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

Carubv10012266m

Common Name

CARUB_v10012266mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

C2H2

Protein Properties

Length: 298aa MW: 33620.7 Da PI: 7.8799

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10012266m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.9	8.4e-06	138	157	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++C+ C k+F+r nL+ H+ Carubv10012266m 138 FSCHVCFKTFNRYNNLQMHM 157 89*****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.58E-5	124	160	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.4E-4	138	157	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.055	138	165	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	140	160	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	3.38E-5	202	242	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: 298 aa Download sequence Send to blast
MESSQQYEIS SSSSSEKPRN YSQPLDLFLN LNQNSCNNNT LVEPLPLLDR INLNSNPKPL 60 SGEEEQEDEE DVEVDVDLHI GLPGFGKSSS NDAKDPKKST NGKEIVTFDA GKDIENEVSG 120 KGYWIPAPEQ ILIGFTHFSC HVCFKTFNRY NNLQMHMWGH GSQYRKGPES LKGTQPRAML 180 GIPCYCCVEG CRNHIDHPRS KPLKDFRTLQ THYKRKHGHK PYSCRICGKL LAVKGDWRTH 240 EKNCGKRWVC ICGSDFKHKR SLKDHVKAFG QGHGPYPSGL FEEQASNNSS VSETLFF*

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	Carubv10012266m

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	AB493495	0.0	AB493495.1 Arabidopsis thaliana At1g34790 mRNA for hypothetical protein, partial cds, clone: RAAt1g34790.
GenBank	AF190298	0.0	AF190298.1 Arabidopsis thaliana ecotype Columbia transparent testa 1 (TT1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006306363.1	0.0	protein TRANSPARENT TESTA 1
Swissprot	Q8VWG3	1e-179	TT1_ARATH; Protein TRANSPARENT TESTA 1
TrEMBL	R0GTY2	0.0	R0GTY2_9BRAS; Uncharacterized protein
STRING	XP_006306363.1	0.0	(Capsella rubella)

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-159	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Carubv10012266m
Entrez Gene	17900467

Publications ? help Back to Top
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]