Genomic Location: HiC_scaffold_11:7924266...7929826
NR annotation: XP_047126154.1, vesicle-associated membrane protein-associated protein B [Hydra vulgaris]
Species Hydractinia symbiolongicarpus · all data for this species · gene families
| CDS |
| HSymV2.0_g11.19475_t1 |
| Transcript |
| HSymV2.0_g11.19475_t1 |
| Protein |
| HSymV2.0_g11.19475_t1 |
| UniProt accession | Description |
|---|---|
| A2VDZ9 | Vesicle-associated membrane protein-associated protein B OS=Bos taurus OX=9913 GN=VAPB PE=2 SV=1 |
| O95292 | Vesicle-associated membrane protein-associated protein B/C OS=Homo sapiens OX=9606 GN=VAPB PE=1 SV=3 |
| Q9Z269 | Vesicle-associated membrane protein-associated protein B OS=Rattus norvegicus OX=10116 GN=Vapb PE=1 SV=3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006012 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00635 all species → | Motile_Sperm | MSP (Major sperm protein) domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR008962 all species → | Homologous_superfamily | PapD-like superfamily | Interproscan |
| IPR000535 all species → | Domain | Major sperm protein (MSP) domain | Interproscan |
| IPR013783 all species → | Homologous_superfamily | Immunoglobulin-like fold | Interproscan |
| IPR016763 all species → | Family | Vesicle-associated membrane-protein-associated protein | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10809 all species → | VESICLE-ASSOCIATED MEMBRANE PROTEIN-ASSOCIATED PROTEIN | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005789 all species → | Cellular Component | endoplasmic reticulum membrane | Interproscan |
| GO:0005886 all species → | Cellular Component | plasma membrane | Interproscan |
| GO:0033149 all species → | Molecular Function | FFAT motif binding | Interproscan |
| GO:0061817 all species → | Biological Process | endoplasmic reticulum-plasma membrane tethering | Interproscan |
| GO:0090158 all species → | Biological Process | endoplasmic reticulum membrane organization | Interproscan |
HSymV2.0_g11.19475_t1.Transcript abundance of HSymV2.0_g11.19475_t1 across 44 RNA-seq samples of Hydractinia symbiolongicarpus. 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 embryo | 36 | 36 | 209.24 | 371.28 | |
| Whole embryo · Triptolide 20 uM | 4 | 4 | 288.92 | 339.93 | |
| Whole embryo · DMSO 0.5% | 4 | 4 | 325.73 | 386.79 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR24482161 | Whole embryo | Whole embryo | 7 hpf | not recorded | SRP436676 | 371.28 |
| SRR24482162 | Whole embryo | Whole embryo | 7 hpf | not recorded | SRP436676 | 363.09 |
| SRR24482163 | Whole embryo | Whole embryo | 6 hpf | not recorded | SRP436676 | 303.86 |
| SRR24482160 | Whole embryo | Whole embryo | 24 hpf | not recorded | SRP436676 | 300.24 |
| SRR24482159 | Whole embryo | Whole embryo | 24 hpf | not recorded | SRP436676 | 267.53 |
| SRR24482165 | Whole embryo | Whole embryo | 4 hpf | not recorded | SRP436676 | 265.22 |
| SRR24482153 | Whole embryo | Whole embryo | 7 hpf | not recorded | SRP436676 | 257.71 |
| SRR24482157 | Whole embryo | Whole embryo | 48 hpf | not recorded | SRP436676 | 248.91 |
| SRR24482156 | Whole embryo | Whole embryo | 72 hpf | not recorded | SRP436676 | 242.41 |
| SRR24482155 | Whole embryo | Whole embryo | 72 hpf | not recorded | SRP436676 | 240.50 |
| SRR24482167 | Whole embryo | Whole embryo | 3 hpf | not recorded | SRP436676 | 237.22 |
| SRR24482166 | Whole embryo | Whole embryo | 4 hpf | not recorded | SRP436676 | 234.59 |
