Genomic Location: NC_064045.1:14965774...15003241
NR annotation: XP_032231233.2, voltage-dependent T-type calcium channel subunit alpha-1G isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families
| CDS |
| LOC5506883 |
| Transcript |
| rna-XM_032375342.2 |
| Protein |
| XP_032231233.2 |
| UniProt accession | Description |
|---|---|
| O54898 | Voltage-dependent T-type calcium channel subunit alpha-1G OS=Rattus norvegicus OX=10116 GN=Cacna1g PE=1 SV=2 |
| O95180 | Voltage-dependent T-type calcium channel subunit alpha-1H OS=Homo sapiens OX=9606 GN=CACNA1H PE=1 SV=4 |
| O43497 | Voltage-dependent T-type calcium channel subunit alpha-1G OS=Homo sapiens OX=9606 GN=CACNA1G PE=1 SV=3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001305 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00520 all species → | Ion_trans | Ion transport protein | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR043203 all species → | Family | Voltage-gated cation channel calcium and sodium | Interproscan |
| IPR002077 all species → | Family | Voltage-dependent calcium channel, alpha-1 subunit | Interproscan |
| IPR005821 all species → | Domain | Ion transport domain | Interproscan |
| IPR027359 all species → | Homologous_superfamily | Voltage-dependent channel domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10037 all species → | VOLTAGE-GATED CATION CHANNEL CALCIUM AND SODIUM | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0001518 all species → | Cellular Component | voltage-gated sodium channel complex | Interproscan |
| GO:0005248 all species → | Molecular Function | voltage-gated sodium channel activity | Interproscan |
| GO:0005261 all species → | Molecular Function | monoatomic cation channel activity | Interproscan |
| GO:0005886 all species → | Cellular Component | plasma membrane | Interproscan |
| GO:0008332 all species → | Molecular Function | low voltage-gated calcium channel activity | Interproscan |
| GO:0043005 all species → | Cellular Component | neuron projection | Interproscan |
| GO:0070509 all species → | Biological Process | calcium ion import | Interproscan |
| GO:0086010 all species → | Biological Process | membrane depolarization during action potential | Interproscan |
| GO:0005245 all species → | Molecular Function | voltage-gated calcium channel activity | Interproscan |
| GO:0005891 all species → | Cellular Component | voltage-gated calcium channel complex | Interproscan |
| GO:0070588 all species → | Biological Process | calcium ion transmembrane transport | Interproscan |
| GO:0005216 all species → | Molecular Function | monoatomic ion channel activity | Interproscan |
| GO:0006811 all species → | Biological Process | monoatomic ion transport | Interproscan |
| GO:0016020 all species → | Cellular Component | membrane | Interproscan |
| GO:0055085 all species → | Biological Process | transmembrane transport | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K04854 | CACNA1G, CAV3.1; voltage-dependent calcium channel T type alpha-1G | - | Ion channels | ko04040 | deepkoala |
Transcript abundance of XP_032231233.2 across 48 RNA-seq samples of Nematostella vectensis. 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 6 week old aboral regenerate · regenerate 96hpa | 3 | 3 | 3.61 | 3.87 | |
| whole 6 week old aboral regenerate · regenerate 144hpa | 3 | 3 | 2.85 | 3.56 | |
| whole 6 week old aboral regenerate · regenerate 0hpa | 3 | 3 | 3.84 | 4.91 | |
| whole 6 week old aboral regenerate · regenerate 2hpa | 3 | 3 | 4.06 | 4.66 | |
| whole 6 week old aboral regenerate · regenerate uncut | 3 | 3 | 3.06 | 3.46 | |
