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

Csa13g019330.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 294aa MW: 32760 Da PI: 8.6072

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa13g019330.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	33.2	9e-11	48	72	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 +++ C+++ rtG C++G++C+F+H+ Csa13g019330.1 48 GEPDCSYYIRTGLCRFGSTCRFNHP 72 789*********************8 PP
2	zf-CCCH	39.9	7e-13	94	117	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 +++C f+++tGtCk+G +CkF+H+ Csa13g019330.1 94 QPECEFYMKTGTCKFGVTCKFHHP 117 799********************8 PP
3	zf-CCCH	38.1	2.5e-12	140	164	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 + C++f+rtG+Ck+G++CkF+H++ Csa13g019330.1 140 EDDCSYFLRTGHCKFGGTCKFNHPQ 164 578********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.136	46	74	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-4	46	73	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.1E-7	48	72	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.33E-6	51	74	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.2E-4	52	73	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.92	91	119	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-5	91	118	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.5E-10	94	117	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.66E-6	95	120	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-4	97	116	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.305	137	165	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.8E-5	137	164	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-6	138	165	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.3E-10	140	164	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.1E-4	143	163	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 294 aa Download sequence Send to blast
MDFDSRVPIT RESTSLSPLL HQNTMWQMNM GSDEIMSGSD GFYPERQGEP DCSYYIRTGL 60 CRFGSTCRFN HPHDRKLVIA TAMTKGEYPE RIGQPECEFY MKTGTCKFGV TCKFHHPSNK 120 AGIDGRVSIN VLGYPLRPNE DDCSYFLRTG HCKFGGTCKF NHPQTQSTKL MVSVRGSPVY 180 SALQSFTGQQ SYSWPRTSCV ATPPRFQDPS SIASLVLPQG GVVSVQGWNS YGLGSLLPRE 240 VTRTTETNSR MTQKSLQDLK EVSSHPSFIQ VVMFRSACMH SRKDQANLNA NST*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa13g019330.1

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	AF138872	0.0	AF138872.1 Arabidopsis thaliana zinc finger protein 3 (ZFN3) mRNA, complete cds.
GenBank	AY084634	0.0	AY084634.1 Arabidopsis thaliana clone 113763 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010453818.1	1e-177	PREDICTED: LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 57-like
Swissprot	Q8L7N8	1e-132	C3H57_ARATH; Zinc finger CCCH domain-containing protein 57
TrEMBL	R0H793	1e-145	R0H793_9BRAS; Uncharacterized protein
STRING	XP_010453818.1	1e-177	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3389	28	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G16540.2	1e-135	zinc finger nuclease 3

Publications ? help Back to Top
Haas BJ, et al. Full-length messenger RNA sequences greatly improve genome annotation. Genome Biol., 2002. 3(6): p. RESEARCH0029 [PMID:12093376] Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Xie W, et al. Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach. Front Plant Sci, 2015. 6: p. 829 [PMID:26528302]