CYP4A11
protein-codingcytochrome P450 family 4 subfamily A member 11, the group of Cytochrome P450 family 4
Gene summary
This gene encodes a member of the cytochrome P450 superfamily of enzymes. The cytochrome P450 proteins are monooxygenases which catalyze many reactions involved in drug metabolism and synthesis of cholesterol, steroids and other lipids. This protein localizes to the endoplasmic reticulum and hydroxylates medium-chain fatty acids such as laurate and myristate. Multiple transcript variants have been found for this gene. [provided by RefSeq, Jan 2016]
- CYP4A2
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~12.3 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
No GenCC data available for this gene.
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to CYP4A11 variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_000778.4. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 1 | 1 | 1 | 3 | ||
| missense | 87 | 4 | 91 | |||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| splice donor/acceptor (+/-2bp) | 1 | 1 | ||||
| Total | 0 | 0 | 89 | 5 | 1 | 95 |
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_000769.2 | 12 | MANE Select | |
| Ensembl | ENSP00000311095.4 | 12 | MANE Select | |
| RefSeq | NP_001306084.1 | 12 | Standard | |
| RefSeq | NP_001350516.1 | 10 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Retinol metabolism - Homo sapiens (human)
- Fatty acid degradation - Homo sapiens (human)
- Vascular smooth muscle contraction - Homo sapiens (human)
- Arachidonic acid metabolism - Homo sapiens (human)
- Etodolac Action Pathway
Biological Process
- long-chain fatty acid metabolic process
- renal water homeostasis
- pressure natriuresis
- fatty acid metabolic process
- leukotriene metabolic process
Molecular Function
- monooxygenase activity
- iron ion binding
- arachidonic acid epoxygenase activity
- alkane 1-monooxygenase activity
- heme binding
Cellular Component
- cytoplasm
- endoplasmic reticulum membrane
- apical plasma membrane
- organelle membrane
- intracellular membrane-bounded organelle
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000310638
- Coding exons
- 12
- Length
- 12308
- Individuals with no LoFs
- 125563
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 185
- Defined
- 125748
- p
- 0.000736
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | -1.12 | 346 | 292 | 1.18 | 0.0000152 | 3393 |
| Missense (PolyPhen) | 83 | 70.257 | 1.1814 | 937 | ||
| Synonymous | 0.296 | 112 | 116 | 0.965 | 0.00000612 | 1021 |
| Loss of Function | -1.11 | 33 | 26.8 | 1.23 | 0.00000130 | 280 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.00031 | 0.00031 | rare |
| Latino/Admixed American | 0.00065 | 0.00064 | rare |
| Ashkenazi Jewish | 0.00020 | 0.00020 | rare |
| East Asian | 0.0018 | 0.0018 | notable |
| Finnish | 0.0014 | 0.0014 | notable |
| European (Non-Finnish) | 0.00054 | 0.00054 | rare |
| South Asian | 0.00096 | 0.00095 | rare |
| Other | 0.00050 | 0.00049 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Catalyzes the omega- and (omega-1)-hydroxylation of various fatty acids such as laurate, myristate and palmitate. Has little activity toward prostaglandins A1 and E1. Oxidizes arachidonic acid to 20-hydroxyeicosatetraenoic acid (20-HETE). {ECO:0000269|PubMed:15611369, ECO:0000269|PubMed:1739747, ECO:0000269|PubMed:7679927}.;
Recessive Scores
- pRec
- 0.497
Intolerance Scores
- LoFtool
- 0.904
- RVIS EVS
- 0.23
- RVIS percentile EVS
- 68.52
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.735
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |