MCRS1
microspherule protein 1, the group of INO80 complex |NSL histone acetyltransferase complex
Basic information
Region (hg38): 12:49556544-49568145
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 MCRS1 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 | 0 | |||||
| missense | 12 | 12 | ||||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| inframe indel | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| splice region | 0 | |||||
| non coding | 0 | |||||
| Total | 0 | 0 | 12 | 0 | 0 |
Variants in MCRS1
This is a list of pathogenic ClinVar variants found in the MCRS1 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
| Position | Type | Phenotype | Significance | ClinVar |
|---|---|---|---|---|
| 12-49557185-A-C | not specified | Uncertain significance (Jun 06, 2023) | ||
| 12-49557188-G-A | not specified | Uncertain significance (Jan 09, 2024) | ||
| 12-49557252-G-A | not specified | Uncertain significance (Jul 25, 2023) | ||
| 12-49557441-A-G | not specified | Likely benign (Jun 11, 2021) | ||
| 12-49557478-C-T | not specified | Uncertain significance (Aug 04, 2021) | ||
| 12-49557487-C-T | not specified | Uncertain significance (May 23, 2023) | ||
| 12-49557497-C-T | Benign (Jun 10, 2018) | |||
| 12-49557498-G-C | not specified | Uncertain significance (Oct 17, 2023) | ||
| 12-49557505-T-A | not specified | Uncertain significance (Oct 26, 2021) | ||
| 12-49557588-C-T | not specified | Uncertain significance (Jun 11, 2021) | ||
| 12-49557685-C-T | not specified | Uncertain significance (Dec 21, 2022) | ||
| 12-49557760-C-T | not specified | Uncertain significance (May 16, 2024) | ||
| 12-49557766-A-G | not specified | Uncertain significance (Mar 01, 2023) | ||
| 12-49557789-G-A | not specified | Uncertain significance (Jun 07, 2023) | ||
| 12-49557840-G-A | not specified | Uncertain significance (Jul 26, 2021) | ||
| 12-49557847-G-A | not specified | Uncertain significance (Aug 22, 2023) | ||
| 12-49557849-G-A | not specified | Uncertain significance (Jun 02, 2023) | ||
| 12-49557874-A-C | not specified | Uncertain significance (Nov 03, 2023) | ||
| 12-49558678-T-C | not specified | Uncertain significance (Oct 05, 2023) | ||
| 12-49558693-C-T | not specified | Uncertain significance (Jun 17, 2024) | ||
| 12-49558928-T-C | not specified | Uncertain significance (Jun 01, 2023) | ||
| 12-49559511-T-C | not specified | Uncertain significance (Jun 10, 2024) | ||
| 12-49559804-G-A | not specified | Uncertain significance (Nov 21, 2022) | ||
| 12-49563027-T-A | not specified | Uncertain significance (May 03, 2023) | ||
| 12-49563037-G-A | not specified | Uncertain significance (Mar 29, 2022) |
GnomAD
Source:
| Gene | Type | Bio Type | Transcript | Coding Exons | Length |
|---|---|---|---|---|---|
| MCRS1 | protein_coding | protein_coding | ENST00000357123 | 14 | 11610 |
| pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
|---|---|---|---|---|---|---|
| 0.166 | 0.834 | 125737 | 0 | 11 | 125748 | 0.0000437 |
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
|---|---|---|---|---|---|---|
| Missense | 2.20 | 187 | 293 | 0.639 | 0.0000181 | 3047 |
| Missense in Polyphen | 40 | 91.011 | 0.43951 | 941 | ||
| Synonymous | -0.458 | 120 | 114 | 1.05 | 0.00000653 | 955 |
| Loss of Function | 3.69 | 7 | 28.1 | 0.249 | 0.00000154 | 297 |
LoF frequencies by population
| Ethnicity | Sum of pLOFs | p |
|---|---|---|
| African & African-American | 0.0000616 | 0.0000615 |
| Ashkenazi Jewish | 0.00 | 0.00 |
| East Asian | 0.000109 | 0.000109 |
| Finnish | 0.00 | 0.00 |
| European (Non-Finnish) | 0.0000721 | 0.0000703 |
| Middle Eastern | 0.000109 | 0.000109 |
| South Asian | 0.00 | 0.00 |
| Other | 0.00 | 0.00 |
dbNSFP
Source:
- Function
- FUNCTION: Modulates the transcription repressor activity of DAXX by recruiting it to the nucleolus (PubMed:11948183). As part of the NSL complex it may be involved in acetylation of nucleosomal histone H4 on several lysine residues (PubMed:20018852). Putative regulatory component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair. May also be an inhibitor of TERT telomerase activity (PubMed:15044100). Binds to G-quadruplex structures in mRNA (PubMed:16571602). Binds to RNA homopolymer poly(G) and poly(U) (PubMed:16571602). {ECO:0000269|PubMed:11948183, ECO:0000269|PubMed:15044100, ECO:0000269|PubMed:16571602, ECO:0000269|PubMed:20018852}.;
- Pathway
- Herpes simplex infection - Homo sapiens (human);DNA Repair;Post-translational protein modification;Metabolism of proteins;Chromatin modifying enzymes;HATs acetylate histones;UCH proteinases;Deubiquitination;Chromatin organization;DNA Damage Recognition in GG-NER;Global Genome Nucleotide Excision Repair (GG-NER);Nucleotide Excision Repair
(Consensus)
Recessive Scores
- pRec
- 0.142
Intolerance Scores
- loftool
- 0.104
- rvis_EVS
- -0.47
- rvis_percentile_EVS
- 23.25
Haploinsufficiency Scores
- pHI
- 0.567
- hipred
- Y
- hipred_score
- 0.765
- ghis
- 0.577
Essentials
- essential_gene_CRISPR
- E
- essential_gene_CRISPR2
- S
- essential_gene_gene_trap
- E
- gene_indispensability_pred
- E
- gene_indispensability_score
- 0.948
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Mcrs1
- Phenotype
- immune 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); normal phenotype;
Zebrafish Information Network
- Gene name
- mcrs1
- Affected structure
- retina
- Phenotype tag
- abnormal
- Phenotype quality
- apoptotic
Gene ontology
- Biological process
- DNA repair;DNA recombination;cellular protein modification process;protein deubiquitination;histone H4-K5 acetylation;histone H4-K8 acetylation;histone H4-K16 acetylation;positive regulation of transcription by RNA polymerase II;positive regulation of protein localization to nucleolus
- Cellular component
- histone acetyltransferase complex;nucleus;nucleoplasm;nucleolus;cytoplasm;endoplasmic reticulum;polysome;dendrite;Ino80 complex;perikaryon;NSL complex;MLL1 complex
- Molecular function
- G-quadruplex RNA binding;protein binding;poly(U) RNA binding;poly(G) binding;histone acetyltransferase activity (H4-K5 specific);histone acetyltransferase activity (H4-K8 specific);histone acetyltransferase activity (H4-K16 specific)