Genomic Location: NC_058074.1:5017...17684
NR annotation: XP_029195782.1, sorting nexin-17-like [Acropora millepora]
Species Acropora millepora · all data for this species · gene families
| CDS |
| XP_029195783.1 |
| Protein |
| XP_029195783.1 |
| UniProt accession | Description |
|---|---|
| Q5RID7 | Sorting nexin-17 OS=Danio rerio OX=7955 GN=snx17 PE=2 SV=1 |
| Q15036 | Sorting nexin-17 OS=Homo sapiens OX=9606 GN=SNX17 PE=1 SV=1 |
| Q5R4A5 | Sorting nexin-17 OS=Pongo abelii OX=9601 GN=SNX17 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004337 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00787 all species → | PX | PX domain | Domain | Interproscan |
| PF21273 all species → | SNX17-27-31_F1_FERM | Sortin nexin 17/27/31, FERM domain, F1 lobe | Domain | Interproscan |
| PF18116 all species → | SNX17_FERM_C | Sorting Nexin 17 FERM C-terminal domain | Domain | Interproscan |
| PF21271 all species → | SNX17-31_F2_FERM | Sortin nexin 17/31, FERM domain, F2 lobe | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR028666 all species → | Domain | Sorting nexin-17, FERM domain, N-terminal subdomain | Interproscan |
| IPR001683 all species → | Domain | Phox homology | Interproscan |
| IPR037836 all species → | Domain | SNX17, atypical FERM-like domain | Interproscan |
| IPR037831 all species → | Family | SNX17/27/31-like | Interproscan |
| IPR011993 all species → | Homologous_superfamily | PH-like domain superfamily | Interproscan |
| IPR048763 all species → | Domain | Sortin nexin 17/31, FERM domain, F1 lobe | Interproscan |
| IPR036871 all species → | Homologous_superfamily | PX domain superfamily | Interproscan |
| IPR040842 all species → | Domain | Sorting nexin-17/31, FERM domain | Interproscan |
| IPR048767 all species → | Domain | Sortin nexin 17/31, FERM domain, F2 lobe | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR12431 all species → | SORTING NEXIN 17 AND 27 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0035091 all species → | Molecular Function | phosphatidylinositol binding | Interproscan |
| GO:0005769 all species → | Cellular Component | early endosome | Interproscan |
| GO:0006886 all species → | Biological Process | intracellular protein transport | Interproscan |
| GO:1990126 all species → | Biological Process | endocytic recycling | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K17929 | SNX17; sorting nexin-17 | - | Domain-containing proteins not elsewhere classified | ko04990 | deepkoala |
Transcript abundance of XP_029195783.1 across 54 RNA-seq samples of Acropora millepora. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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 larvae | 30 | 0 | 0.00 | 0.00 | |
| branch | 24 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR1929605 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929606 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929607 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929608 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929609 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929610 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929611 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929612 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929613 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929614 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929615 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929616 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929617 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929618 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929619 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929620 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929621 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929622 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929623 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929624 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929625 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929626 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929627 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929628 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929629 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929630 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929631 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929632 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929633 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929634 | whole larvae | whole larvae | adult | not recorded | SRP056536 | 0.00 |
| SRR1929581 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929582 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929583 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929584 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929585 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929586 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929587 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929588 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929589 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929590 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929591 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929592 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929593 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929594 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929595 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929596 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929597 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929598 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929599 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929600 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929601 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929602 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929603 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
| SRR1929604 | branch | branch | adult | not recorded | SRP056536 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (AMILL_TPM,
StringTie quantification over 54 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 Acropora millepora 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Acropora millepora network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
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 Acropora millepora, 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.
| Dataset | Tissue / stage | Cells | Cell types | This gene | Marker of |
|---|---|---|---|---|---|
| AMILL_whole_adult | Whole adults · Adult tissues/organs | 25,164 | 27 | not in this dataset | – |
A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it; not in this dataset means the dataset’s own gene-ID table does not list it, so no expression claim can be made for that dataset. unmapped is deliberately weaker still: the dataset has no gene-ID table on CnidoSite yet, so nothing is claimed in either direction. Where markers are listed, the numbers are log2 fold change and the percentage of cells of that type in which the gene was detected.
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.
| Sample | Methylation profile |
|---|---|
| planula | open |
The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.
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 → |
