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

OBART07G13980.1

Organism

Oryza barthii

Taxonomic ID

65489

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: 304aa MW: 33077.4 Da PI: 10.0548

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART07G13980.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.8	1.8e-13	202	226	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+s++Ca+C tV OBART07G13980.1 202 CSGCRNLLMYPAGATSICCAVCGTV 226 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	5.2E-13	199	229	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.7E-11	202	226	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 304 aa Download sequence Send to blast
MKAVAAARRG EPYIARLICR RARRQHGRST GATVDLDGSL TRQACHHTVL EPGRPSEGLV 60 LRPSSSSPSR SYKIGITPVN EKRVQPTTSP RSRTGVIVDR AILAEDKKHA PRSESPWLKK 120 PMHGVSGSTA MASTPWSSMP PSSHSLEQMA VLYVTFLREV DVGRGLVALC AHWLKLIVAL 180 LSTSLIYQEV LSSLGAQSQL VCSGCRNLLM YPAGATSICC AVCGTVTAVP APSMHIIHSE 240 QKSSCNVHEN KERLKGNTNG FRAPQRCARR VDGACTQVPN PLTLAMSLEK YTLKLLWSYL 300 HCCV

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	AK061509	1e-145	AK061509.1 Oryza sativa Japonica Group cDNA clone:006-309-F08, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015644598.1	2e-67	protein LOL1 isoform X2
Swissprot	Q69UP7	1e-68	LOL1_ORYSJ; Protein LOL1
TrEMBL	A0A0D3GQV2	0.0	A0A0D3GQV2_9ORYZ; Uncharacterized protein
STRING	OBART07G13980.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP21731	4	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	1e-15	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]