Genomic Location: chr12:20546004...20549558
NR annotation: XP_020607170.1, lysine-specific demethylase 4B-like [Orbicella faveolata]
Species Catalaphyllia jardinei · all data for this species · gene families
| CDS |
| ENSAVKT00000013452 |
| Transcript |
| ENSAVKT00000013452 |
| Protein |
| ENSAVKP00000012588.1 |
| UniProt accession | Description |
|---|---|
| O94953 | Lysine-specific demethylase 4B OS=Homo sapiens OX=9606 GN=KDM4B PE=1 SV=4 |
| Q91VY5 | Lysine-specific demethylase 4B OS=Mus musculus OX=10090 GN=Kdm4b PE=2 SV=1 |
| O75164 | Lysine-specific demethylase 4A OS=Homo sapiens OX=9606 GN=KDM4A PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0033509 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF02375 all species → | JmjN | jmjN domain | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR003349 all species → | Domain | JmjN domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10694 all species → | LYSINE-SPECIFIC DEMETHYLASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| 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:0010468 all species → | Biological Process | regulation of gene expression | Interproscan |
| GO:0032452 all species → | Molecular Function | histone demethylase activity | Interproscan |
| GO:0032454 all species → | Molecular Function | histone H3K9 demethylase activity | Interproscan |
ENSAVKP00000012588.1.Genes whose expression across the transcriptome samples of Catalaphyllia jardinei 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 Catalaphyllia jardinei, 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 → |
