LXL04_026786 | RubberDandelionOmics

Gene overview

LXL04_026786

Reference: OH-1004 Chr: Chr06 Coordinates: 2849263-2854607 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2940 bp · LXL04_026786|LXL04_026786|OH1004|cDNA

ATGGATAACAATTACAACCAATCATCTTCATACGACCCTAATTCTGCACCGTTTCCATCTCAACCTCCATACCCACCTCAAAATTCAGCTCCATATCCTCCATACCCGTACCCATATCCATACCAAtcacaaccaccaccaccgcaGCCGCAATACCCTCCTCAACCCTACCCATATCAGTACCCCGGATACCCATACCCATACCCCACACTGGAACCTCAACTCAACACCCCAGAAAGTGGCGGTAGTGGCCCCACTTC...

CDS

Download CDS FASTA

2940 bp · LXL04_026786|LXL04_026786|OH1004|CDS

ATGGATAACAATTACAACCAATCATCTTCATACGACCCTAATTCTGCACCGTTTCCATCTCAACCTCCATACCCACCTCAAAATTCAGCTCCATATCCTCCATACCCGTACCCATATCCATACCAATCACAACCACCACCACCGCAGCCGCAATACCCTCCTCAACCCTACCCATATCAGTACCCCGGATACCCATACCCATACCCCACACTGGAACCTCAACTCAACACCCCAGAAAGTGGCGGTAGTGGCCCCACTTC...

Protein

Download Protein FASTA

979 aa · LXL04_026786|LXL04_026786|OH1004|PROTEIN

MDNNYNQSSSYDPNSAPFPSQPPYPPQNSAPYPPYPYPYPYQSQPPPPQPQYPPQPYPYQYPGYPYPYPTLEPQLNTPESGGSGPTSATNLPDEDNNSFVNENEPPGNPPGHHHSASYPSAYAPNLSGSLDSSQFLPVQPSASLDLASNQNYQIVPFAATPKKALKVLLLHGNLEICVHEAKNLPNMDVFQVFSKLPGKQTSDPYVSIAITSAVVGRTYVLNNVENPVWNQRFNVPVAHHTAEIHFLVKDKDVVGSQLIG...

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_026786`
TK1151 ID	TkA07G007380
OH-1004 ID	LXL04_026786
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.600
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_026786

Location Chr06:2849263-2854607 (-)

Description Similar to PLDBETA1: Phospholipase D beta 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At4g11830`	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

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026786 · 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:0009793 embryo development ending in seed dormancy Biological Process

GO:0010044 response to aluminum ion 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:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT2G42010

ath:AT4G00240

ath:AT4G11830

ath:AT4G11840

ath:AT4G11850

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

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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.

Cytoplasm0.480

Rank 1 · LXL04_026786 · OH-1004

Cell membrane0.307

Rank 2 · LXL04_026786 · OH-1004

Nucleus0.239

Rank 3 · LXL04_026786 · OH-1004

Lysosome / Vacuole0.128

Rank 4 · LXL04_026786 · OH-1004

Golgi apparatus0.117

Rank 5 · LXL04_026786 · 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.

PF00168.37C2172-280 aa

PF00614.30PLDc372-968 aa

PF13091.13PLDc_2827-863 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026786	`PF00168.37`	C2	172	280	5.4e-18	65.9
LXL04_026786	`PF00614.30`	PLDc	372	968	7.6e-223	741.6
LXL04_026786	`PF13091.13`	PLDc_2	827	863	3.4e-09	37.3

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
`P93733`	Arabidopsis thaliana	Phospholipase D beta 1	60.000%	Swiss-Prot	strong database homology
`O23078`	Arabidopsis thaliana	Phospholipase D beta 2	63.636%	Swiss-Prot	strong database homology
`Q9T053`	Arabidopsis thaliana	Phospholipase D gamma 1	64.277%	Swiss-Prot	strong database homology
`Q9T052`	Arabidopsis thaliana	Phospholipase D gamma 3	63.509%	Swiss-Prot	strong database homology
`Q9T051`	Arabidopsis thaliana	Phospholipase D gamma 2	61.844%	Swiss-Prot	strong database homology

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