| whole 6 week old aboral regenerate · regenerate 4hpa | 3 | 2 | 2.25 | 3.52 | |
| whole 6 week old aboral regenerate · regenerate 120hpa | 3 | 2 | 2.30 | 3.79 | |
| whole 6 week old aboral regenerate · regenerate 36hpa | 3 | 3 | 3.21 | 3.57 | |
| whole 6 week old aboral regenerate · regenerate 24hpa | 3 | 3 | 3.42 | 4.22 | |
| whole 6 week old aboral regenerate · regenerate 20hpa | 3 | 3 | 3.08 | 3.62 | |
| whole 6 week old aboral regenerate · regenerate 16hpa | 3 | 3 | 3.15 | 3.48 | |
| whole 6 week old aboral regenerate · regenerate 72hpa | 3 | 2 | 2.12 | 3.36 | |
| whole 6 week old aboral regenerate · regenerate 60hpa | 3 | 3 | 3.22 | 3.88 | |
| whole 6 week old aboral regenerate · regenerate 48hpa | 3 | 2 | 2.10 | 3.79 | |
| whole 6 week old aboral regenerate · regenerate 8hpa | 3 | 2 | 2.67 | 4.36 | |
| whole 6 week old aboral regenerate · regenerate 12hpa | 3 | 2 | 2.52 | 4.09 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR6320863 | whole 6 week old aboral regenerate · regenerate 96hpa | whole 6 week old aboral regenerate | six weeks | regenerate 96hpa | SRP125570 | 3.87 |
| SRR6320836 | whole 6 week old aboral regenerate · regenerate 96hpa | whole 6 week old aboral regenerate | six weeks | regenerate 96hpa | SRP125570 | 3.65 |
| SRR6320837 | whole 6 week old aboral regenerate · regenerate 96hpa | whole 6 week old aboral regenerate | six weeks | regenerate 96hpa | SRP125570 | 3.31 |
| SRR6320847 | whole 6 week old aboral regenerate · regenerate 144hpa | whole 6 week old aboral regenerate | six weeks | regenerate 144hpa | SRP125570 | 3.56 |
| SRR6320841 | whole 6 week old aboral regenerate · regenerate 144hpa | whole 6 week old aboral regenerate | six weeks | regenerate 144hpa | SRP125570 | 2.75 |
| SRR6320838 | whole 6 week old aboral regenerate · regenerate 144hpa | whole 6 week old aboral regenerate | six weeks | regenerate 144hpa | SRP125570 | 2.24 |
| SRR6320846 | whole 6 week old aboral regenerate · regenerate 0hpa | whole 6 week old aboral regenerate | six weeks | regenerate 0hpa | SRP125570 | 4.91 |
| SRR6320840 | whole 6 week old aboral regenerate · regenerate 0hpa | whole 6 week old aboral regenerate | six weeks | regenerate 0hpa | SRP125570 | 3.42 |
| SRR6320839 | whole 6 week old aboral regenerate · regenerate 0hpa | whole 6 week old aboral regenerate | six weeks | regenerate 0hpa | SRP125570 | 3.19 |
| SRR6320861 | whole 6 week old aboral regenerate · regenerate 2hpa | whole 6 week old aboral regenerate | six weeks | regenerate 2hpa | SRP125570 | 4.66 |
| SRR6320842 | whole 6 week old aboral regenerate · regenerate 2hpa | whole 6 week old aboral regenerate | six weeks | regenerate 2hpa | SRP125570 | 4.06 |
| SRR6320848 | whole 6 week old aboral regenerate · regenerate 2hpa | whole 6 week old aboral regenerate | six weeks | regenerate 2hpa | SRP125570 | 3.45 |
| SRR6320843 | whole 6 week old aboral regenerate · regenerate uncut | whole 6 week old aboral regenerate | six weeks | regenerate uncut | SRP125570 | 3.46 |
| SRR6320844 | whole 6 week old aboral regenerate · regenerate uncut | whole 6 week old aboral regenerate | six weeks | regenerate uncut | SRP125570 | 3.31 |
| SRR6320845 | whole 6 week old aboral regenerate · regenerate uncut | whole 6 week old aboral regenerate | six weeks | regenerate uncut | SRP125570 | 2.41 |
| SRR6320849 | whole 6 week old aboral regenerate · regenerate 4hpa | whole 6 week old aboral regenerate | six weeks | regenerate 4hpa | SRP125570 | 3.52 |
| SRR6320872 | whole 6 week old aboral regenerate · regenerate 4hpa | whole 6 week old aboral regenerate | six weeks | regenerate 4hpa | SRP125570 | 3.25 |
