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

GSBRNA2T00096074001

Common Name

GSBRNA2T00096074001

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: 358aa MW: 39567.2 Da PI: 8.0486

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00096074001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.7	3.5e-07	78	103	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ykt+ C f + GtC Gd C+FaHg+ GSBRNA2T00096074001 78 YKTRMCAKFKA-GTCMNGDPCNFAHGM 103 9********.***********95 PP
2	zf-CCCH	17.1	9.6e-06	167	181	11	25
GTS.--TTTTT-SS-S CS zf-CCCH 11 rtG.tCkyGdrCkFaH 25 G +C+yGdrC+F H GSBRNA2T00096074001 167 F-GeECPYGDRCNFVH 181 5.449*********** PP
3	zf-CCCH	36	1.1e-11	244	269	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +kt++C+ f G+C++Gd+C+FaHg+ GSBRNA2T00096074001 244 WKTRICMKFEN-GQCPFGDNCHFAHGQ 269 8********.***********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	9.1E-15	75	110	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-8	76	108	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0051	77	103	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.061	77	104	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.018	156	183	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.96E-6	156	182	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.779	156	184	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.1E-7	158	182	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.67E-9	239	273	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.9E-14	240	272	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.2E-7	243	269	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.882	243	270	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-9	244	269	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: 358 aa Download sequence Send to blast
MDSSYSDSRP MFVQSPYGGG WNQTQTNDSM NNEQSESQSQ PSLKRPRLHD DTVFNPTSNN 60 SSWMAPPSMN KGTANIFYKT RMCAKFKAGT CMNGDPCNFA HGMEDLRQPP SNWQEIVGPP 120 PPPAVQDRGR ERERERERPS SSSVSASNWE DDQKIILRMK LCRKFCFGEE CPYGDRCNFV 180 HQDLSKFRDE SGKLRESLAI SVGTDPASVE NGGGTGSHQV EVNRRGGIPV PASLNNGVVK 240 TVYWKTRICM KFENGQCPFG DNCHFAHGQA ELLHYSGEAV KAVASLSKQT VVPGNEAFAM 300 KPSAAQVVTS DGSGLNDEGR RKKCLLKWSD SKKINRIYGD WIDDLPVGQK STKPVES*

Sequence ? help Back to Top

Protein Sequence Length: 358 aa Download sequence Send to blast

MDSSYSDSRP MFVQSPYGGG WNQTQTNDSM NNEQSESQSQ PSLKRPRLHD DTVFNPTSNN  60
SSWMAPPSMN KGTANIFYKT RMCAKFKAGT CMNGDPCNFA HGMEDLRQPP SNWQEIVGPP  120
PPPAVQDRGR ERERERERPS SSSVSASNWE DDQKIILRMK LCRKFCFGEE CPYGDRCNFV  180
HQDLSKFRDE SGKLRESLAI SVGTDPASVE NGGGTGSHQV EVNRRGGIPV PASLNNGVVK  240
TVYWKTRICM KFENGQCPFG DNCHFAHGQA ELLHYSGEAV KAVASLSKQT VVPGNEAFAM  300
KPSAAQVVTS DGSGLNDEGR RKKCLLKWSD SKKINRIYGD WIDDLPVGQK STKPVES*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	127	137	RGRERERERER

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00096074001

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_013675122.1	0.0	zinc finger CCCH domain-containing protein 39-like
Swissprot	Q9LT81	1e-175	C3H39_ARATH; Zinc finger CCCH domain-containing protein 39
TrEMBL	A0A078ILE1	0.0	A0A078ILE1_BRANA; BnaA01g26190D protein
STRING	Bra038204.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10066	25	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G19360.1	1e-171	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]