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 Solyc01g106720.1.1
Common NameLOC101252829
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family M-type_MADS
Protein Properties Length: 212aa    MW: 23531.2 Da    PI: 10.3481
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc01g106720.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF63.62.1e-201863449
                        -SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
              SRF-TF  4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                        + +sn  vtfskRr g++KKA+EL++LC++e+a+++fs+  k++ +
  Solyc01g106720.1.1 18 SKESNLLVTFSKRRSGLFKKASELCTLCGVEIAIVVFSPGHKVFSF 63
                        6678999********************************9999877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006622.105767IPR002100Transcription factor, MADS-box
SMARTSM004323.0E-28766IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.7E-25892IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-16929IPR002100Transcription factor, MADS-box
PfamPF003191.5E-221763IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-162944IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-164465IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009960Biological Processendosperm development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 212 aa     Download sequence    Send to blast
MAKKMSKGRQ KIQMTKMSKE SNLLVTFSKR RSGLFKKASE LCTLCGVEIA IVVFSPGHKV  60
FSFGHPNVDS IVNRFLTRNP TSSSSTTCQL VEAHRNANVR ELNAQLTEIL NQLEFEKKRE  120
VEIEKIQKGK IGKNWWEGPL NELEHGELEQ LKLGMEELKK NVTKQMQKII FEASNAPTFF  180
LGGSSSSNGD VKNMKGLGLS MATNGGHTSF P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A7e-18893186Myocyte-specific enhancer factor 2A
3kov_B7e-18893186Myocyte-specific enhancer factor 2A
3kov_I7e-18893186Myocyte-specific enhancer factor 2A
3kov_J7e-18893186Myocyte-specific enhancer factor 2A
3p57_A7e-18893186Myocyte-specific enhancer factor 2A
3p57_B7e-18893186Myocyte-specific enhancer factor 2A
3p57_C7e-18893186Myocyte-specific enhancer factor 2A
3p57_D7e-18893186Myocyte-specific enhancer factor 2A
3p57_I7e-18893186Myocyte-specific enhancer factor 2A
3p57_J7e-18893186Myocyte-specific enhancer factor 2A
5f28_A8e-18893287MEF2C
5f28_B8e-18893287MEF2C
5f28_C8e-18893287MEF2C
5f28_D8e-18893287MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269|PubMed:18334668}.
UniprotTISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269|PubMed:18334668}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc01g106720.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2402040.0Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-33m2 map 1, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004231379.11e-153agamous-like MADS-box protein AGL62
SwissprotQ9FKK21e-64AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A0V0H2C11e-144A0A0V0H2C1_SOLCH; Putative agamous-like MADS-box protein AGL62-like (Fragment)
STRINGSolyc01g106720.1.11e-153(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA20424223
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.18e-63AGAMOUS-like 62
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  3. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  4. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  5. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  6. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]