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 | 610 | 80 | 528 |
| Samples | 302 | 49 | 252 |
| Peptides | 225 | 33 | 204 |
Function
SLC6A4 · Solute carrier family 6 member 4
This gene encodes an integral membrane protein that transports the neurotransmitter serotonin from synaptic spaces into presynaptic neurons. The encoded protein terminates the action of serotonin and recycles it in a sodium-dependent manner. This protein is a target of psychomotor stimulants, such as amphetamines and cocaine, and is a member of the sodium:neurotransmitter symporter family. A repeat length polymorphism in the promoter of this gene has been shown to affect the rate of serotonin uptake. There have been conflicting results in the literature about the possible effect, if any, that this polymorphism may play in behavior and depression. [provided by RefSeq, May 2019].
Isoforms & Proteins
3 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 218 amino-acid changes on canonical ENST00000261707 · 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 SLC6A4 · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in SLC6A4 – 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 | 3/40 8% | 0/0 0% |
| Endometrial Carcinoma | 4/42 10% | 18/612 3% |
| Melanoma | 2/210 1% | 47/1899 2% |
| Hodgkins Lymphoma | 0/16 0% | 2/122 2% |
| Acute Myeloid Leukemia | 1/90 1% | 0/0 0% |
| Neuroendocrine Tumour | 4/154 3% | 4/577 1% |
| Colorectal Carcinoma | 8/143 6% | 29/3239 1% |
| Glioblastoma | 1/98 1% | 0/0 0% |
| Other Solid Cancers | 3/94 3% | 12/1515 1% |
| Squamous Cell Lung Carcinoma | 0/57 0% | 8/810 1% |
| Other Sarcomas | 1/69 1% | 6/699 1% |
| Plasma Cell Myeloma | 2/44 5% | 1/305 0% |
| Gastric Carcinoma | 1/74 1% | 14/1809 1% |
| Bladder Carcinoma | 0/58 0% | 8/956 1% |
| Non-Small Cell Lung Carcinoma | 4/304 1% | 8/1390 1% |
| Ewings Sarcoma | 1/63 2% | 1/262 0% |
| Glioma | 0/52 0% | 12/2127 1% |
| Small Cell Lung Carcinoma | 0/9 0% | 4/752 1% |
| Prostate Carcinoma | 0/13 0% | 11/2105 1% |
| Osteosarcoma | 0/45 0% | 1/166 1% |
| Ovarian Carcinoma | 2/109 2% | 3/998 0% |
| Burkitts Lymphoma | 1/32 3% | 0/196 0% |
| Breast Carcinoma | 3/144 2% | 12/3264 0% |
| Mesothelioma | 1/62 2% | 0/165 0% |
| Cervical Carcinoma | 0/35 0% | 2/422 0% |
| Non-Cancerous | 0/104 0% | 4/830 0% |
| Esophageal Squamous Cell Carcinoma | 1/51 2% | 10/2550 0% |
| Meningioma | 1/3 33% | 0/252 0% |
| Pancreatic Carcinoma | 1/89 1% | 5/1611 0% |
| Kidney Carcinoma | 2/85 2% | 4/1862 0% |
Mutation Distribution
Where SLC6A4 is mutated · all tissues, split by cell line vs tissue
How many mutations in SLC6A4 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 610 mutations in SLC6A4
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 |
|---|