LXL04_022284 | RubberDandelionOmics

Gene overview

LXL04_022284

Reference: OH-1004 Chr: Chr04 Coordinates: 147521080-147524978 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2772 bp · LXL04_022284|LXL04_022284|OH1004|cDNA

ATGCCTTTATTCACTCTTTTTCCGGATCCTCCACGTGTTTTACGGTTACGTTTTTGGTTGCCAACCACAACCACCTCACACATCCTTGTATTCTTGGCCCCCACCGCTGCAGCCATCTATATTTGCACTCACAATCCGCCGTCATTCGCCGGAGATTCAAACGGCACTTCCACCACCACCGTATCTCCGGCGATCAGTCGGTTACGCAACCAACATTGTGGTGCACCGATGATTTCTAGCTGTGATTCGGATTCAGATTC...

CDS

Download CDS FASTA

2772 bp · LXL04_022284|LXL04_022284|OH1004|CDS

ATGCCTTTATTCACTCTTTTTCCGGATCCTCCACGTGTTTTACGGTTACGTTTTTGGTTGCCAACCACAACCACCTCACACATCCTTGTATTCTTGGCCCCCACCGCTGCAGCCATCTATATTTGCACTCACAATCCGCCGTCATTCGCCGGAGATTCAAACGGCACTTCCACCACCACCGTATCTCCGGCGATCAGTCGGTTACGCAACCAACATTGTGGTGCACCGATGATTTCTAGCTGTGATTCGGATTCAGATTC...

Protein

Download Protein FASTA

923 aa · LXL04_022284|LXL04_022284|OH1004|PROTEIN

MPLFTLFPDPPRVLRLRFWLPTTTTSHILVFLAPTAAAIYICTHNPPSFAGDSNGTSTTTVSPAISRLRNQHCGAPMISSCDSDSDSVVYLHGDLDLTIAEARCLPNMDLLSDRMHRCFTIFNFCKSPLWRKRRKLQHRRKIITSDPYVTVSIGGATIARTRVISNSQNPVWNEHSVTPLAHPVSQLEFLVKDNDLFGADLIGIVVIPAERVMSGDLIDDWFPIIGPSGKPPKPNTAIRLKIKFTSCDDRNDGKPIATDE...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_022284`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_022284

Location Chr04:147521080-147524978 (-)

Description Similar to PLDDELTA: Phospholipase D delta

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g35790`	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond to generate phosphatidic acids (PA).	Involvement of a novel Arabidopsis phospholipase D, AtPLDdelta, in dehydration-inducible accumulation of phosphatidic acid in stress signalling.2001 · DOI: 10.1046/j.1365-313x.2001.01060.x Kinetic analysis of Arabidopsis phospholipase Ddelta. Substrate preference and mechanism of activation by Ca2+ and phosphatidylinositol 4,5-biphosphate.2002 · DOI: 10.1074/jbc.m209598200
`At2g42010`	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond to generate phosphatidic acids (PA).	No verified direct reference in this release
`At4g00240`	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond to generate phosphatidic acids (PA).	No verified direct reference in this release
`At4g11850`	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond to generate phosphatidic acids (PA).	Expression and characterization of Arabidopsis phospholipase Dgamma2.2006 · DOI: 10.1016/j.bbalip.2006.09.017
`At4g11840`	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond to generate phosphatidic acids (PA).	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022284 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006643 membrane lipid metabolic process Biological Process

GO:0006979 response to oxidative stress Biological Process

GO:0009395 phospholipid catabolic process Biological Process

GO:0009409 response to cold Biological Process

GO:0009789 positive regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0010044 response to aluminum ion Biological Process

GO:0012501 programmed cell death Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0045087 innate immune response Biological Process

GO:0046470 phosphatidylcholine metabolic process Biological Process

GO:0046473 phosphatidic acid metabolic process Biological Process

KEGG gene cross-reference

ath:AT2G42010

ath:AT4G00240

ath:AT4G11840

ath:AT4G11850

ath:AT4G35790

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Cytoplasm0.288

Rank 1 · LXL04_022284 · OH-1004

Cell membrane0.284

Rank 2 · LXL04_022284 · OH-1004

Endoplasmic reticulum0.180

Rank 3 · LXL04_022284 · OH-1004

Nucleus0.173

Rank 4 · LXL04_022284 · OH-1004

Golgi apparatus0.151

Rank 5 · LXL04_022284 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00168.37C2134-223 aa

PF00614.30PLDc314-912 aa

PF13091.13PLDc_2769-808 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022284	`PF00168.37`	C2	134	223	7.5e-17	62.2
LXL04_022284	`PF00614.30`	PLDc	314	912	2.4e-218	726.7
LXL04_022284	`PF13091.13`	PLDc_2	769	808	5.7e-09	36.6

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9C5Y0`	Arabidopsis thaliana	Phospholipase D delta	63.188%	Swiss-Prot	strong database homology
`P93733`	Arabidopsis thaliana	Phospholipase D beta 1	54.688%	Swiss-Prot	strong database homology
`O23078`	Arabidopsis thaliana	Phospholipase D beta 2	53.015%	Swiss-Prot	strong database homology
`Q9T053`	Arabidopsis thaliana	Phospholipase D gamma 1	51.688%	Swiss-Prot	strong database homology
`Q9T052`	Arabidopsis thaliana	Phospholipase D gamma 3	51.957%	Swiss-Prot	strong database homology

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