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 | 932 | 124 | 790 |
| Samples | 458 | 77 | 371 |
| Peptides | 348 | 51 | 298 |
Function
SEMA3C · Semaphorin 3C
This gene encodes a secreted glycoprotein that belongs to the semaphorin class 3 family of neuronal guidance cues. The encoded protein contains an N-terminal sema domain, integrin and immunoglobulin-like domains, and a C-terminal basic domain. Homodimerization and proteolytic cleavage of the C-terminal propeptide are necessary for the function of the encoded protein. It binds a neuropilin co-receptor before forming a heterotrimeric complex with an associated plexin. An increase in the expression of this gene correlates with an increase in cancer cell invasion and adhesion. Naturally occurring mutations in this gene are associated with Hirschsprung disease. [provided by RefSeq, May 2017].
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 348 amino-acid changes on canonical ENST00000265361 · 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 SEMA3C · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in SEMA3C – 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-Cell Non-Hodgkins Lymphoma | 4/26 15% | 0/0 0% |
| T-Lymphoblastic Leukemia | 5/40 12% | 0/0 0% |
| Chordoma | 0/7 0% | 1/13 8% |
| Endometrial Carcinoma | 8/42 19% | 21/612 3% |
| Oral Cavity Carcinoma | 2/54 4% | 0/0 0% |
| Hodgkins Lymphoma | 2/16 12% | 2/122 2% |
| Glioblastoma | 2/98 2% | 0/0 0% |
| Non-Small Cell Lung Carcinoma | 8/304 3% | 23/1390 2% |
| Melanoma | 4/210 2% | 34/1899 2% |
| Colorectal Carcinoma | 14/143 10% | 47/3239 1% |
| Squamous Cell Lung Carcinoma | 0/57 0% | 14/810 2% |
| Gastric Carcinoma | 1/74 1% | 27/1809 1% |
| Cervical Carcinoma | 0/35 0% | 6/422 1% |
| Glioma | 3/52 6% | 25/2127 1% |
| Other Solid Cancers | 0/94 0% | 20/1515 1% |
| Small Cell Lung Carcinoma | 2/9 22% | 7/752 1% |
| Plasma Cell Myeloma | 2/44 5% | 2/305 1% |
| Acute Myeloid Leukemia | 1/90 1% | 0/0 0% |
| Bladder Carcinoma | 0/58 0% | 10/956 1% |
| Hepatocellular Carcinoma | 0/46 0% | 22/2210 1% |
| Ovarian Carcinoma | 7/109 6% | 3/998 0% |
| Esophageal Squamous Cell Carcinoma | 1/51 2% | 22/2550 1% |
| Head and Neck Carcinoma | 3/85 4% | 11/1574 1% |
| Esophageal Carcinoma | 0/23 0% | 6/769 1% |
| Neuroendocrine Tumour | 0/154 0% | 5/577 1% |
| B-Cell Non-Hodgkins Lymphoma | 0/88 0% | 17/2534 1% |
| Germ Cell Tumour | 0/25 0% | 1/169 1% |
| Breast Carcinoma | 1/144 1% | 14/3264 0% |
| Non-Cancerous | 1/104 1% | 3/830 0% |
| Thyroid Gland Carcinoma | 1/45 2% | 6/1592 0% |
Mutation Distribution
Where SEMA3C is mutated · all tissues, split by cell line vs tissue
How many mutations in SEMA3C 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 932 mutations in SEMA3C
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 |
|---|