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

GSBRNA2T00047645001

Common Name

GSBRNA2T00047645001

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

LSD

Protein Properties

Length: 245aa MW: 27240.4 Da PI: 7.9178

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00047645001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.4	2.3e-13	156	180	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lLsYPrG ++V+C++C+tV GSBRNA2T00047645001 156 CGSCRRLLSYPRGTKHVKCSCCQTV 180 ************************9 PP
2	zf-LSD1	42.7	9.1e-14	194	218	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C++C lL+YP+GApsVRC++C V GSBRNA2T00047645001 194 CSNCELLLMYPYGAPSVRCSSCKSV 218 **********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.0E-17	153	183	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.3E-11	156	180	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.4E-10	191	219	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.9E-11	194	218	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 245 aa Download sequence Send to blast
MSRHGVSVSP SPKLGFGRDK LNGTYKPVFL YNSYGFGLDN VTTCSVRLKI EPKTKEEKIE 60 CPVLVYRNQC HIPVCLVFIS GEFSHLCKRV MIAEAETKDM MEEIQSQKKE EDEDEEEGPP 120 PGWESTVLPP PPISAAEISG IFNQSVFRGS MAQMVCGSCR RLLSYPRGTK HVKCSCCQTV 180 NLVLEAYQVG QVKCSNCELL LMYPYGAPSV RCSSCKSVTD IREDNKRPPW SVLQGPLKTF 240 SSVR*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00047645001

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_009108490.1	2e-85	PREDICTED: protein LOL2
Swissprot	O65426	5e-59	LOL2_ARATH; Protein LOL2
TrEMBL	A0A078H3K3	1e-180	A0A078H3K3_BRANA; BnaC03g64060D protein
STRING	Bo3g162470.1	5e-92	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13611	22	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21610.1	1e-53	lsd one like 2

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]