Genomic Location: chr6:26367851...26369460
NR annotation: XP_020604241.1, small nuclear ribonucleoprotein Sm D2 [Orbicella faveolata]
Species Micromussa lordhowensis · all data for this species · gene families
| CDS |
| ENSSYXT00000017840 |
| Transcript |
| ENSSYXT00000017840 |
| Protein |
| ENSSYXP00000016969.1 |
| UniProt accession | Description |
|---|---|
| Q3SZF8 | Small nuclear ribonucleoprotein Sm D2 OS=Bos taurus OX=9913 GN=SNRPD2 PE=3 SV=1 |
| P62316 | Small nuclear ribonucleoprotein Sm D2 OS=Homo sapiens OX=9606 GN=SNRPD2 PE=1 SV=1 |
| P62317 | Small nuclear ribonucleoprotein Sm D2 OS=Mus musculus OX=10090 GN=Snrpd2 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0008445 (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 |
|---|---|---|---|
| IPR047575 all species → | Domain | Sm domain | Interproscan |
| IPR010920 all species → | Homologous_superfamily | LSM domain superfamily | Interproscan |
| IPR027248 all species → | Family | Small nuclear ribonucleoprotein Sm D2 | Interproscan |
| IPR001163 all species → | Domain | Sm domain, eukaryotic/archaea-type | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR12777 all species → | SMALL NUCLEAR RIBONUCLEOPROTEIN SM D2 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0000387 all species → | Biological Process | spliceosomal snRNP assembly | 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:0008380 all species → | Biological Process | RNA splicing | Interproscan |
| GO:0030532 all species → | Cellular Component | small nuclear ribonucleoprotein complex | Interproscan |
| GO:0034715 all species → | Cellular Component | pICln-Sm protein complex | Interproscan |
| GO:0046540 all species → | Cellular Component | U4/U6 x U5 tri-snRNP complex | Interproscan |
| GO:0071011 all species → | Cellular Component | precatalytic spliceosome | Interproscan |
| GO:0071013 all species → | Cellular Component | catalytic step 2 spliceosome | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K11096 | SNRPD2, SMD2; small nuclear ribonucleoprotein D2 | - | DNA replication proteins | ko03032 | deepkoala |
Genes whose expression across the transcriptome samples of Micromussa lordhowensis 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 Micromussa lordhowensis, 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 → |
