Genomic Location: s044:1602375...1607365
NR annotation: XP_029189669.2, aly/REF export factor 2-like [Acropora millepora]
Species Fimbriaphyllia ancora · all data for this species · gene families
| CDS |
| eanc_s044.g0097.t1 |
| Transcript |
| eanc_s044.g0097.t1 |
| Protein |
| eanc_s044.g0097.t1 |
| UniProt accession | Description |
|---|---|
| Q3T0I4 | THO complex subunit 4 OS=Bos taurus OX=9913 GN=ALYREF PE=2 SV=1 |
| Q86V81 | THO complex subunit 4 OS=Homo sapiens OX=9606 GN=ALYREF PE=1 SV=3 |
| Q6GLW1 | THO complex subunit 4-B OS=Xenopus laevis OX=8355 GN=alyref-b PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006635 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00076 all species → | RRM_1 | RNA recognition motif | Domain | Interproscan |
| PF13865 all species → | FoP_duplication | C-terminal duplication domain of Friend of PRMT1 | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR000504 all species → | Domain | RNA recognition motif domain | Interproscan |
| IPR025715 all species → | Domain | Chromatin target of PRMT1 protein, C-terminal | Interproscan |
| IPR051229 all species → | Family | ALYREF mRNA export adapter | Interproscan |
| IPR035979 all species → | Homologous_superfamily | RNA-binding domain superfamily | Interproscan |
| IPR012677 all species → | Homologous_superfamily | Nucleotide-binding alpha-beta plait domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR19965 all species → | RNA AND EXPORT FACTOR BINDING PROTEIN | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0003729 all species → | Molecular Function | mRNA binding | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006406 all species → | Biological Process | mRNA export from nucleus | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K12881 | THOC4, ALY; THO complex subunit 4 | - | Spliceosome | ko03041 | deepkoala |
Transcript abundance of eanc_s044.g0097.t1 across 18 RNA-seq samples of Fimbriaphyllia ancora. 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 |
|---|---|---|---|---|---|
| ovaries | 11 | 11 | 407.41 | 668.02 | |
| testes | 5 | 4 | 153.40 | 383.74 | |
| Tentacles | 1 | 1 | 131.90 | 131.90 | |
| Mouth and pharynx | 1 | 1 | 390.38 | 390.38 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| DRR235379 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 201-275 um in diameter | not recorded | DRP006537 | 668.02 |
| DRR235378 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 201-275 um in diameter | not recorded | DRP006537 | 499.42 |
| DRR235377 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 126-200 um in diameter | not recorded | DRP006537 | 476.19 |
| DRR235381 | ovaries | ovaries | oocytes with 'U'-like germinal vesicles\, >276 um in diameter and GVBD | not recorded | DRP006537 | 420.92 |
| DRR235382 | ovaries | ovaries | oocytes with 'U'-like germinal vesicles\, >276 um in diameter and GVBD | not recorded | DRP006537 | 404.43 |
| DRR235376 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 126-200 um in diameter | not recorded | DRP006537 | 403.50 |
| DRR235383 | ovaries | ovaries | oocytes with 'U'-like germinal vesicles\, >276 um in diameter and GVBD | not recorded | DRP006537 | 388.56 |
| DRR235374 | ovaries | ovaries | oocytes with cytoplasmic polarization\, <125 um in diameter | not recorded | DRP006537 | 359.74 |
| DRR235375 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 126-200 um in diameter | not recorded | DRP006537 | 308.24 |
| DRR235380 | ovaries | ovaries | oocytes with accumulation of yolk and other components\, 201-275 um in diameter | not recorded | DRP006537 | 302.34 |
| DRR235372 | ovaries | ovaries | oocytes with cytoplasmic polarization\, <125 um in diameter | not recorded | DRP006537 | 250.12 |
| DRR235389 | testes | testes | spermatogonia and primary spermatocytes | not recorded | DRP006537 | 383.74 |
| DRR235387 | testes | testes | spermatogonia and primary spermatocytes | not recorded | DRP006537 | 171.02 |
| DRR235384 | testes | testes | spermatogonia | not recorded | DRP006537 | 122.13 |
| DRR235385 | testes | testes | spermatogonia | not recorded | DRP006537 | 90.10 |
| DRR235386 | testes | testes | spermatogonia | not recorded | DRP006537 | 0.00 |
| DRR397929 | Tentacles | Tentacles | not recorded | not recorded | DRP011835 | 131.90 |
| DRR397944 | Mouth and pharynx | Mouth and pharynx | not recorded | not recorded | DRP011835 | 390.38 |
Source: CnidoSite RNA-seq expression matrices (FANCO_TPM,
StringTie quantification over 18 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 Fimbriaphyllia ancora 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 | 11 | eanc_s133.g0017.t1 | 0.883835497261027 |
| Negatively correlated | 32 | eanc_s081.g0096.t1 | -0.817527251955346 |
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.
Whether this gene can be visualised in the single-cell atlases of Fimbriaphyllia ancora, 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 → |
