Genomic Location: sc0000027_pilon:1903329...1909919
NR annotation: XP_020623734.1, 116 kDa U5 small nuclear ribonucleoprotein component-like [Orbicella faveolata]
Species Acropora echinata · all data for this species · gene families
| CDS |
| aech_s0027.g104.t1 |
| Transcript |
| aech_s0027.g104.t1 |
| Protein |
| aech_s0027.g104.t1 |
| UniProt accession | Description |
|---|---|
| Q5F3X4 | 116 kDa U5 small nuclear ribonucleoprotein component OS=Gallus gallus OX=9031 GN=EFTUD2 PE=2 SV=1 |
| O08810 | 116 kDa U5 small nuclear ribonucleoprotein component OS=Mus musculus OX=10090 GN=Eftud2 PE=1 SV=1 |
| A4FUD3 | 116 kDa U5 small nuclear ribonucleoprotein component OS=Bos taurus OX=9913 GN=EFTUD2 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001678 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF03764 all species → | EFG_IV | Elongation factor G, domain IV | Domain | Interproscan |
| PF00679 all species → | EFG_C | Elongation factor G C-terminus | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR014721 all species → | Homologous_superfamily | Small ribosomal subunit protein uS5 domain 2-type fold, subgroup | Interproscan |
| IPR035655 all species → | Domain | 116kDa U5 small nuclear ribonucleoprotein component, C-terminal | Interproscan |
| IPR005517 all species → | Domain | Translation elongation factor EFG/EF2, domain IV | Interproscan |
| IPR000640 all species → | Domain | Elongation factor EFG, domain V-like | Interproscan |
| IPR020568 all species → | Homologous_superfamily | Ribosomal protein uS5 domain 2-type superfamily | Interproscan |
| IPR035647 all species → | Homologous_superfamily | EF-G domain III/V-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR42908 all species → | TRANSLATION ELONGATION FACTOR-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005525 all species → | Molecular Function | GTP binding | Interproscan |
| GO:0000398 all species → | Biological Process | mRNA splicing, via spliceosome | Interproscan |
| GO:0003924 all species → | Molecular Function | GTPase activity | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0030623 all species → | Molecular Function | U5 snRNA binding | Interproscan |
| GO:0046540 all species → | Cellular Component | U4/U6 x U5 tri-snRNP complex | Interproscan |
| GO:0071007 all species → | Cellular Component | U2-type catalytic step 2 spliceosome | Interproscan |
| GO:1990904 all species → | Cellular Component | ribonucleoprotein complex | Interproscan |
aech_s0027.g104.t1.Genes whose expression across the transcriptome samples of Acropora echinata 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 Acropora echinata, 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 → |