| SRR24482158 | Whole embryo | Whole embryo | 48 hpf | not recorded | SRP436676 | 228.10 |
| SRR24482169 | Whole embryo | Whole embryo | 2 hpf | not recorded | SRP436676 | 222.40 |
| SRR24482176 | Whole embryo | Whole embryo | 1 hpf | not recorded | SRP436676 | 205.65 |
| SRR24482168 | Whole embryo | Whole embryo | 3 hpf | not recorded | SRP436676 | 204.58 |
| SRR24482133 | Whole embryo | Whole embryo | 6 hpf | not recorded | SRP436676 | 203.35 |
| SRR24482170 | Whole embryo | Whole embryo | 2 hpf | not recorded | SRP436676 | 198.63 |
| SRR24482177 | Whole embryo | Whole embryo | 1 hpf | not recorded | SRP436676 | 191.14 |
| SRR24482139 | Whole embryo | Whole embryo | 2 hpf | not recorded | SRP436676 | 190.92 |
| SRR24482137 | Whole embryo | Whole embryo | 3 hpf | not recorded | SRP436676 | 186.83 |
| SRR24482173 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 184.83 |
| SRR24482174 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 184.36 |
| SRR24482143 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 183.43 |
| SRR24482144 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 180.97 |
| SRR24482135 | Whole embryo | Whole embryo | 4 hpf | not recorded | SRP436676 | 179.59 |
| SRR24482171 | Whole embryo | Whole embryo | 1 hpf | not recorded | SRP436676 | 170.48 |
| SRR24482175 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 160.44 |
| SRR24482142 | Whole embryo | Whole embryo | 30 mpf | not recorded | SRP436676 | 147.12 |
| SRR24482140 | Whole embryo | Whole embryo | 2 hpf | not recorded | SRP436676 | 146.34 |
| SRR24482172 | Whole embryo | Whole embryo | 30 mpf | not recorded | SRP436676 | 144.33 |
| SRR24482138 | Whole embryo | Whole embryo | 3 hpf | not recorded | SRP436676 | 143.19 |
| SRR24482134 | Whole embryo | Whole embryo | 5 hpf | not recorded | SRP436676 | 142.19 |
| SRR24482136 | Whole embryo | Whole embryo | 4 hpf | not recorded | SRP436676 | 138.02 |
| SRR24482145 | Whole embryo | Whole embryo | Unfertilized egg | not recorded | SRP436676 | 135.60 |
| SRR24482141 | Whole embryo | Whole embryo | 1 hpf | not recorded | SRP436676 | 127.69 |
| SRR24482147 | Whole embryo · Triptolide 20 uM | Whole embryo | 7 hpf | Triptolide 20 uM | SRP436676 | 339.93 |
| SRR24482146 | Whole embryo · Triptolide 20 uM | Whole embryo | 7 hpf | Triptolide 20 uM | SRP436676 | 322.52 |
| SRR24482150 | Whole embryo · Triptolide 20 uM | Whole embryo | 7 hpf | Triptolide 20 uM | SRP436676 | 253.47 |
| SRR24482149 | Whole embryo · Triptolide 20 uM | Whole embryo | 7 hpf | Triptolide 20 uM | SRP436676 | 239.74 |
| SRR24482148 | Whole embryo · DMSO 0.5% | Whole embryo | 7 hpf | DMSO 0.5% | SRP436676 | 386.79 |
| SRR24482154 | Whole embryo · DMSO 0.5% | Whole embryo | 7 hpf | DMSO 0.5% | SRP436676 | 369.35 |
| SRR24482151 | Whole embryo · DMSO 0.5% | Whole embryo | 7 hpf | DMSO 0.5% | SRP436676 | 288.67 |
| SRR24482152 | Whole embryo · DMSO 0.5% | Whole embryo | 7 hpf | DMSO 0.5% | SRP436676 | 258.12 |
Source: CnidoSite RNA-seq expression matrices (HSYMB_TPM,
StringTie quantification over 44 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 Hydractinia symbiolongicarpus 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 | 37 | HSymV2.0_g04.07628_t1 | 0.935586291070349 |
| Negatively correlated | 107 | HSymV2.0_g14.24160_t1 | -0.920672658042351 |
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 Hydractinia symbiolongicarpus, 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 → |
