PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00117394001

Common Name

GSBRNA2T00117394001

Organism

Brassica napus

Taxonomic ID

3708

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: 83aa MW: 9569.54 Da PI: 10.146

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00117394001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	88.7	3e-28	9	53	1	45
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgk 45 k ienk+nrqvtf+kRr+g+lKKA+ELSvLCdaeva+iifs++gk GSBRNA2T00117394001 9 KMIENKINRQVTFAKRRKGLLKKAHELSVLCDAEVALIIFSNRGK 53 68*****************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	6.6E-35	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	6.93E-28	1	74	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	29.002	1	53	IPR002100	Transcription factor, MADS-box
CDD	cd00265	8.00E-33	2	54	No hit	No description
PRINTS	PR00404	3.3E-27	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.4E-24	11	55	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.3E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.3E-27	38	59	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 83 aa Download sequence Send to blast
MGRGKVELKM IENKINRQVT FAKRRKGLLK KAHELSVLCD AEVALIIFSN RGKPVVLTEL 60 YKLTEEIIKE MLEYKNMLMW SC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	5e-16	1	53	1	53	MEF2 CHIMERA
6byy_B	5e-16	1	53	1	53	MEF2 CHIMERA
6byy_C	5e-16	1	53	1	53	MEF2 CHIMERA
6byy_D	5e-16	1	53	1	53	MEF2 CHIMERA
6bz1_A	5e-16	1	53	1	53	MEF2 CHIMERA
6bz1_B	5e-16	1	53	1	53	MEF2 CHIMERA
6bz1_C	5e-16	1	53	1	53	MEF2 CHIMERA
6bz1_D	5e-16	1	53	1	53	MEF2 CHIMERA
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.9372	7e-54	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in flowers and seeds. {ECO:0000269\|Ref.1}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in flower development. {ECO:0000250\|UniProtKB:Q0HA25}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00117394001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KC967960	1e-57	KC967960.1 Brassica oleracea var. viridis SEP3 (SEP3) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022561740.1	2e-31	agamous-like MADS-box protein AGL9 homolog
Swissprot	Q8LLR0	3e-27	MADS4_VITVI; Agamous-like MADS-box protein MADS4
TrEMBL	A0A0D3D6H9	6e-52	A0A0D3D6H9_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6EKD2	6e-52	A0A3P6EKD2_BRAOL; Uncharacterized protein
STRING	Bo7g050040.1	9e-53	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM78	28	413

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G03710.3	7e-30	MIKC_MADS family protein

Publications ? help Back to Top
Jaillon O, et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature, 2007. 449(7161): p. 463-7 [PMID:17721507] Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ Genome-wide analysis of MIKCC-type MADS box genes in grapevine. Plant Physiol., 2009. 149(1): p. 354-69 [PMID:18997115] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Grimplet J,Martínez-Zapater JM,Carmona MJ Structural and functional annotation of the MADS-box transcription factor family in grapevine. BMC Genomics, 2016. 17: p. 80 [PMID:26818751]