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 | 3,186 | 421 | 2,732 |
| Samples | 547 | 113 | 432 |
| Peptides | 400 | 74 | 346 |
Function
A1CF · APOBEC1 complementation factor
Mammalian apolipoprotein B mRNA undergoes site-specific C to U deamination, which is mediated by a multi-component enzyme complex containing a minimal core composed of APOBEC-1 and a complementation factor encoded by this gene. The gene product has three non-identical RNA recognition motifs and belongs to the hnRNP R family of RNA-binding proteins. It has been proposed that this complementation factor functions as an RNA-binding subunit and docks APOBEC-1 to deaminate the upstream cytidine. Studies suggest that the protein may also be involved in other RNA editing or RNA processing events. Several transcript variants encoding a few different isoforms have been found for this gene. [provided by RefSeq, Nov 2010].
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 354 amino-acid changes on canonical ENST00000373997 · 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 A1CF · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in A1CF – 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 | 7/40 18% | 0/0 0% |
| Chronic Myelogenous Leukemia | 2/25 8% | 0/0 0% |
| Melanoma | 15/210 7% | 130/1899 7% |
| Acute Myeloid Leukemia | 4/90 4% | 0/0 0% |
| T-Cell Non-Hodgkins Lymphoma | 1/26 4% | 0/0 0% |
| Other Solid Cancers | 0/94 0% | 45/1515 3% |
| Squamous Cell Lung Carcinoma | 0/57 0% | 23/810 3% |
| Small Cell Lung Carcinoma | 0/9 0% | 20/752 3% |
| Endometrial Carcinoma | 5/42 12% | 12/612 2% |
| Non-Small Cell Lung Carcinoma | 21/304 7% | 22/1390 2% |
| Other Sarcomas | 4/69 6% | 7/699 1% |
| Non-Cancerous | 3/104 3% | 10/830 1% |
| Chondrosarcoma | 1/14 7% | 0/75 0% |
| Gastric Carcinoma | 3/74 4% | 17/1809 1% |
| Colorectal Carcinoma | 9/143 6% | 24/3239 1% |
| Neuroendocrine Tumour | 7/154 5% | 0/577 0% |
| Burkitts Lymphoma | 2/32 6% | 0/196 0% |
| Bladder Carcinoma | 1/58 2% | 7/956 1% |
| Prostate Carcinoma | 4/13 31% | 12/2105 1% |
| Head and Neck Carcinoma | 3/85 4% | 9/1574 1% |
| Cervical Carcinoma | 0/35 0% | 3/422 1% |
| Esophageal Carcinoma | 0/23 0% | 5/769 1% |
| Ovarian Carcinoma | 4/109 4% | 3/998 0% |
| Hepatocellular Carcinoma | 1/46 2% | 13/2210 1% |
| Thyroid Gland Carcinoma | 0/45 0% | 10/1592 1% |
| Germ Cell Tumour | 0/25 0% | 1/169 1% |
| Glioma | 0/52 0% | 11/2127 1% |
| Breast Carcinoma | 6/144 4% | 10/3264 0% |
| Esophageal Squamous Cell Carcinoma | 0/51 0% | 12/2550 0% |
| Biliary Tract Carcinoma | 1/54 2% | 3/950 0% |
Mutation Distribution
Where A1CF is mutated · all tissues, split by cell line vs tissue
How many mutations in A1CF 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 52 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 3,186 mutations in A1CF
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 |
|---|