Genomic Location: JASJOG010000555.1:31941...44711
NR annotation: CAB3983048.1, probable RNA-binding 19 [Paramuricea clavata]
Species Heliopora coerulea · all data for this species · gene families
| CDS |
| ENSBQFT00000060005 |
| Protein |
| ENSBQFP00000052673.1 |
| UniProt accession | Description |
|---|---|
| Q9Y4C8 | Probable RNA-binding protein 19 OS=Homo sapiens OX=9606 GN=RBM19 PE=1 SV=3 |
| Q8R3C6 | Probable RNA-binding protein 19 OS=Mus musculus OX=10090 GN=Rbm19 PE=1 SV=1 |
| Q54PB2 | Multiple RNA-binding domain-containing protein 1 OS=Dictyostelium discoideum OX=44689 GN=mrd1 PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003576 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00076 all species → | RRM_1 | RNA recognition motif | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR051945 all species → | Family | RRM MRD1 RNA Processing and Ribosome Biogenesis | Interproscan |
| IPR034423 all species → | Domain | Probable RNA-binding protein 19, RNA recognition motif 5 | Interproscan |
| IPR000504 all species → | Domain | RNA recognition motif domain | Interproscan |
| IPR035979 all species → | Homologous_superfamily | RNA-binding domain superfamily | Interproscan |
| IPR012677 all species → | Homologous_superfamily | Nucleotide-binding alpha-beta plait domain superfamily | Interproscan |
| IPR034421 all species → | Domain | Probable RNA-binding protein 19, RNA recognition motif 6 | Interproscan |
| IPR003954 all species → | Domain | RNA recognition motif domain, eukaryote | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR48039 all species → | RNA-BINDING MOTIF PROTEIN 14B | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003729 all species → | Molecular Function | mRNA binding | Interproscan |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K14787 | MRD1, RBM19; multiple RNA-binding domain-containing protein 1 | - | Ribosome biogenesis | ko03009 | deepkoala |
Transcript abundance of ENSBQFP00000052673.1 across 37 RNA-seq samples of Heliopora coerulea. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| Whole coral | 17 | 11 | 2.73 | 8.10 | |
| polyp and skeleton · 31C, 3week | 6 | 6 | 14.00 | 20.49 | |
| polyp and skeleton · 28C, 3week | 6 | 4 | 10.55 | 20.99 | |
| polyp and skeleton · 26C, 3week | 4 | 2 | 7.91 | 17.46 | |
| polyp and skeleton · 28C, 24hr | 2 | 2 | 17.08 | 17.55 | |
| polyp and skeleton · 31C, 24hr | 2 | 2 | 23.08 | 35.31 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| ERR6178782 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 8.10 |
| ERR6178781 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.28 |
| ERR6178783 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.15 |
| ERR6178770 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.10 |
| ERR6178389 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.06 |
| ERR6178776 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.99 |
| ERR6178774 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.95 |
| ERR6178778 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.91 |
| ERR6178779 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.84 |
| ERR6178773 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.30 |
| ERR6178780 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 2.81 |
| ERR6178387 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178388 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178771 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178772 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178775 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178777 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| SRR12587804 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 20.49 |
| SRR12587800 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 17.35 |
| SRR12587799 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 16.19 |
| SRR12578066 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 11.76 |
| SRR12578065 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 11.04 |
| SRR12578068 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 7.17 |
| SRR12587807 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 20.99 |
| SRR12587802 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 20.02 |
| SRR12587808 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 14.02 |
| SRR12587803 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 8.30 |
| SRR12578067 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR5949849 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587805 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 17.46 |
| SRR12587798 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 14.16 |
| SRR12587801 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR12587806 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR5949850 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 17.55 |
| SRR12578063 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 16.61 |
| SRR5949848 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 35.31 |
| SRR12578064 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 10.86 |
Source: CnidoSite RNA-seq expression matrices (HCOER_TPM,
StringTie quantification over 37 runs), joined to SRA sample
metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped
by the descriptor carried in the expression matrix itself.
Genes whose expression across the transcriptome samples of Heliopora coerulea 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.
| Direction | Partners | Most correlated partner | PCC |
|---|---|---|---|
| Positively correlated | 39 | ENSBQFP00000009007 | 0.918668882560696 |
| Negatively correlated | 25 | ENSBQFP00000032001 | -0.794250527455471 |
Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list. Partner counts were matched on ENSBQFP00000052673, the spelling this network uses.
Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, 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. | ready | open → |
| 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 → |
