Cytogenetic band 8p11.21NCBI: 8:42,391,880-42,405,937 on the plus strand, GRCh38.p14 (GCF_000001405.40), sequence NC_000008.11, annotation GCF_000001405.40-RS_2025_08 of 2025-08-01Ensembl: 8:42,391,624-42,407,493 on the plus strand, GRCh38.p14 (GCA_000001405.29), release 116Coordinates are one-based with both ends included, as each source reports them.
This gene encodes a voltage-dependent anion channel (VDAC), and belongs to…
NCBI Gene summary
Ready in a moment
Reading NCBI Gene and UniProt.Still reading. A first read of a gene can take a while; this page waits up to 30 seconds for it, and its scripts then bring in the panel, or a line saying what did not arrive.
02 / Transcripts and isoforms
The RNA a design targets
16 RefSeq and 48 Ensembl transcripts on GRCh38.p14; MANE Select NM_005662.7.
NCBI Datasets · Ensembl
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Reading NCBI Datasets and Ensembl.
03 / Expression by tissue
Where VDAC3 is expressed
Reading GTEx and the Human Protein Atlas.Still reading. A first read of a gene can take a while; this page waits up to 80 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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04 / Protein
The protein VDAC3 encodes
Reading UniProt, InterPro, AlphaFold DB and PDBe.Still reading. A first read of a gene can take a while; this page waits up to 80 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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05 / Interactions
Proteins STRING associates with VDAC3
The 25 highest-scoring STRING partners at or above a combined score of 0.4, of up to 25 asked for; VDAC2, VDAC1, SLC25A4 lead.
STRING v12.0
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06 / Pathways
Where VDAC3 acts, as Reactome curates it
Reading UniProt and Reactome.Still reading. A first read of a gene can take a while; this page waits up to 60 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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07 / Disease associations
Diseases linked to VDAC3
Reading Open Targets and ClinGen.Still reading. A first read of a gene can take a while; this page waits up to 105 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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08 / Variants
Classified variants of VDAC3
Reading ClinVar.Still reading. A first read of a gene can take a while; this page waits up to 60 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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09 / Constraint
How much variation VDAC3 tolerates
Reading gnomAD and Open Targets.Still reading. A first read of a gene can take a while; this page waits up to 45 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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10 / Orthologs
The same gene in mouse, rat and human
Mouse Vdac3 by 2 of 3 votes; rat Vdac3 by 2 of 3 votes. RGD is not answering, so the ortholog list could not be shown. Try again later. Reference 5faa3497-a9f.
Alliance · NCBI · Ensembl Compara
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11 /MicroRNAs
MicroRNAs hosted within VDAC3
No annotated microRNA lies within VDAC3 in Ensembl release 116, on GRCh38.p14.
Ensembl · miRBase
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12 / Long non-coding RNAs
Long non-coding RNAs at the VDAC3 locus
No annotated long non-coding RNA overlaps VDAC3 in Ensembl release 116, on GRCh38.p14.
Ensembl
Ready in a moment
13 / Literature
Papers that mention VDAC3
Reading Europe PMC.Still reading. A first read of a gene can take a while; this page waits up to 55 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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14 / Silencing this gene
From VDAC3 to a sequence that silences it
The AUMsilence™ platform designs the sequences against the human VDAC3 transcripts.
01
Choose the region
A knockdown oligonucleotide can sit in the 5' untranslated region, the coding sequence or the 3' untranslated region, and all three are used. The coding sequence and the 3' untranslated region are the usual first choices for an RNase H design; the 5' end near the start codon suits a steric block. The map above shows where each region sits on the isoforms it draws.
02
Cover the isoforms you mean
An exon every isoform carries silences the whole gene; an exon only some isoforms carry silences those and spares the rest. Decide which you want before a sequence is chosen, and check the reference transcript (MANE Select in human; RefSeq Select and Ensembl canonical in mouse and rat) is the one your cells express.
03
Think across species early
The orthologs panel says whether mouse and rat carry the same gene. Whether one oligonucleotide can serve two species is a sequence question, settled at design by matching the candidate against each transcript, not by the protein identity shown there.
04
Check expression in your model
A transcript that is not expressed in your cells cannot show knockdown. Confirm the gene is expressed in the cell type and condition you will use, from your own data or a reference atlas, before the order. The expression panel above gives GTEx's median per tissue for a human gene; for mouse and rat it says that no atlas is on this page yet.
05
Run the controls
A scramble control of the same chemistry, a positive control against a gene known to knock down in your cells, untreated cells, and a mock condition where a transfection reagent is used. Read knockdown at the RNA level first, then at the protein; the usage guide gives the timing and the concentrations to start from.
06
Pick the product
AUMsilence sdASO needs no transfection reagent and works in the cells that resist one. AUMsilence toASO is the transfection-optimised version of the same design, and AUMsiRNA™ is the siRNA route. The selection guide compares them.
