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

GSBRNA2T00115549001

Common Name

GSBRNA2T00115549001

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

C2H2

Protein Properties

Length: 288aa MW: 32545.6 Da PI: 7.5324

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00115549001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18	8.1e-06	130	149	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++C+ C k+F+r nL+ H+ GSBRNA2T00115549001 130 FSCHVCFKTFNRYNNLQMHM 149 89*****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.5E-5	122	152	No hit	No description
PROSITE profile	PS50157	10.055	130	157	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	3.3E-4	130	149	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	132	152	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.4E-5	199	234	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009813	Biological Process	flavonoid biosynthetic process
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 288 aa Download sequence Send to blast
MDCEIYSSSS SENPRDHFQF LDLFPNITQN PNNNNTLIEP LPLIDRINLN PNLNLKSRPS 60 YVGEGDDEVE DEENVVVDVS LHIGLPGSGN SSNGKEIVTY DAGKDIENEV SGKAYWIPTV 120 DQIIIGFTHF SCHVCFKTFN RYNNLQMHMW GHGSQYRKGP ESLKGTQPRA MLGIPCFCCV 180 EGCRNHIDHP RSKPLKDFRT LQTHYKRKHG QKPYACRICG KLLAVKGDWR THEKNCGKRW 240 VCVCGSDFKH KRSLKDHVKA FGPGHGSYPT DLFDEHASYS SVSETLF*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Developing ovules and young seeds. {ECO:0000269\|PubMed:11782451}.
Uniprot	TISSUE SPECIFICITY: Restricted to the endothelium, the innermost cell layer of the seed coat and detected to a lesser extent in the other cell layers of the testa. {ECO:0000269\|PubMed:11782451}.

Functional Description ? help Back to Top
Source	Description
UniProt	May act as a transcriptional regulator involved in the differentiation of young endothelium. Altered differentiation results in incompetence for pigments synthesis and the lack of condensed tannins in the seed coat (PubMed:21477081). Plays a role in the regulatory network controlling flavonoid accumulation in endothelium cells during seed development (PubMed:21477081). {ECO:0000269\|PubMed:11782451, ECO:0000269\|PubMed:21477081}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00115549001

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013701380.1	0.0	protein TRANSPARENT TESTA 1-like
Swissprot	Q8VWG3	1e-164	TT1_ARATH; Protein TRANSPARENT TESTA 1
TrEMBL	A0A1L6BXE0	0.0	A0A1L6BXE0_BRANA; TRANSPARENT TESTA 1 family isoform 1
STRING	Bo6g044010.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM239	28	237

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34790.1	1e-149	C2H2 family protein

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] Lian J, et al. Silencing of BnTT1 family genes affects seed flavonoid biosynthesis and alters seed fatty acid composition in Brassica napus. Plant Sci., 2017. 254: p. 32-47 [PMID:27964783]