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

BGIOSGA027709-PA

Common Name

OsI_27698

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

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; Oryza sativa

Family

LSD

Protein Properties

Length: 147aa MW: 15914.4 Da PI: 8.8745

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA027709-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	27.7	4.4e-09	47	69	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C+gC tlL Y rGA+++RC++C+ BGIOSGA027709-PA 47 CSGCPTLLFYNRGASNIRCPSCN 69 **********************8 PP
2	zf-LSD1	32.5	1.4e-10	85	109	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+ P+GA+ V+Ca C V BGIOSGA027709-PA 85 CGQCRTTLMHPPGASTVQCATCRYV 109 **********************876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.8E-6	4	34	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.1E-4	7	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.3E-10	45	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.5E-9	47	69	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.7E-11	82	112	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.9E-11	85	109	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 147 aa Download sequence Send to blast
MQDQLICSGC RRVVQYRRGV AGVCCPGCNT LTAVNPSAVA DMSELICSGC PTLLFYNRGA 60 SNIRCPSCNR LNSTRSANQI AHLTCGQCRT TLMHPPGAST VQCATCRYVN HVRDARPQTV 120 LVENPKTLDD KGKLVSNVVV GVTSWKR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.14929	0.0	callus\| flower\| leaf\| root\| stem

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	AK120454	0.0	AK120454.1 Oryza sativa Japonica Group cDNA clone:J013104B05, full insert sequence.
GenBank	CT830765	0.0	CT830765.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA016M05, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648991.1	1e-104	protein LOL4
Swissprot	Q84UR0	1e-105	LOL4_ORYSJ; Protein LOL4
TrEMBL	A0A0D3GW10	1e-103	A0A0D3GW10_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0QDY2	1e-103	A0A0E0QDY2_ORYRU; Uncharacterized protein
TrEMBL	B8BAG4	1e-103	B8BAG4_ORYSI; Uncharacterized protein
TrEMBL	I1QFD0	1e-103	I1QFD0_ORYGL; Uncharacterized protein
STRING	ORUFI08G02140.1	1e-104	(Oryza rufipogon)
STRING	OS08T0130100-01	1e-104	(Oryza sativa)
STRING	ORGLA08G0013100.1	1e-104	(Oryza glaberrima)
STRING	OBART08G01910.1	1e-104	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12333	29	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	1e-40	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]