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 | 771 | 118 | 649 |
| Samples | 274 | 60 | 212 |
| Peptides | 232 | 40 | 197 |
Function
RBM39 · RNA binding motif protein 39
This gene encodes a member of the U2AF65 family of proteins. The encoded protein is found in the nucleus, where it co-localizes with core spliceosomal proteins. It has been shown to play a role in both steroid hormone receptor-mediated transcription and alternative splicing, and it is also a transcriptional coregulator of the viral oncoprotein v-Rel. Multiple transcript variants have been observed for this gene. A related pseudogene has been identified on chromosome X. [provided by RefSeq, Aug 2011].
Isoforms & Proteins
4 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 200 amino-acid changes on canonical ENST00000253363 · 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 RBM39 · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in RBM39 – 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 |
|---|---|---|
| Oral Cavity Carcinoma | 4/54 7% | 0/0 0% |
| T-Lymphoblastic Leukemia | 2/40 5% | 0/0 0% |
| Endometrial Carcinoma | 9/42 21% | 22/612 4% |
| T-Cell Non-Hodgkins Lymphoma | 1/26 4% | 0/0 0% |
| Thymic Epithelial Tumor | 0/0 0% | 1/39 3% |
| Cervical Carcinoma | 3/35 9% | 4/422 1% |
| Bladder Carcinoma | 2/58 3% | 12/956 1% |
| Colorectal Carcinoma | 5/143 4% | 40/3239 1% |
| Chondrosarcoma | 0/14 0% | 1/75 1% |
| Glioblastoma | 1/98 1% | 0/0 0% |
| Non-Small Cell Lung Carcinoma | 9/304 3% | 7/1390 0% |
| Melanoma | 1/210 0% | 17/1899 1% |
| Ovarian Carcinoma | 4/109 4% | 5/998 0% |
| Gastrointestinal Stromal Tumour | 0/0 0% | 1/133 1% |
| Squamous Cell Lung Carcinoma | 2/57 4% | 4/810 0% |
| Other Solid Cancers | 4/94 4% | 7/1515 0% |
| Ewings Sarcoma | 2/63 3% | 0/262 0% |
| Gastric Carcinoma | 0/74 0% | 11/1809 1% |
| Plasma Cell Myeloma | 1/44 2% | 1/305 0% |
| Glioma | 0/52 0% | 11/2127 1% |
| Mesothelioma | 0/62 0% | 1/165 1% |
| Burkitts Lymphoma | 1/32 3% | 0/196 0% |
| Non-Cancerous | 0/104 0% | 4/830 0% |
| Breast Carcinoma | 4/144 3% | 10/3264 0% |
| Kidney Carcinoma | 0/85 0% | 8/1862 0% |
| Meningioma | 0/3 0% | 1/252 0% |
| Thyroid Gland Carcinoma | 0/45 0% | 6/1592 0% |
| Head and Neck Carcinoma | 0/85 0% | 6/1574 0% |
| Biliary Tract Carcinoma | 1/54 2% | 2/950 0% |
| Hepatocellular Carcinoma | 0/46 0% | 6/2210 0% |
Mutation Distribution
Where RBM39 is mutated · all tissues, split by cell line vs tissue
How many mutations in RBM39 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 771 mutations in RBM39
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 |
|---|