW: 23297.1 Da    PI: 9.5261
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.12G005000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.13.1e-25958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krien   rqvtf+kRr+g+lKKA+ELSvLCdae+ + ifs +gklye +
  Glyma.12G005000.1.p  9 KRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGLFIFSAHGKLYELA 58
                         79*********************************************965 PP
2K-box67.25.5e-23911731799
                K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                           ++e + Lk+ei++Lq+ +Rhl G + +++++ eLq Le++Le+ + +iRs K++++l++i+ l+ ke  l+ +nk+L+ k+ 
  Glyma.12G005000.1.p  91 AKEETNMLKQEIQTLQKGIRHLFGGGNKTMTIDELQVLEKNLETWIYHIRSMKMNIMLQEIQALKDKEGTLKAANKYLHDKIV 173
                          57999***************************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.801161IPR002100Transcription factor, MADS-box
SMARTSM004323.1E-35160IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.5E-28175IPR002100Transcription factor, MADS-box
CDDcd002655.49E-40278No hitNo description
PRINTSPR004043.0E-27323IPR002100Transcription factor, MADS-box
PfamPF003192.7E-221056IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.74888178IPR002487Transcription factor, K-box
PfamPF014865.0E-2291172IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
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: 205 aa     Download sequence    Send to blast
MARGKVQLKR IENPVHRQVT FCKRRAGLLK KAKELSVLCD AEIGLFIFSA HGKLYELATK  60
GTMQGLIERY MKFSRGAQPE AAPEAHPLLD AKEETNMLKQ EIQTLQKGIR HLFGGGNKTM  120
TIDELQVLEK NLETWIYHIR SMKMNIMLQE IQALKDKEGT LKAANKYLHD KIVENTAISN  180
FAQFATDTSN SYPLIIQDEV FQLY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-16193192MEF2C
5f28_B1e-16193192MEF2C
5f28_C1e-16193192MEF2C
5f28_D1e-16193192MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269|PubMed:11855641, ECO:0000269|PubMed:18203871, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.12G005000.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0991420.0BT099142.1 Soybean clone JCVI-FLGm-16J2 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001242837.21e-151agamous-like MADS-box protein AGL12-like protein
RefseqXP_014619807.11e-151agamous-like MADS-box protein AGL12-like protein isoform X1
RefseqXP_028192307.11e-151agamous-like MADS-box protein AGL12
SwissprotQ388411e-78AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A0B2RDD51e-150A0A0B2RDD5_GLYSO; Agamous-like MADS-box protein AGL12
TrEMBLI1LNS41e-150I1LNS4_SOYBN; Uncharacterized protein
STRINGGLYMA12G00770.11e-151(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF75663144
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.15e-81AGAMOUS-like 12
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]