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 | 2,677 | 455 | 2,206 |
| Samples | 530 | 134 | 392 |
| Peptides | 418 | 82 | 350 |
Function
RAPGEF4 · Rap guanine nucleotide exchange factor 4
Enables guanyl-nucleotide exchange factor activity. Predicted to be involved in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane and regulation of postsynapse organization. Predicted to act upstream of or within adenylate cyclase-activating G protein-coupled receptor signaling pathway; regulation of exocytosis; and secretion by cell. Predicted to be located in plasma membrane. Predicted to be active in glutamatergic synapse; hippocampal mossy fiber to CA3 synapse; and postsynaptic density. Implicated in autistic disorder. [provided by Alliance of Genome Resources, Apr 2022]
Isoforms & Proteins
6 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 386 amino-acid changes on canonical ENST00000397081 · 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 RAPGEF4 · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in RAPGEF4 – 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 | 6/40 15% | 0/0 0% |
| Chronic Myelogenous Leukemia | 2/25 8% | 0/0 0% |
| Endometrial Carcinoma | 5/42 12% | 36/612 6% |
| Glioblastoma | 5/98 5% | 0/0 0% |
| Acute Monocytic Leukemia | 0/1 0% | 1/25 4% |
| Acute Myeloid Leukemia | 3/90 3% | 0/0 0% |
| Melanoma | 9/210 4% | 55/1899 3% |
| Cervical Carcinoma | 0/35 0% | 11/422 3% |
| Non-Small Cell Lung Carcinoma | 16/304 5% | 22/1390 2% |
| Colorectal Carcinoma | 14/143 10% | 59/3239 2% |
| Gastric Carcinoma | 2/74 3% | 29/1809 2% |
| Squamous Cell Lung Carcinoma | 2/57 4% | 12/810 1% |
| Hodgkins Lymphoma | 2/16 12% | 0/122 0% |
| Small Cell Lung Carcinoma | 0/9 0% | 10/752 1% |
| Meningioma | 1/3 33% | 2/252 1% |
| Other Solid Cancers | 0/94 0% | 19/1515 1% |
| Ovarian Carcinoma | 7/109 6% | 5/998 0% |
| Bladder Carcinoma | 0/58 0% | 11/956 1% |
| Other Sarcomas | 3/69 4% | 5/699 1% |
| Germ Cell Tumour | 1/25 4% | 1/169 1% |
| Biliary Tract Carcinoma | 2/54 4% | 8/950 1% |
| Hepatocellular Carcinoma | 4/46 9% | 18/2210 1% |
| Neuroendocrine Tumour | 5/154 3% | 2/577 0% |
| Burkitts Lymphoma | 2/32 6% | 0/196 0% |
| Head and Neck Carcinoma | 4/85 5% | 9/1574 1% |
| Esophageal Squamous Cell Carcinoma | 0/51 0% | 19/2550 1% |
| Pancreatic Carcinoma | 8/89 9% | 4/1611 0% |
| Ewings Sarcoma | 0/63 0% | 2/262 1% |
| Breast Carcinoma | 8/144 6% | 12/3264 0% |
| Plasma Cell Myeloma | 0/44 0% | 2/305 1% |
Mutation Distribution
Where RAPGEF4 is mutated · all tissues, split by cell line vs tissue
How many mutations in RAPGEF4 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 2,677 mutations in RAPGEF4
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 |
|---|