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

GSBRNA2T00133045001

Common Name

GSBRNA2T00133045001

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: 457aa MW: 48677 Da PI: 8.7665

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00133045001	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	9e-12	55	78	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 + C +++rtG C yG+rC+F+H+p GSBRNA2T00133045001 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++ GSBRNA2T00133045001 101 PCQFYLKTGTCKFGASCKFNHPR 123 7********************96 PP
3	zf-CCCH	33.5	7.3e-11	146	170	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++ +C++f++tG+Ck+G +CkF+H+ GSBRNA2T00133045001 146 GENECSYFLKTGQCKFGITCKFHHP 170 5679********************8 PP
4	zf-CCCH	37.8	3.1e-12	289	315	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C+++++tG Ck+G +CkF+H++ GSBRNA2T00133045001 289 PGEPECQYYLKTGDCKFGTSCKFHHPR 315 5799*********************96 PP
5	zf-CCCH	33.5	7e-11	336	360	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 + +C+f+ ++G+Ck+G++CkF H+ GSBRNA2T00133045001 336 GVQRCSFYVQNGFCKFGSTCKFDHP 360 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
SuperFamily	SSF90229	3.27E-6	55	79	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.1E-9	55	78	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-5	57	77	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.6E-5	96	123	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.131	96	124	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-6	98	124	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-10	101	123	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.0E-5	101	123	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.864	144	172	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.8E-5	144	171	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.4E-8	146	170	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-5	147	172	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-5	288	315	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.356	288	316	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-9	290	315	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.4E-6	293	318	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.5E-5	294	316	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	9.7E-6	334	361	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.098	334	362	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.8E-8	336	360	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-6	336	365	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.2E-5	340	360	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: 457 aa Download sequence Send to blast
MDMYGRTPPT AMNGSHAPPQ WTPGDADTGL LLQAESSMWR LGLGSETYPQ RAGAPDCAYY 60 MRTGVCGYGS RCRFNHPPDR ASVEATVRAT GQYPERMGAL PCQFYLKTGT CKFGASCKFN 120 HPRNAAAGGS MTHVPLNIYG YPVRQGENEC SYFLKTGQCK FGITCKFHHP HPASASASAS 180 AAATLPPPAS APQFYSSVQH HSLMPGPPSS SLRPLLPGSY MQGAYGPMLL TTPGVLPIQA 240 WNPYSAPVSP ALSPGAASLY GVTQLSSTTP GVYPSGVVTL KEESFPERPG EPECQYYLKT 300 GDCKFGTSCK FHHPRDRVPP RPNCDLSSIG LPLRPGVQRC SFYVQNGFCK FGSTCKFDHP 360 VGTIRYNPSA SSLADAPVAP YPVTSLLASS SSSSAELIPG DPYLGASSRS TSNNISAGLI 420 FSQSGVSLPP FTDLQTSLSL SGSRITRQGR EIRRSF*

Sequence ? help Back to Top

Protein Sequence Length: 457 aa Download sequence Send to blast

MDMYGRTPPT AMNGSHAPPQ WTPGDADTGL LLQAESSMWR LGLGSETYPQ RAGAPDCAYY  60
MRTGVCGYGS RCRFNHPPDR ASVEATVRAT GQYPERMGAL PCQFYLKTGT CKFGASCKFN  120
HPRNAAAGGS MTHVPLNIYG YPVRQGENEC SYFLKTGQCK FGITCKFHHP HPASASASAS  180
AAATLPPPAS APQFYSSVQH HSLMPGPPSS SLRPLLPGSY MQGAYGPMLL TTPGVLPIQA  240
WNPYSAPVSP ALSPGAASLY GVTQLSSTTP GVYPSGVVTL KEESFPERPG EPECQYYLKT  300
GDCKFGTSCK FHHPRDRVPP RPNCDLSSIG LPLRPGVQRC SFYVQNGFCK FGSTCKFDHP  360
VGTIRYNPSA SSLADAPVAP YPVTSLLASS SSSSAELIPG DPYLGASSRS TSNNISAGLI  420
FSQSGVSLPP FTDLQTSLSL SGSRITRQGR EIRRSF*

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	GSBRNA2T00133045001

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	0.0	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_009142498.1	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	A0A3P5ZAS4	0.0	A0A3P5ZAS4_BRACM; Uncharacterized protein
STRING	Bra004427.1-P	0.0	(Brassica rapa)

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]