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

OGLUM03G27760.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LSD

Protein Properties

Length: 146aa MW: 15360.6 Da PI: 8.487

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM03G27760.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	40.1	5.8e-13	8	32	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV OGLUM03G27760.1 8 CGGCRTLLMYTRNADTVRCSCCSTV 32 ***********************99 PP
2	zf-LSD1	49.4	7.4e-16	46	69	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GApsV+Ca+C+ OGLUM03G27760.1 46 CGQCRTTLMYPYGAPSVKCAICHY 69 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.8E-14	5	35	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.2E-10	8	32	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.6E-12	43	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.9E-15	46	70	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 146 aa Download sequence Send to blast
MEMAHLICGG CRTLLMYTRN ADTVRCSCCS TVNLVRPVNN IAHVSCGQCR TTLMYPYGAP 60 SVKCAICHYI TNTGMNTVAP TPSPMPTSSG SSYNAPPSGS SYNAPPSTSV PTSRPQNVTV 120 VVENPMTVDE KGKLVSNVVV GVTTGK

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}.

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	AK111569	0.0	AK111569.1 Oryza sativa Japonica Group cDNA clone:J013071E13, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015628086.1	9e-99	protein LOL3
Swissprot	Q6ASS2	1e-100	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0D9ZAW2	1e-99	A0A0D9ZAW2_9ORYZ; Uncharacterized protein
STRING	OGLUM03G27760.1	1e-100	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	3e-42	LSD family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]