PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

KN538706.1_FGP032

Organism

Oryza longistaminata

Taxonomic ID

4528

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: 144aa MW: 15100.3 Da PI: 8.648

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN538706.1_FGP032	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	40.2	5.6e-13	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV KN538706.1_FGP032 6 CGGCRTLLMYTRNADTVRCSCCSTV 30 ***********************99 PP
2	zf-LSD1	49.4	7.2e-16	44	67	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GApsV+Ca+C+ KN538706.1_FGP032 44 CGQCRTTLMYPYGAPSVKCAICHY 67 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.7E-14	3	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.2E-10	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.5E-12	41	69	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.7E-15	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 144 aa Download sequence Send to blast
MAHLICGGCR TLLMYTRNAD TVRCSCCSTV NLVRPVNNIA HVSCGQCRTT LMYPYGAPSV 60 KCAICHYITN TGMNTVAPTP SPMPTSSGSS YNAPPSGSSY NAPPSTSVPT SRPQNVTVVV 120 ENPMTVDEKG KLVSNVVVGV TTGK

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	KN538706.1_FGP032

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	8e-97	protein LOL3
Swissprot	Q6ASS2	7e-98	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0D9ZAW2	7e-98	A0A0D9ZAW2_9ORYZ; Uncharacterized protein
STRING	OGLUM03G27760.1	1e-98	(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	9e-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]