| SRR6320873 | whole 6 week old aboral regenerate · regenerate 4hpa | whole 6 week old aboral regenerate | six weeks | regenerate 4hpa | SRP125570 | 0.00 |
| SRR6320882 | whole 6 week old aboral regenerate · regenerate 120hpa | whole 6 week old aboral regenerate | six weeks | regenerate 120hpa | SRP125570 | 3.79 |
| SRR6320883 | whole 6 week old aboral regenerate · regenerate 120hpa | whole 6 week old aboral regenerate | six weeks | regenerate 120hpa | SRP125570 | 3.11 |
| SRR6320850 | whole 6 week old aboral regenerate · regenerate 120hpa | whole 6 week old aboral regenerate | six weeks | regenerate 120hpa | SRP125570 | 0.00 |
| SRR6320855 | whole 6 week old aboral regenerate · regenerate 36hpa | whole 6 week old aboral regenerate | six weeks | regenerate 36hpa | SRP125570 | 3.57 |
| SRR6320851 | whole 6 week old aboral regenerate · regenerate 36hpa | whole 6 week old aboral regenerate | six weeks | regenerate 36hpa | SRP125570 | 3.56 |
| SRR6320852 | whole 6 week old aboral regenerate · regenerate 36hpa | whole 6 week old aboral regenerate | six weeks | regenerate 36hpa | SRP125570 | 2.50 |
| SRR6320856 | whole 6 week old aboral regenerate · regenerate 24hpa | whole 6 week old aboral regenerate | six weeks | regenerate 24hpa | SRP125570 | 4.22 |
| SRR6320854 | whole 6 week old aboral regenerate · regenerate 24hpa | whole 6 week old aboral regenerate | six weeks | regenerate 24hpa | SRP125570 | 3.48 |
| SRR6320853 | whole 6 week old aboral regenerate · regenerate 24hpa | whole 6 week old aboral regenerate | six weeks | regenerate 24hpa | SRP125570 | 2.56 |
| SRR6320857 | whole 6 week old aboral regenerate · regenerate 20hpa | whole 6 week old aboral regenerate | six weeks | regenerate 20hpa | SRP125570 | 3.62 |
| SRR6320860 | whole 6 week old aboral regenerate · regenerate 20hpa | whole 6 week old aboral regenerate | six weeks | regenerate 20hpa | SRP125570 | 3.55 |
| SRR6320859 | whole 6 week old aboral regenerate · regenerate 20hpa | whole 6 week old aboral regenerate | six weeks | regenerate 20hpa | SRP125570 | 2.07 |
| SRR6320880 | whole 6 week old aboral regenerate · regenerate 16hpa | whole 6 week old aboral regenerate | six weeks | regenerate 16hpa | SRP125570 | 3.48 |
| SRR6320881 | whole 6 week old aboral regenerate · regenerate 16hpa | whole 6 week old aboral regenerate | six weeks | regenerate 16hpa | SRP125570 | 3.19 |
| SRR6320858 | whole 6 week old aboral regenerate · regenerate 16hpa | whole 6 week old aboral regenerate | six weeks | regenerate 16hpa | SRP125570 | 2.77 |
| SRR6320862 | whole 6 week old aboral regenerate · regenerate 72hpa | whole 6 week old aboral regenerate | six weeks | regenerate 72hpa | SRP125570 | 3.36 |
| SRR6320865 | whole 6 week old aboral regenerate · regenerate 72hpa | whole 6 week old aboral regenerate | six weeks | regenerate 72hpa | SRP125570 | 3.00 |
| SRR6320864 | whole 6 week old aboral regenerate · regenerate 72hpa | whole 6 week old aboral regenerate | six weeks | regenerate 72hpa | SRP125570 | 0.00 |
| SRR6320869 | whole 6 week old aboral regenerate · regenerate 60hpa | whole 6 week old aboral regenerate | six weeks | regenerate 60hpa | SRP125570 | 3.88 |
| SRR6320866 | whole 6 week old aboral regenerate · regenerate 60hpa | whole 6 week old aboral regenerate | six weeks | regenerate 60hpa | SRP125570 | 3.08 |
| SRR6320867 | whole 6 week old aboral regenerate · regenerate 60hpa | whole 6 week old aboral regenerate | six weeks | regenerate 60hpa | SRP125570 | 2.69 |
| SRR6320870 | whole 6 week old aboral regenerate · regenerate 48hpa | whole 6 week old aboral regenerate | six weeks | regenerate 48hpa | SRP125570 | 3.79 |
