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 Rsa1.0_05241.1_g00003.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family M-type_MADS
Protein Properties Length: 76aa    MW: 8596.85 Da    PI: 9.9442
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_05241.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF101.33.7e-322474151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey++
  Rsa1.0_05241.1_g00003.1 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYAN 74
                             79***********************************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.1E-401675IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.2491676IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.24E-301775IPR002100Transcription factor, MADS-box
CDDcd002652.46E-381775No hitNo description
PRINTSPR004041.2E-331838IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PfamPF003192.6E-272572IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-333853IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-335374IPR002100Transcription 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: 76 aa     Download sequence    Send to blast
MEGGASDEVA ESSKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VIFSTRGRLY EYANNR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-211674159Myocyte-specific enhancer factor 2B
1tqe_Q3e-211674159Myocyte-specific enhancer factor 2B
1tqe_R3e-211674159Myocyte-specific enhancer factor 2B
1tqe_S3e-211674159Myocyte-specific enhancer factor 2B
6c9l_A3e-211674159Myocyte-specific enhancer factor 2B
6c9l_B3e-211674159Myocyte-specific enhancer factor 2B
6c9l_C3e-211674159Myocyte-specific enhancer factor 2B
6c9l_D3e-211674159Myocyte-specific enhancer factor 2B
6c9l_E3e-211674159Myocyte-specific enhancer factor 2B
6c9l_F3e-211674159Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269|PubMed:27776173}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_05241.1_g00003.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895881e-109AC189588.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH012N11, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001303136.13e-47agamous-like MADS-box protein AGL5
RefseqXP_009142866.13e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_009142867.13e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013632198.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632199.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632200.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632201.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632202.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632203.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632204.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632205.16e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_013632206.13e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013632207.13e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013673080.13e-47agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013673081.13e-47agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013673082.13e-47agamous-like MADS-box protein AGL5 isoform X2
RefseqXP_013691073.13e-47agamous-like MADS-box protein AGL5
RefseqXP_018514277.17e-47PREDICTED: agamous-like MADS-box protein AGL5 isoform X1
RefseqXP_022557364.11e-47agamous-like MADS-box protein AGL5
RefseqXP_022574676.13e-47agamous-like MADS-box protein AGL5 isoform X2
SwissprotP293852e-47AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBLA0A0D3BPE63e-47A0A0D3BPE6_BRAOL; Uncharacterized protein
TrEMBLA0A3N6S4E13e-47A0A3N6S4E1_BRACR; Uncharacterized protein
STRINGBra004716.1-P1e-46(Brassica rapa)
STRINGBo4g017290.14e-48(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42830.26e-37MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Rathnakumar K, et al.
    Angiopoietin-2 mediates thrombin-induced monocyte adhesion and endothelial permeability.
    J. Thromb. Haemost., 2016. 14(8): p. 1655-67
    [PMID:27241812]
  4. Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L
    Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks.
    Development, 2016. 143(18): p. 3372-81
    [PMID:27510967]
  5. Ehlers K, et al.
    The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana.
    PLoS ONE, 2016. 11(10): p. e0165075
    [PMID:27776173]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Ó'Maoiléidigh DS,Stewart D,Zheng B,Coupland G,Wellmer F
    Floral homeotic proteins modulate the genetic program for leaf development to suppress trichome formation in flowers.
    Development, 2018.
    [PMID:29361563]