Genomic Location: chr11:3287996...3308053
NR annotation: XP_028397957.1, lysine-specific demethylase 5A-like [Dendronephthya gigantea]
Species Eunicella cavolini · all data for this species · gene families
| CDS |
| ENSLDHT00000015030 |
| Protein |
| ENSLDHP00000013783.1 |
| UniProt accession | Description |
|---|---|
| P29375 | Lysine-specific demethylase 5A OS=Homo sapiens OX=9606 GN=KDM5A PE=1 SV=3 |
| Q3UXZ9 | Lysine-specific demethylase 5A OS=Mus musculus OX=10090 GN=Kdm5a PE=1 SV=2 |
| P41229 | Lysine-specific demethylase 5C OS=Homo sapiens OX=9606 GN=KDM5C PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004118 (this species only) · gene tree & orthology |
| Transcription factor family | ARID · all TF in this species |
| Ubiquitin family | E3|E3 activity RING|PHD · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF21323 all species → | KDM5_C-hel | Lysine-specific demethylase 5, C-terminal helical domain | Domain | Interproscan |
| PF02373 all species → | JmjC | JmjC domain, hydroxylase | Domain | Interproscan |
| PF08429 all species → | PLU-1 | PLU-1-like protein | Family | Interproscan |
| PF00628 all species → | PHD | PHD-finger | Domain | Interproscan |
| PF02928 all species → | zf-C5HC2 | C5HC2 zinc finger | Domain | Interproscan |
| PF02375 all species → | JmjN | jmjN domain | Family | Interproscan |
| PF01388 all species → | ARID | ARID/BRIGHT DNA binding domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR048615 all species → | Domain | Lysine-specific demethylase 5, C-terminal helical domain | Interproscan |
| IPR036431 all species → | Homologous_superfamily | ARID DNA-binding domain superfamily | Interproscan |
| IPR019786 all species → | Conserved_site | Zinc finger, PHD-type, conserved site | Interproscan |
| IPR003349 all species → | Domain | JmjN domain | Interproscan |
| IPR013083 all species → | Homologous_superfamily | Zinc finger, RING/FYVE/PHD-type | Interproscan |
| IPR001606 all species → | Domain | ARID DNA-binding domain | Interproscan |
| IPR019787 all species → | Domain | Zinc finger, PHD-finger | Interproscan |
| IPR003347 all species → | Domain | JmjC domain | Interproscan |
| IPR013637 all species → | Domain | Lysine-specific demethylase-like domain | Interproscan |
| IPR001965 all species → | Domain | Zinc finger, PHD-type | Interproscan |
| IPR047970 all species → | Domain | Lysine-specific demethylase 5A, second PHD finger | Interproscan |
| IPR011011 all species → | Homologous_superfamily | Zinc finger, FYVE/PHD-type | Interproscan |
| IPR004198 all species → | Domain | Zinc finger, C5HC2-type | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10694 all species → | LYSINE-SPECIFIC DEMETHYLASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0000785 all species → | Cellular Component | chromatin | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006338 all species → | Biological Process | chromatin remodeling | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0010468 all species → | Biological Process | regulation of gene expression | Interproscan |
| GO:0032452 all species → | Molecular Function | histone demethylase activity | Interproscan |
| GO:0034647 all species → | Molecular Function | histone H3K4me/H3K4me2/H3K4me3 demethylase activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K11446 | KDM5, JARID1; [histone H3]-trimethyl-L-lysine4 demethylase | EC:1.14.11.67 | Chromosome and associated proteins | ko03036 | deepkoala |
Genes whose expression across the transcriptome samples of Eunicella cavolini 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.
Whether this gene can be visualised in the single-cell atlases of Eunicella cavolini, 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.
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.
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 → |