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

GSBRNA2T00008341001

Common Name

GSBRNA2T00008341001

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

C3H

Protein Properties

Length: 459aa MW: 49054.4 Da PI: 8.7665

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00008341001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.4	9.1e-12	55	78	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 + C +++rtG C yG+rC+F+H+p GSBRNA2T00008341001 55 PDCAYYMRTGVCGYGSRCRFNHPP 78 78********************97 PP
2	zf-CCCH	38.7	1.7e-12	101	123	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 +C+f+++tGtCk+G++CkF+H++ GSBRNA2T00008341001 101 PCQFYLKTGTCKFGASCKFNHPR 123 7********************96 PP
3	zf-CCCH	33.5	7.3e-11	145	169	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++ +C++f++tG+Ck+G +CkF+H+ GSBRNA2T00008341001 145 GENECSYFLKTGQCKFGITCKFHHP 169 5679********************8 PP
4	zf-CCCH	37.8	3.2e-12	290	314	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +++C+++++tG Ck+G +CkF+H++ GSBRNA2T00008341001 290 EPECQYYLKTGDCKFGTSCKFHHPR 314 689********************96 PP
5	zf-CCCH	32.7	1.3e-10	335	359	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 + +C f+ ++G+Ck+G++CkF H+ GSBRNA2T00008341001 335 GVQRCTFYVQNGFCKFGSTCKFDHP 359 6779********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.779	51	79	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.6E-5	51	78	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-9	55	78	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.4E-6	56	79	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-5	57	77	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	9.5E-6	96	123	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.01E-6	99	124	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.943	101	124	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.0E-5	101	123	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-10	101	123	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.864	143	171	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.8E-5	143	170	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.4E-8	145	169	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-5	146	171	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.103	287	315	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.6E-5	287	314	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-9	290	314	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-6	292	317	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.5E-5	293	315	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.183	333	361	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-5	333	360	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.62E-6	335	364	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-8	335	359	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.3E-5	339	359	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: 459 aa Download sequence Send to blast
MDMYGRTPPT AMNGSHAPPQ WTPGDADTGL LLQAESSMWR LGLGSEAYPQ RAGAPDCAYY 60 MRTGVCGYGS RCRFNHPPDR ASVEATVRAT GQYPERLGAL PCQFYLKTGT CKFGASCKFN 120 HPRNAAGGSM THVPLNIYGY PVRQGENECS YFLKTGQCKF GITCKFHHPH PASAASATAT 180 LPPPASAPQF YSSVQQHSLM PGPPSSSLRP LLPGSYMQGA YGPMLLTTPG VLPIQAWNPY 240 SAPVSPALSP GAQHAASLYG VTQLSSTTPG VYPSGVVTLK EESFPERPAE PECQYYLKTG 300 DCKFGTSCKF HHPRDRVPPR PNCDLSSVGL PLRPGVQRCT FYVQNGFCKF GSTCKFDHPV 360 GTIRYNPSAS SLADAPVAPY PVTSLLASSS SSSAELIPGD PYLSGSRSTS NNISAGLIFS 420 QIGVSLPPFT DLQLSSQTSL SLSGSRITRQ GREIRRSF*

Sequence ? help Back to Top

Protein Sequence Length: 459 aa Download sequence Send to blast

MDMYGRTPPT AMNGSHAPPQ WTPGDADTGL LLQAESSMWR LGLGSEAYPQ RAGAPDCAYY  60
MRTGVCGYGS RCRFNHPPDR ASVEATVRAT GQYPERLGAL PCQFYLKTGT CKFGASCKFN  120
HPRNAAGGSM THVPLNIYGY PVRQGENECS YFLKTGQCKF GITCKFHHPH PASAASATAT  180
LPPPASAPQF YSSVQQHSLM PGPPSSSLRP LLPGSYMQGA YGPMLLTTPG VLPIQAWNPY  240
SAPVSPALSP GAQHAASLYG VTQLSSTTPG VYPSGVVTLK EESFPERPAE PECQYYLKTG  300
DCKFGTSCKF HHPRDRVPPR PNCDLSSVGL PLRPGVQRCT FYVQNGFCKF GSTCKFDHPV  360
GTIRYNPSAS SLADAPVAPY PVTSLLASSS SSSAELIPGD PYLSGSRSTS NNISAGLIFS  420
QIGVSLPPFT DLQLSSQTSL SLSGSRITRQ GREIRRSF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.6497	0.0	seed

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00008341001

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	AC189634	1e-159	AC189634.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS004I08, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013631258.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 32-like isoform X1
Swissprot	Q84W91	0.0	C3H32_ARATH; Zinc finger CCCH domain-containing protein 32
TrEMBL	A0A078IST9	0.0	A0A078IST9_BRANA; BnaC04g00080D protein
STRING	Bo4g002280.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5912	26	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47850.3	0.0	C3H 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]