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 358254
Common NameARALYDRAFT_358254
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family M-type_MADS
Protein Properties Length: 292aa    MW: 33766.8 Da    PI: 8.8787
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
358254genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF68.75.3e-221662349
            --SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
  SRF-TF  3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
             +n+sn qvtfskRr g++KKA+EL++LC+ae+a+++fs+  k++ +
  358254 16 MKNESNLQVTFSKRRSGLFKKASELCTLCGAEIAIVVFSPGRKVFSF 62
            589*************************************9999877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006624.207666IPR002100Transcription factor, MADS-box
SMARTSM004322.8E-31665IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-27783IPR002100Transcription factor, MADS-box
CDDcd002651.88E-34778No hitNo description
PRINTSPR004041.5E-18828IPR002100Transcription factor, MADS-box
PfamPF003193.8E-241662IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-182843IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-184364IPR002100Transcription 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: 292 aa     Download sequence    Send to blast
MVKKSKGRQK IEMVKMKNES NLQVTFSKRR SGLFKKASEL CTLCGAEIAI VVFSPGRKVF  60
SFGHPNVESV IDRFLNNNPP LSHQHNNMQL SETRRNSIVQ ELNNHLTQVL SQLESEKKKY  120
DELKKIREKT RALGNWWEDP VEELTLPQLD GFKGNLENLK KVVTVEASKY FQATVPNFYV  180
GSSSNAAFGI DDGSHINHDL DLFSQRRMMD INAFNYNQNQ IHPNPALPFG NNAYGHINEG  240
FVPDYNMNYR PEYIQNQYQN QNQNLSFKRE NISEYEHHHH GYPPHSRSDY Y*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A1e-157103188Myocyte-specific enhancer factor 2A
3kov_B1e-157103188Myocyte-specific enhancer factor 2A
3kov_I1e-157103188Myocyte-specific enhancer factor 2A
3kov_J1e-157103188Myocyte-specific enhancer factor 2A
3p57_A1e-157103188Myocyte-specific enhancer factor 2A
3p57_B1e-157103188Myocyte-specific enhancer factor 2A
3p57_C1e-157103188Myocyte-specific enhancer factor 2A
3p57_D1e-157103188Myocyte-specific enhancer factor 2A
3p57_I1e-157103188Myocyte-specific enhancer factor 2A
3p57_J1e-157103188Myocyte-specific enhancer factor 2A
Search in ModeBase
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
PlantRegMap358254
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU4930930.0EU493093.1 Arabidopsis thaliana MADS-box protein AGL62 (AGL62) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002864686.10.0agamous-like MADS-box protein AGL62
SwissprotQ9FKK20.0AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLD7MTU50.0D7MTU5_ARALL; MADS-box protein
STRINGfgenesh1_pg.C_scaffold_80020410.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8628390
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.11e-170AGAMOUS-like 62
Publications ? help Back to Top
  1. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  2. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  3. 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]
  4. 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]
  5. 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]