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 XP_009126603.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family M-type_MADS
Protein Properties Length: 248aa    MW: 27974 Da    PI: 10.3585
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009126603.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF72.14.6e-231461249
                    ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
          SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                    +ie + n qvtf+kR+ng++KKA+EL++LC+a+va+i+fs++gk++ +
  XP_009126603.1 14 KIEKEKNLQVTFCKRKNGLFKKANELCTLCNARVAIILFSPSGKVFSF 61
                    59999****************************************988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006623.184565IPR002100Transcription factor, MADS-box
SMARTSM004321.8E-29564IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.14E-25681IPR002100Transcription factor, MADS-box
CDDcd002654.81E-31682No hitNo description
PRINTSPR004043.3E-18727IPR002100Transcription factor, MADS-box
PfamPF003194.3E-251461IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-182742IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-184263IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 248 aa     Download sequence    Send to blast
MRKTKGRLKT KMVKIEKEKN LQVTFCKRKN GLFKKANELC TLCNARVAII LFSPSGKVFS  60
FGHTKVETII DRFEKTDHPD SNIQSNMQLG EIHQNSTIRG LNNRLTEVMK NLESEQKTNE  120
ELKKLRKKSK LPEIWLKESI GGLDLGQAKE FKGKLENLKK QVIYEAFKSF QATPFPQPGF  180
YGGSSSNAPF GVDGNVNVFD NHNMVLSNHP SPFVPGFNHN MALPSHPNPN ESGNKHPHDG  240
HPPQPRSD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A7e-14679174Myocyte-specific enhancer factor 2A
3kov_B7e-14679174Myocyte-specific enhancer factor 2A
3kov_I7e-14679174Myocyte-specific enhancer factor 2A
3kov_J7e-14679174Myocyte-specific enhancer factor 2A
3p57_A7e-14679174Myocyte-specific enhancer factor 2A
3p57_B7e-14679174Myocyte-specific enhancer factor 2A
3p57_C7e-14679174Myocyte-specific enhancer factor 2A
3p57_D7e-14679174Myocyte-specific enhancer factor 2A
3p57_I7e-14679174Myocyte-specific enhancer factor 2A
3p57_J7e-14679174Myocyte-specific enhancer factor 2A
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
PlantRegMapXP_009126603.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009126603.10.0PREDICTED: agamous-like MADS-box protein AGL62 isoform X2
SwissprotQ9FKK22e-61AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A078F8441e-166A0A078F844_BRANA; BnaA02g06300D protein
STRINGBra020242.1-P1e-163(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM1873848
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.11e-57AGAMOUS-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]