This gene encodes a voltage-dependent anion channel (VDAC), and belongs to the mitochondrial porin family. VDACs are small, integral membrane proteins that traverse the outer mitochondrial membrane and conduct ATP and other small metabolites. They are known to bind several kinases of intermediary metabolism, thought to be involved in translocation of adenine nucleotides, and are hypothesized to form part of the mitochondrial permeability transition pore, which results in the release of cytochrome c at the onset of apoptotic cell death. Alternatively transcript variants encoding different isoforms have been described for this gene.
Provided by RefSeq, Oct 2011, through NCBI Gene. NCBI disclaimer
Protein function
Non-selective voltage-gated ion channel VDAC3, Q9Y277
Non-selective voltage-gated ion channel that mediates the transport of anions and cations through the mitochondrion outer membrane and plasma membrane (PubMed:31935282). Forms a high-conducting channel with a stable open state and a voltage-induced closure with a mild preference for anions over cations (PubMed:31935282). Involved in male fertility and sperm mitochondrial sheath formation (By similarity)
NCBI Gene summary · NCBI Gene annotation RS_2025_08 · read · NCBI Gene 7419Data from NCBI, provided as is; NCBI's policies and disclaimers apply.
UniProtKB function · 2026_04 · read · UniProt Q9Y277UniProt data are available under the Creative Commons Attribution 4.0 licence.
Placed on GRCh38.p14 (GCF_000001405.40). MANE Select marks the one transcript RefSeq and Ensembl agree is the reference for this gene.
RefSeq 16 transcripts
coding sequence, tall
untranslated region, thin
non-coding exon
intron, fixed width
Genomic strand: plus. Drawn 5' to 3', so exon 1 sits at the left here and at the lowest coordinate on the chromosome.
NM_005662.7NM_005662.7MANE Select
NM_001413554.1NM_001413554.1
NM_001413555.1NM_001413555.1
NM_001135694.3NM_001135694.3
NM_001413556.1NM_001413556.1
NM_001413558.1NM_001413558.1
NM_001413560.1NM_001413560.1
NM_001413553.1NM_001413553.1
NM_001413552.1NM_001413552.1
NM_001413561.1NM_001413561.1
NM_001413557.1NM_001413557.1
NM_001413559.1NM_001413559.1
NR_182163.1NR_182163.1
NR_182160.1NR_182160.1
NR_182162.1NR_182162.1
NR_182161.1NR_182161.1
scale
Drawn 5' to 3' from each transcript's exons as placed on the reference assembly; exon 1 is the 5' exon on the transcript's own strand. Exon blocks are to scale with each other, except 1 block too short to see, widened to a fixed few pixels; introns are drawn at one fixed width whatever their length, so the map is not to scale along the chromosome. Numbers are exon ranks along the strand; a rank is omitted where the exon is too narrow to carry it.
A window on one transcript
One pixel of the map above stands for several bases, and a block too short to see is drawn wider than its own scale, so the map chooses a region and the sequence here chooses the window. Click an exon on a row of the map, or drag across a row; then set the exact start and end below.
These controls are ready in a moment.
No transcript is chosen.
Once a window is chosen this panel shows its length, its G and C count as a percentage of that length, the letters it is made of, the exons it falls in, whether it crosses a junction, and its antisense strand.
Drawn 5' to 3' from each transcript's exons as placed on the reference assembly; exon 1 is the 5' exon on the transcript's own strand. Exon blocks are to scale with each other; introns are drawn at one fixed width whatever their length, so the map is not to scale along the chromosome. Numbers are exon ranks along the strand; a rank is omitted where the exon is too narrow to carry it.
A window on one transcript
One pixel of the map above stands for several bases, and a block too short to see is drawn wider than its own scale, so the map chooses a region and the sequence here chooses the window. Click an exon on a row of the map, or drag across a row; then set the exact start and end below.
These controls are ready in a moment.
No transcript is chosen.
Once a window is chosen this panel shows its length, its G and C count as a percentage of that length, the letters it is made of, the exons it falls in, whether it crosses a junction, and its antisense strand.
Lengths are spliced lengths, as each source states them. Exon ranks follow the strand: on a minus-strand gene exon 1 has the highest genomic coordinate. Reference assembly for human: GRCh38.
191 Open Targets disease associations; neurodegenerative disease first, at 0.53.
Open Targets
54 GTEx tissues; the highest median in Muscle - Skeletal, 257 TPM.
GTEx
2,006 PubMed-indexed papers mention VDAC3 at Europe PMC, newest first. Europe PMC ignores letter case, so the count also covers another species' symbol spelled with the same letters.
Europe PMC
283 residues, reviewed Q9Y277; 8 entries from the member databases this page shows along the chain; mean pLDDT 95.12; no experimental structure at PDBe.
UniProt · InterPro · AlphaFold DB · PDBe
3 curated, 0 inferred Reactome pathways for Q9Y277 in human, v98.
Reactome
ClinVar: 100 records for VDAC3, 51 pathogenic or likely pathogenic.
ClinVar
pLI 0.9995 and LOEUF 0.388 in gnomAD v4 (GRCh38), on ENST00000022615.9.