| SRR6320871 | whole 6 week old aboral regenerate · regenerate 48hpa | whole 6 week old aboral regenerate | six weeks | regenerate 48hpa | SRP125570 | 2.53 |
| SRR6320868 | whole 6 week old aboral regenerate · regenerate 48hpa | whole 6 week old aboral regenerate | six weeks | regenerate 48hpa | SRP125570 | 0.00 |
| SRR6320874 | whole 6 week old aboral regenerate · regenerate 8hpa | whole 6 week old aboral regenerate | six weeks | regenerate 8hpa | SRP125570 | 4.36 |
| SRR6320875 | whole 6 week old aboral regenerate · regenerate 8hpa | whole 6 week old aboral regenerate | six weeks | regenerate 8hpa | SRP125570 | 3.65 |
| SRR6320876 | whole 6 week old aboral regenerate · regenerate 8hpa | whole 6 week old aboral regenerate | six weeks | regenerate 8hpa | SRP125570 | 0.00 |
| SRR6320877 | whole 6 week old aboral regenerate · regenerate 12hpa | whole 6 week old aboral regenerate | six weeks | regenerate 12hpa | SRP125570 | 4.09 |
| SRR6320879 | whole 6 week old aboral regenerate · regenerate 12hpa | whole 6 week old aboral regenerate | six weeks | regenerate 12hpa | SRP125570 | 3.48 |
| SRR6320878 | whole 6 week old aboral regenerate · regenerate 12hpa | whole 6 week old aboral regenerate | six weeks | regenerate 12hpa | SRP125570 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (NVECT_TPM,
StringTie quantification over 48 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 Nematostella vectensis 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 | 26 | XP_048577776.1 | 0.903405793833371 |
| Negatively correlated | 8 | XP_032232690.1 | -0.678970717614119 |
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 Nematostella vectensis, 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 |
|---|---|---|---|---|---|
| NVECT_2month | 2 month animal · Adult tissues/organs | 1,614 | 23 | not in this dataset | – |
| NVECT_bodywall | body wall with mesenteries · 6-8 weeks adults | 11,742 | 13 | not in this dataset | – |
| NVECT_embryo | embryos · 8, 10 and 12 h after fertilisation (deposit labels 8h/10h/12h) | 9,711 | 17 | not in this dataset | – |
| NVECT_gastrula | Blastula-gastrula intermediate · Developmental stages | 49,166 | 27 | not in this dataset | – |
| NVECT_gastruloid | dissociated and reaggregated embryos · 4-48 hpa | 36,550 | 8 | not in this dataset | – |
| NVECT_neoplasm | neoplasm · Adult tissues/organs | 2,532 | 16 | not in this dataset | – |
| NVECT_nervous | Gastrula Cells · nervous system | 16,590 | 27 | unmapped | – |
| NVECT_notch48h | embryos treated 24-48 hpf (DMSO vs LY411575) · 48 hpf | 19,044 | 7 | not in this dataset | – |
| NVECT_tentacle | tentacle · Adult tissues/organs | 7,977 | 19 | 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.
| Assay | Sample | Peaks | Region |
|---|---|---|---|
| ChIP-seq | H3K27ac_Ncol3_negative | 2 | Promoter (1-2kb) 1 · Promoter (<=1kb) 1 |
| H3K27ac_Nep3_negative | 5 | Promoter (<=1kb) 3 · Promoter (1-2kb) 2 | |
| H3K36me3_gastrulae_24h | 1 | Promoter (<=1kb) 1 | |
| H3K36me3_polyps | 1 | Promoter (2-3kb) 1 | |
| H3K4me1_gastrulae_24h | 2 | Promoter (<=1kb) 1 · Promoter (2-3kb) 1 | |
| H3K4me1_planulae_4days | 11 | Intron 5 · Promoter (<=1kb) 3 · Exon 2 · Promoter (2-3kb) 1 | |
| H3K4me2_neuronal_ELAV_cells | 1 | Promoter (<=1kb) 1 | |
| late_gastrula | 4 | Promoter (2-3kb) 2 · Promoter (<=1kb) 1 · Promoter (1-2kb) 1 | |
| late_planula_4d | 17 | Exon 7 · Promoter (<=1kb) 6 · Promoter (2-3kb) 2 · Intron 1 · Promoter (1-2kb) 1 |
Browse the full epigenomic landscape of this species: ChIP-seq · ATAC-seq.
| Sample | Methylation profile |
|---|---|
| Whole_adults | 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. | 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 → |
