MAF1
MAF1 homolog, negative regulator of RNA polymerase III
Basic information
Region (hg38): 8:144104420-144107611
Links
Phenotypes
GenCC
Source:
No genCC data.
ClinVar
This is a list of variants' phenotypes submitted to
Variants pathogenicity by type
Statistics on ClinVar variants can assist in determining whether a specific variant type in the MAF1 gene is commonly pathogenic or not.
In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.
Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.
| Variant type | Pathogenic | Likely pathogenic | VUS | Likely benign | Benign | Sum |
|---|---|---|---|---|---|---|
| synonymous | 1 | |||||
| missense | 10 | |||||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| inframe indel | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| splice region | 0 | |||||
| non coding | 0 | |||||
| Total | 0 | 0 | 8 | 2 | 1 |
Variants in MAF1
This is a list of pathogenic ClinVar variants found in the MAF1 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
| Position | Type | Phenotype | Significance | ClinVar |
|---|---|---|---|---|
| 8-144105708-T-C | not specified | Uncertain significance (Jun 24, 2022) | ||
| 8-144105743-T-C | not specified | Benign (Mar 29, 2016) | ||
| 8-144105975-A-C | not specified | Uncertain significance (May 18, 2022) | ||
| 8-144105991-C-T | not specified | Uncertain significance (May 26, 2024) | ||
| 8-144106096-G-C | not specified | Uncertain significance (Jul 06, 2021) | ||
| 8-144106103-G-C | not specified | Likely benign (Feb 03, 2022) | ||
| 8-144106107-G-A | not specified | Uncertain significance (Mar 25, 2024) | ||
| 8-144106203-C-G | not specified | Uncertain significance (Dec 21, 2023) | ||
| 8-144106888-G-A | not specified | Uncertain significance (Oct 06, 2021) | ||
| 8-144106893-G-A | not specified | Uncertain significance (Apr 07, 2023) | ||
| 8-144106900-T-A | not specified | Likely benign (Mar 01, 2023) | ||
| 8-144106919-C-G | not specified | Uncertain significance (Mar 19, 2024) | ||
| 8-144106923-G-A | not specified | Uncertain significance (Mar 03, 2022) | ||
| 8-144106950-A-G | not specified | Uncertain significance (Sep 29, 2022) |
GnomAD
Source:
| Gene | Type | Bio Type | Transcript | Coding Exons | Length |
|---|---|---|---|---|---|
| MAF1 | protein_coding | protein_coding | ENST00000322428 | 7 | 3113 |
| pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
|---|---|---|---|---|---|---|
| 0.948 | 0.0519 | 124720 | 0 | 1 | 124721 | 0.00000401 |
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
|---|---|---|---|---|---|---|
| Missense | 2.22 | 69 | 144 | 0.480 | 0.00000831 | 1704 |
| Missense in Polyphen | 16 | 47.916 | 0.33392 | 622 | ||
| Synonymous | -3.25 | 87 | 56.0 | 1.55 | 0.00000351 | 452 |
| Loss of Function | 3.18 | 1 | 13.7 | 0.0728 | 6.74e-7 | 164 |
LoF frequencies by population
| Ethnicity | Sum of pLOFs | p |
|---|---|---|
| African & African-American | 0.0000290 | 0.0000290 |
| Ashkenazi Jewish | 0.00 | 0.00 |
| East Asian | 0.00 | 0.00 |
| Finnish | 0.00 | 0.00 |
| European (Non-Finnish) | 0.00 | 0.00 |
| Middle Eastern | 0.00 | 0.00 |
| South Asian | 0.00 | 0.00 |
| Other | 0.00 | 0.00 |
dbNSFP
Source:
- Function
- FUNCTION: Element of the mTORC1 signaling pathway that acts as a mediator of diverse signals and that represses RNA polymerase III transcription. Inhibits the de novo assembly of TFIIIB onto DNA. {ECO:0000269|PubMed:20233713, ECO:0000269|PubMed:20516213, ECO:0000269|PubMed:20543138}.;
- Pathway
- Signal Transduction;Regulation of PTEN gene transcription;PTEN Regulation;PIP3 activates AKT signaling;Intracellular signaling by second messengers
(Consensus)
Recessive Scores
- pRec
- 0.127
Intolerance Scores
- loftool
- 0.288
- rvis_EVS
- -0.12
- rvis_percentile_EVS
- 44.89
Haploinsufficiency Scores
- pHI
- 0.104
- hipred
- Y
- hipred_score
- 0.685
- ghis
- 0.533
Essentials
- essential_gene_CRISPR
- E
- essential_gene_CRISPR2
- S
- essential_gene_gene_trap
- N
- gene_indispensability_pred
- E
- gene_indispensability_score
- 0.985
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Maf1
- Phenotype
- homeostasis/metabolism phenotype; adipose tissue phenotype (the observable morphological and physiological characteristics of mammalian fat tissue that are manifested through development and lifespan); growth/size/body region phenotype; reproductive system phenotype; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); liver/biliary system phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan);
Gene ontology
- Biological process
- negative regulation of transcription by RNA polymerase III
- Cellular component
- nucleus;nucleoplasm;nucleolus;cytoplasm;cytosol;plasma membrane;axon;dendrite;intracellular membrane-bounded organelle;perinuclear region of cytoplasm;inhibitory synapse
- Molecular function
- RNA polymerase III core binding;RNA polymerase III type 1 promoter DNA binding;RNA polymerase III type 2 promoter DNA binding;RNA polymerase III type 3 promoter DNA binding;GABA receptor binding