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

GSBRNA2T00022419001

Common Name

GSBRNA2T00022419001, LOC106394164

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: 180aa MW: 20230.8 Da PI: 5.0473

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00022419001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	56.7	3e-18	11	57	3	49
--SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 ++++ +qvtfskRr g++KKA EL +LC+aev +++fs+ +k y y GSBRNA2T00022419001 11 VQDTNTKQVTFSKRRLGLFKKAGELATLCNAEVGIMVFSPGNKPYPY 57 6788899*********************************9998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.4E-31	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.09E-25	1	73	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	25.175	1	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.34E-31	2	76	No hit	No description
PRINTS	PR00404	1.4E-18	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.2E-20	11	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-18	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-18	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: 180 aa Download sequence Send to blast
MGRRKIKMEK VQDTNTKQVT FSKRRLGLFK KAGELATLCN AEVGIMVFSP GNKPYPYGSP 60 SFELVAERYN NESEDSDSCE TSGNGRGNRA RQEKRICKRL NSIMEQVEAE KKRGEDFEHQ 120 LETAGGEEKF DKPIEELSLE ELEEYEGKMM DMLGSIQGNI SGMEVSSTLL IMSKDTQNK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	1e-17	1	78	1	78	MEF2 CHIMERA
6byy_B	1e-17	1	78	1	78	MEF2 CHIMERA
6byy_C	1e-17	1	78	1	78	MEF2 CHIMERA
6byy_D	1e-17	1	78	1	78	MEF2 CHIMERA
6bz1_A	2e-17	1	78	1	78	MEF2 CHIMERA
6bz1_B	2e-17	1	78	1	78	MEF2 CHIMERA
6bz1_C	2e-17	1	78	1	78	MEF2 CHIMERA
6bz1_D	2e-17	1	78	1	78	MEF2 CHIMERA
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.5140	0.0	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During embryogenesis, expressed in the chalazal endosperm. {ECO:0000269\|PubMed:20631316}.
Uniprot	TISSUE SPECIFICITY: Expressed in pollen. {ECO:0000269\|PubMed:12949148}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00022419001

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	AC189233	0.0	AC189233.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013O20, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013690212.1	1e-129	agamous-like MADS-box protein AGL29
Swissprot	O64703	2e-58	AGL29_ARATH; Agamous-like MADS-box protein AGL29
TrEMBL	A0A078J2A7	1e-128	A0A078J2A7_BRANA; BnaCnng32170D protein
STRING	Bo3g060720.1	1e-128	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM86	28	390

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G66656.1	5e-77	AGAMOUS-like 91

Link Out ? help Back to Top
Entrez Gene	106394164

Publications ? help Back to Top
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] 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]