Gene detail

Detailed information of FUN_025860-T2 in Dendrogyra cylindrus

Genomic Location: contig_57:2199771...2214637
NR annotation: XP_027046702.1, cytosolic phospholipase A2-like [Pocillopora damicornis]
Species Dendrogyra cylindrus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_025860-T2

CACCTAGTGTGGCTTTTGATTTAAAACGCAGATAACTAAGTAAAAGTTTATCGCCAGAATTCTTTAGATTATATTTGGAGGGGAGCTTAAGAGAAATAAGGGATGATAAATAAGAAGGCGCTAAAAAAATAGGAATCTTAAAAGTAATTAAAAGTAATTAAAATATATGCTTTGAAAACTGACCTTTTTGCTGGAGTGTACCTATGAATACTcttccacaaaaaaaaaaaaaactcaagcgTAGCGATTTCCTGATACGTGATGTTTCGACGTGTTAACGAGGTTTCCTCTGTTTAATTTGCAGGCTTCGTATCGTCCATGTTTGTTACTAGAAATCAAAGTACTTCGTGGACATCATATCACGTTAGGTTCATTCGATGACTTGCTTGATACACCAGATCCATATGTCCAGCTGTTTATTCCAACATCGCCAAACGGCaaacgaaaaacaaaagttCAAAGTAACACAACCGATCCAACCTGGGACgaagtcttctatttttatCTCGATCCTGAGAAATTGAATTTGCTACAAATAACACTAATGGAATCGGACATCATAATTGATGACTTGGTGGAAAGAGAAACTTTCGACCTTGGAACTTTGGAGATAAACAAAACTTGCGAGAAGACGTTTACATTTCGTGAGGTGTCAAAAGTTGACATGGAAATGAAGGTGCAATATTGCACTGCGCCGGCAGACATGCGTTACAGTACAGAACTTTGCCAGGAGGAGGAGAACTTTATTCTGAAAAGAAAGGAGTTTGTTTtcgaatcaatgaaaacagtgTTTGGTGAGCGCGGACCACAAACGATCGATGAAGTCCCGAACGTCGCAATTCTGGCGTCCGGTGGTGGATTTCGCGCCATGGTGTCACTCAGCGGTGTGTTTTGTGCTCTAAAGGACATGCGCGTATTAGACTGCGCAATGTATGCGGCAGGCCTGTCCGGTTCAGCCTGGTACCTCTCCACGTTGTACTCTCACCCTGAATGGCCCCATGTCCATCCAAGAGTGATCCGAGACACTCTGAGAGACAACATTAATGACAACTGGATGTGGCTCATGTTTACACCATCCTGGATGTACCTACATCTAAAAATTATTCTGGAAAAGAAGCGACAAGGACAGCCAGTTAGTTTTACCGACTTGTTTGGTTACTTGGTCGGCGACACGATTCTGAAAGATCGCGACAAAATGCCGTTGCTAAGTGAACAACAGGAGAAAATTGCTAGCGGTGTGGTTCCTTTTCCTCTGTACTGCTGTGTACACGTGAAAAAAGATGTCTCTGCCAAGGAATACTGCGAATGGCTCGAGTTTTCGCCGTATGAAATAGGCATAGCAAGGTATGGCACTTTCATGAAAACGGAATACTTTGgaagcaagtttttctgcggCAAATTAGTTGGACCGTATCCAGAACCTCCACTTCACTACCTACAAGGTATATGGGGCAGCGCCTTCACCATACTACTTCAGCGTGTGCTAAAAGAGGGAAAACTTCCCAGTGACACAATAGACGAGATGAGTAACCCTGGAGATCTGAGAGAAGAGCTACGGGAAATGATTGACAGaaaagatgatgatgaagatgacgatAGTGACAGCGATAATGAGGATGATGACGGCGTCacacacaacaacaacacaagCGATGAAACTAAGGAAAAAGAAGACGATGACGAAGGTTTCTTCACACGGTTCTTTGAAAATCTTGTGGATAAGCTCTCAGTGTTAAAAACTCGCGTTGGTCGAGCGGGCCTGGTACATAATTTTCTTCGCGGCCTGCAAATATTAACGACTCCATTTCTCTcagACGAAGTTGAGGATGAGACTGATGCCGCTGACGAATTAGCACTCACATCCAGTCATATATACTTGGTTGACAGCGGGCTCGTGTTCAATTCCCCGTACCCTCCCCTGTTGAGGCCTGAGAGGAATGTGGACGTCTTTGTCTCTTTTGACTTCAGCGCACGAAAGAGAGATGTTGAGTTTCCTTTCGAGGAACTCTTATTAGCAGAAGAATGGGCcaaaaagaacaaattaaaatttccTCCGATTAAAGCAGAACTGCAATACAAAAAGCATGGTATGAAGGAAGTATACGTGTTTCGACATCCTAAAGATCCAACATGTCCAATCGTTATCCACTTTGTGCTGGCAAATAAAACTTTCAAGCAACAAATTAAACCAGGCGTACCTCGAGAGACAGAAGAACAAAAGGACTATGCTAACTTCTCACTTTTCGAGGATCGCGATAACTGGTACAGCACTTTCAACTTTCATTACAAAAAGGAACATTATAATCGGCTCGCGGATCTCAATGAATTTAACACCCTGCTTGgtgaacaaaccataaaagACGTTATTTCTGAATGCATACAAAGACGACGCCAACAGCGACTTCAGTCCTCGGAATGTGAAGCACAAAGTTAATTATGTTCAGCGATCATACGCTATCGACTTATTGGTACTTATTATAAAAATAGACAACACGAAGCGAAACAGaaactttattatttatttcctcACTATATtcaaaactttatttatttataatataTGAAATTGTGTACGTATAGACAATGAAGTTATTCTACAATGCGAGCGCTAAGTTAGCGCCGATTTTGCATGAGCTTGCGCATTCCTATATTTGACGGCGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P47713	Cytosolic phospholipase A2 OS=Mus musculus OX=10090 GN=Pla2g4a PE=1 SV=1
Q9TT38	Cytosolic phospholipase A2 OS=Oryctolagus cuniculus OX=9986 GN=PLA2G4A PE=2 SV=1
P47712	Cytosolic phospholipase A2 OS=Homo sapiens OX=9606 GN=PLA2G4A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001116 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01735 all species →	PLA2_B	Lysophospholipase catalytic domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002642 all species →	Domain	Lysophospholipase, catalytic domain	Interproscan
IPR016035 all species →	Homologous_superfamily	Acyl transferase/acyl hydrolase/lysophospholipase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10728 all species →	CYTOSOLIC PHOSPHOLIPASE A2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004620 all species →	Molecular Function	phospholipase activity	Interproscan
GO:0009395 all species →	Biological Process	phospholipid catabolic process	Interproscan
GO:0004623 all species →	Molecular Function	phospholipase A2 activity	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005544 all species →	Molecular Function	calcium-dependent phospholipid binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0046475 all species →	Biological Process	glycerophospholipid catabolic process	Interproscan
GO:0047498 all species →	Molecular Function	calcium-dependent phospholipase A2 activity	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K16342	PLA2G4, CPLA2; cytosolic phospholipase A2	EC:3.1.1.4	Choline metabolism in cancer	ko05231	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Dendrogyra cylindrus tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Dendrogyra cylindrus, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →