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_00056.1_g00035.1
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 MIKC_MADS
Protein Properties Length: 162aa    MW: 18791.7 Da    PI: 10.3184
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00056.1_g00035.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.45.8e-31959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krienk+nrqvtfskRr g+lKKA+E+SvLCdaeva+++fss+gkl+eys+
  Rsa1.0_00056.1_g00035.1  9 KRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALVVFSSKGKLFEYST 59
                             79***********************************************96 PP
2K-box93.73.1e-3178159485
                    K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkek 85 
                              ++ +  + +++e++  e+akLk+++e L++++R+++GedL+sLslkeLq+Le+qL+ ++k+iRs+Kn+ ++e+i+ lqkk k
  Rsa1.0_00056.1_g00035.1  78 KQLVGRDISQSENWVLEHAKLKARVEVLEKNKRNFMGEDLDSLSLKELQSLEHQLDAAIKSIRSRKNQAMFESISALQKKVK 159
                              56666778899*********************************************************************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.52161IPR002100Transcription factor, MADS-box
SMARTSM004323.3E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.31E-33291IPR002100Transcription factor, MADS-box
CDDcd002655.07E-39279No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-32323IPR002100Transcription factor, MADS-box
PfamPF003196.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-323859IPR002100Transcription factor, MADS-box
PfamPF014861.7E-2586161IPR002487Transcription factor, K-box
PROSITE profilePS5129714.09188162IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 162 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRSGLLK KAHEISVLCD AEVALVVFSS KGKLFEYSTD  60
SSMERILERY DRYLYSDKQL VGRDISQSEN WVLEHAKLKA RVEVLEKNKR NFMGEDLDSL  120
SLKELQSLEH QLDAAIKSIR SRKNQAMFES ISALQKKVKC LN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-23190189MEF2C
5f28_B3e-23190189MEF2C
5f28_C3e-23190189MEF2C
5f28_D3e-23190189MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes early floral meristem identity in synergy with APETALA1 and CAULIFLOWER. Is required subsequently for the transition of an inflorescence meristem into a floral meristem (PubMed:28586421). Seems to be partially redundant to the function of APETALA1 and CAULIFLOWER in the up-regulation of LEAFY. Is also required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:28586421). Probably not required for fruit elongation but instead is required to prevent ectopic activity of IND. Represses SAUR10 expression in stems and inflorescence branches (PubMed:28586421). {ECO:0000269|PubMed:10648231, ECO:0000269|PubMed:15035986, ECO:0000269|PubMed:28586421, ECO:0000269|PubMed:9502732}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00056.1_g00035.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Dramatically up-regulated upon the transition from vegetative to reproductive development.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5058440.0AJ505844.1 Brassica oleracea var. botrytis mRNA for MADS-box protein FUL-d.
GenBankDQ4145340.0DQ414534.1 Brassica napus Ful-like protein (Ful) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001302860.11e-110agamous-like MADS-box protein AGL8
RefseqXP_018454622.11e-109PREDICTED: agamous-like MADS-box protein AGL8
SwissprotQ388761e-109AGL8_ARATH; Agamous-like MADS-box protein AGL8
TrEMBLQ1ZZV21e-108Q1ZZV2_BRANA; Ful-like protein
TrEMBLQ8GTF61e-108Q8GTF6_BRAOB; MADS-box protein FUL-d
STRINGBra035952.1-P1e-108(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60910.11e-112AGAMOUS-like 8
Publications ? help Back to Top
  1. Yu Y, et al.
    MlWRKY12, a novel Miscanthus transcription factor, participates in pith secondary cell wall formation and promotes flowering.
    Plant Sci., 2013. 212: p. 1-9
    [PMID:24094048]
  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. Jaradat MR,Ruegger M,Bowling A,Butler H,Cutler AJ
    A comprehensive transcriptome analysis of silique development and dehiscence in Arabidopsis and Brassica integrating genotypic, interspecies and developmental comparisons.
    GM Crops Food, 2014. 5(4): p. 302-20
    [PMID:25523176]
  4. Wang C,Dehesh K
    From retrograde signaling to flowering time.
    Plant Signal Behav, 2015. 10(6): p. e1022012
    [PMID:26098376]
  5. Borghi M,Xie DY
    Tissue-specific production of limonene in Camelina sativa with the Arabidopsis promoters of genes BANYULS and FRUITFULL.
    Planta, 2016. 243(2): p. 549-61
    [PMID:26530959]
  6. Yu Y, et al.
    WRKY71 accelerates flowering via the direct activation of FLOWERING LOCUS T and LEAFY in Arabidopsis thaliana.
    Plant J., 2016. 85(1): p. 96-106
    [PMID:26643131]
  7. McCarthy EW,Mohamed A,Litt A
    Functional Divergence of APETALA1 and FRUITFULL is due to Changes in both Regulation and Coding Sequence.
    Front Plant Sci, 2015. 6: p. 1076
    [PMID:26697035]
  8. Davin N, et al.
    Functional network analysis of genes differentially expressed during xylogenesis in soc1ful woody Arabidopsis plants.
    Plant J., 2016. 86(5): p. 376-90
    [PMID:26952251]
  9. Hyun Y, et al.
    Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem.
    Dev. Cell, 2016. 37(3): p. 254-66
    [PMID:27134142]
  10. José Ripoll J, et al.
    microRNA regulation of fruit growth.
    Nat Plants, 2015. 1(4): p. 15036
    [PMID:27247036]
  11. Li W,Wang H,Yu D
    Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions.
    Mol Plant, 2016. 9(11): p. 1492-1503
    [PMID:27592586]
  12. Eldridge T, et al.
    Fruit shape diversity in the Brassicaceae is generated by varying patterns of anisotropy.
    Development, 2016. 143(18): p. 3394-406
    [PMID:27624834]
  13. Bemer M, et al.
    FRUITFULL controls SAUR10 expression and regulates Arabidopsis growth and architecture.
    J. Exp. Bot., 2017. 68(13): p. 3391-3403
    [PMID:28586421]
  14. 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]
  15. Balanzà V, et al.
    Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway.
    Nat Commun, 2018. 9(1): p. 565
    [PMID:29422669]