Stats by Source
Total, split by cell line (COSMIC CL / DepMap / PubMed) vs tissue (COSMIC primary tissue)
Total = all mutations for this gene across every source.
Cell line = COSMIC Cell Lines Project + DepMap + PubMed.
Tissue = COSMIC primary-tissue (patient tumour) samples.
Total can exceed cell line + tissue: COSMIC tissue-derived models sit only in global, and a peptide can be shared across both.
| Total | Cell line | Tissue | |
|---|---|---|---|
| Mutations | 1,203 | 174 | 996 |
| Samples | 960 | 149 | 787 |
| Peptides | 852 | 121 | 733 |
Function
SETX · Senataxin
This gene encodes a protein named for its homology to the Sen1p protein of fungi which has RNA helicase activity encoded by a domain at the C-terminal end of the protein. The protein encoded by this gene contains a DNA/RNA helicase domain at its C-terminal end which suggests that it may be involved in both DNA and RNA processing. Mutations in this gene have been associated with ataxia-ocular apraxia-2 (AOA2) and an autosomal dominant form of juvenile amyotrophic lateral sclerosis (ALS4). [provided by RefSeq, Jul 2008].
Isoforms & Proteins
2 transcripts · UniProt mapping is sequence-verified (AA-safe)
Each Ensembl transcript (ENST) this gene is mutated on, with its matched UniProt accession.
The mapping is sequence-verified: the UniProt sequence is identical to the transcript translation, so amino-acid positions line up exactly. A * marks an unreviewed (TrEMBL) entry.
Counts are mutations and unique mutant peptides on each transcript.
Gene Properties
Recurrent Mutations
All 851 amino-acid changes on canonical ENST00000224140 · needle height = samples · drag the mini-map to zoom
A lollipop / needle plot – the standard way to show recurrent mutations along a protein (as used by cBioPortal and MutationMapper).
X-axis = amino-acid position in the protein.
Needle height & head size = how often that exact amino-acid change was observed (its recurrence). Tall/large heads are mutational hotspots.
The most recurrent changes are labelled; hover any needle for the change, position and counts.
Mutation frequency across cancer types
% of samples with a missense/complex mutation in SETX · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in SETX – counted as distinct samples (a sample counts once no matter how many mutations it has).
Split into cell line and tissue; each cell shows mutated / total and the percentage. Cohorts with <20 samples are omitted. Ordered by combined frequency.
| Cancer type | Cell lines | Tissue samples |
|---|---|---|
| T-Lymphoblastic Leukemia | 8/40 20% | 0/0 0% |
| Chronic Myelogenous Leukemia | 3/25 12% | 0/0 0% |
| Endometrial Carcinoma | 8/42 19% | 55/612 9% |
| T-Cell Non-Hodgkins Lymphoma | 2/26 8% | 0/0 0% |
| Acute Myeloid Leukemia | 5/90 6% | 0/0 0% |
| Gastrointestinal Stromal Tumour | 0/0 0% | 6/133 5% |
| Melanoma | 5/210 2% | 86/1899 5% |
| Colorectal Carcinoma | 14/143 10% | 111/3239 3% |
| Bladder Carcinoma | 3/58 5% | 32/956 3% |
| Non-Small Cell Lung Carcinoma | 17/304 6% | 40/1390 3% |
| Squamous Cell Lung Carcinoma | 1/57 2% | 28/810 3% |
| Gastric Carcinoma | 5/74 7% | 57/1809 3% |
| Glioblastoma | 3/98 3% | 0/0 0% |
| Other Solid Cancers | 2/94 2% | 44/1515 3% |
| Neuroendocrine Tumour | 9/154 6% | 10/577 2% |
| Hodgkins Lymphoma | 3/16 19% | 0/122 0% |
| Plasma Cell Myeloma | 3/44 7% | 4/305 1% |
| Biliary Tract Carcinoma | 0/54 0% | 20/950 2% |
| Small Cell Lung Carcinoma | 1/9 11% | 14/752 2% |
| Rhabdomyosarcoma | 0/33 0% | 4/171 2% |
| Hepatocellular Carcinoma | 2/46 4% | 41/2210 2% |
| Oral Cavity Carcinoma | 1/54 2% | 0/0 0% |
| Head and Neck Carcinoma | 5/85 6% | 25/1574 2% |
| Esophageal Squamous Cell Carcinoma | 2/51 4% | 44/2550 2% |
| Ovarian Carcinoma | 9/109 8% | 9/998 1% |
| Germ Cell Tumour | 1/25 4% | 2/169 1% |
| Cervical Carcinoma | 0/35 0% | 7/422 2% |
| Non-Cancerous | 0/104 0% | 14/830 2% |
| Thyroid Gland Carcinoma | 4/45 9% | 17/1592 1% |
| Prostate Carcinoma | 2/13 15% | 25/2105 1% |
Mutation Distribution
Where SETX is mutated · all tissues, split by cell line vs tissue
How many mutations in SETX were found in each tissue, across the whole database.
Each bar is a tissue (cell-line and tissue names are merged to the standard tissue), split into cell line and tissue (patient tumour) contributions.
This shows the cancer-context where this gene is recurrently altered.
GTEx Expression
Median TPM across 54 healthy tissues
Median gene expression (TPM) in normal, non-cancer human tissues from the GTEx project.
Useful for judging tumour specificity – a strong neoantigen target ideally comes from a gene with low expression in healthy tissues.
Scroll or drag the mini-axis below the chart to browse all tissues.
Mutations
All 1,203 mutations in SETX
Every mutation record for this gene, across all samples and sources.
The Sample column links to the cell line (cell-line samples) or the tissue type (tissue samples).
Use the Type / Source filters, the search box, and column sorting to explore; each CAN-IMMUNE ID opens the full mutation & peptide view.
| ID | Sample | Transcript | AA Change | CDS | Type | Source | Mutant Peptide | Wild-type Peptide |
|---|