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

ONIVA03G28290.1

Organism

Oryza nivara

Taxonomic ID

4536

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: 319aa MW: 33689.7 Da PI: 9.4139

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA03G28290.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.3	2.5e-13	131	155	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr +L+YP GApsV+CalC+++ ONIVA03G28290.1 131 CHGCRSVLRYPSGAPSVCCALCQAI 155 ***********************97 PP
2	zf-LSD1	38.6	1.7e-12	172	196	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV ONIVA03G28290.1 172 CGGCRTLLMYTRNADTVRCSCCSTV 196 ***********************99 PP
3	zf-LSD1	47.9	2.2e-15	210	233	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GApsV+Ca+C+ ONIVA03G28290.1 210 CGQCRTTLMYPYGAPSVKCAICHY 233 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.7E-12	128	158	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.2E-9	131	155	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.7E-14	169	199	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.6E-10	172	196	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.1E-11	207	235	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.7E-14	210	234	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 319 aa Download sequence Send to blast
MTSRAEPYFP RPPSSSLPSS PFPLCSISFL PPVVCVSPQI NPIQNQPPRR PPPQPHPPRD 60 SSSSSSSPAR GAAALLLVLG RSPRSWRASL PWSHHHHYSL QARGGWSTLR WSRLLPAAAA 120 AAPGMQSQIV CHGCRSVLRY PSGAPSVCCA LCQAITTVPP PAPVMEMAHL ICGGCRTLLM 180 YTRNADTVRC SCCSTVNLVR PVNNIAHVSC GQCRTTLMYP YGAPSVKCAI CHYITNTGMN 240 TVAPTPSPMP TSSGSSYNAP PSGSSYNAPP SGSSYNAPPP TSAPTSRPQN VTVVVENPMT 300 VDEKGKLVSN VVVGVTTGK

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	CT830679	0.0	CT830679.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA116O15, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015628086.1	1e-126	protein LOL3
Swissprot	Q6ASS2	1e-127	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0E0GQX7	0.0	A0A0E0GQX7_ORYNI; Uncharacterized protein
STRING	ONIVA03G28290.1	0.0	(Oryza nivara)

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	1e-53	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]