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

Cucsa.126650.1

Common Name

Csa_1G073830, LOC101209220

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

LSD

Protein Properties

Length: 133aa MW: 14344.4 Da PI: 6.4783

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.126650.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	29.6	1.1e-09	43	67	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg Cr lL Y GA++V+C++C tV Cucsa.126650.1 43 CGTCRRLLKYLKGARYVQCSCCSTV 67 ***********************99 PP
2	zf-LSD1	41.9	1.6e-13	81	105	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C +lL+YP+GA+sVRC++C V Cucsa.126650.1 81 CGSCAVLLMYPYGASSVRCSSCTSV 105 **********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.6E-13	40	70	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.0E-7	43	67	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.4E-12	78	107	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.3E-11	81	105	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009617	Biological Process	response to bacterium

Sequence ? help Back to Top
Protein Sequence Length: 133 aa Download sequence Send to blast
MDVHEIEKDE DDGPPPGWEP ITPSLPLPPP PQLSSADMAQ MVCGTCRRLL KYLKGARYVQ 60 CSCCSTVNFV LEAHEVGQVK CGSCAVLLMY PYGASSVRCS SCTSVTEIGV HNRRPPWSVH 120 QGQAAPPTNF VQ*

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	LN681932	8e-54	LN681932.1 Cucumis melo genomic scaffold, anchoredscaffold00001.
GenBank	LN713266	8e-54	LN713266.1 Cucumis melo genomic chromosome, chr_12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011653178.1	1e-94	PREDICTED: protein LOL2 isoform X1
Swissprot	O65426	3e-42	LOL2_ARATH; Protein LOL2
TrEMBL	A0A0A0LXE3	1e-79	A0A0A0LXE3_CUCSA; Uncharacterized protein
TrEMBL	A0A1S3B6K2	1e-79	A0A1S3B6K2_CUCME; protein LOL2 isoform X3
STRING	XP_004163439.1	2e-80	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF13026	31	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21610.1	1e-32	lsd one like 2

Link Out ? help Back to Top
Phytozome	Cucsa.126650.1
Entrez Gene	101209220

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]