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

Lj0g3v0087929.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

LSD

Protein Properties

Length: 87aa MW: 9211.86 Da PI: 8.301

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj0g3v0087929.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	44	3.5e-14	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr +L YPrGA++V+CalC+t+ Lj0g3v0087929.1 7 CNGCRSILLYPRGATNVCCALCNTI 31 ***********************97 PP
2	zf-LSD1	49.4	7.3e-16	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+rGA sVRC++C+tV Lj0g3v0087929.1 46 CGGCRTLLMYTRGAASVRCSCCHTV 70 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	5.5E-13	4	34	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.6E-12	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.0E-17	43	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.2E-13	46	70	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 87 aa Download sequence Send to blast
MQSQLVCNGC RSILLYPRGA TNVCCALCNT ITAVPPPGMD MSQLYCGGCR TLLMYTRGAA 60 SVRCSCCHTV NLAPANQVAH VPCGNCR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Lja.2193	1e-142	floral bud\| flower\| pod\| root

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj0g3v0087929.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

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	BT134028	1e-144	BT134028.1 Lotus japonicus clone JCVI-FLLj-17O11 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024629307.1	7e-53	protein LSD1
Swissprot	Q0J7V9	5e-41	LSD1_ORYSJ; Protein LSD1
TrEMBL	I3S0N1	1e-55	I3S0N1_LOTJA; Uncharacterized protein
STRING	AET04489	2e-52	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4027	33	61

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	4e-44	lsd one like 1

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]