Genomic Location: BLFK01000502.1:397247...404127
NR annotation: XP_020625939.1, small nuclear ribonucleoprotein Sm D1-like [Orbicella faveolata]
Species Astreopora myriophthalma · all data for this species · gene families
| CDS |
| BRAKERYMET00000019019 |
| Transcript |
| BRAKERYMET00000019019 |
| Protein |
| BRAKERYMEP00000019019.1 |
| UniProt accession | Description |
|---|---|
| Q3ZC10 | Small nuclear ribonucleoprotein Sm D1 OS=Bos taurus OX=9913 GN=SNRPD1 PE=3 SV=1 |
| P62314 | Small nuclear ribonucleoprotein Sm D1 OS=Homo sapiens OX=9606 GN=SNRPD1 PE=1 SV=1 |
| Q4R5F6 | Small nuclear ribonucleoprotein Sm D1 OS=Macaca fascicularis OX=9541 GN=SNRPD1 PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0007593 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01423 all species → | LSM | LSM domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR027141 all species → | Family | Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3 | Interproscan |
| IPR034102 all species → | Domain | Small nuclear ribonucleoprotein D1 | Interproscan |
| IPR010920 all species → | Homologous_superfamily | LSM domain superfamily | Interproscan |
| IPR047575 all species → | Domain | Sm domain | Interproscan |
| IPR001163 all species → | Domain | Sm domain, eukaryotic/archaea-type | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR23338 all species → | SMALL NUCLEAR RIBONUCLEOPROTEIN SM | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000243 all species → | Cellular Component | commitment complex | Interproscan |
| GO:0000387 all species → | Biological Process | spliceosomal snRNP assembly | Interproscan |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0005682 all species → | Cellular Component | U5 snRNP | Interproscan |
| GO:0005685 all species → | Cellular Component | U1 snRNP | Interproscan |
| GO:0005686 all species → | Cellular Component | U2 snRNP | Interproscan |
| GO:0005687 all species → | Cellular Component | U4 snRNP | Interproscan |
| GO:0005689 all species → | Cellular Component | U12-type spliceosomal complex | Interproscan |
| GO:0006396 all species → | Biological Process | RNA processing | Interproscan |
| GO:0034715 all species → | Cellular Component | pICln-Sm protein complex | Interproscan |
| GO:0034719 all species → | Cellular Component | SMN-Sm protein complex | Interproscan |
| GO:0071011 all species → | Cellular Component | precatalytic spliceosome | Interproscan |
| GO:0071013 all species → | Cellular Component | catalytic step 2 spliceosome | Interproscan |
| GO:0097526 all species → | Cellular Component | spliceosomal tri-snRNP complex | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K11087 | SNRPD1, SMD1; small nuclear ribonucleoprotein D1 | - | DNA replication proteins | ko03032 | deepkoala |
Genes whose expression across the transcriptome samples of Astreopora myriophthalma 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 Astreopora myriophthalma, 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 → |