MED27
Basic information
Region (hg38): 9:131852928-132079867
Previous symbols: [ "CRSP8" ]
Links
Phenotypes
GenCC
Source:
- syndromic intellectual disability (Supportive), mode of inheritance: AD
- neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia (Strong), mode of inheritance: AR
- neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia (Strong), mode of inheritance: AR
- neurodevelopmental disorder (Strong), mode of inheritance: AR
Clinical Genomic Database
Source:
Condition | Inheritance | Intervention Categories | Intervention/Rationale | Manifestation Categories | References |
---|---|---|---|---|---|
Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | AR | General | Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing | Craniofacial; Neurologic; Ophthalmologic | 33443317 |
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 MED27 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 | 3 | |||||
missense | 18 | 18 | ||||
nonsense | 4 | |||||
start loss | 0 | |||||
frameshift | 2 | |||||
inframe indel | 0 | |||||
splice donor/acceptor (+/-2bp) | 0 | |||||
splice region | 0 | |||||
non coding | 1 | |||||
Total | 0 | 0 | 24 | 4 | 0 |
Variants in MED27
This is a list of pathogenic ClinVar variants found in the MED27 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
Position | Type | Phenotype | Significance | ClinVar |
---|---|---|---|---|
9-131860568-G-C | Likely benign (Sep 01, 2024) | |||
9-131860576-G-A | not specified | Uncertain significance (May 09, 2024) | ||
9-131860596-G-A | Intellectual disability | Uncertain significance (-) | ||
9-131860603-C-T | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Uncertain significance (Jun 17, 2023) | ||
9-131860608-T-C | Inborn genetic diseases | Uncertain significance (Sep 27, 2022) | ||
9-131860624-A-G | Inborn genetic diseases | Uncertain significance (Dec 09, 2023) | ||
9-131860635-G-A | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Uncertain significance (Apr 28, 2021) | ||
9-131860655-G-GT | Inborn genetic diseases | Uncertain significance (Sep 13, 2021) | ||
9-131863088-G-A | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Pathogenic (Apr 23, 2021) | ||
9-131884070-T-A | Inborn genetic diseases | Uncertain significance (Dec 07, 2021) | ||
9-131884101-T-C | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Pathogenic (Apr 23, 2021) | ||
9-131887958-A-G | Likely benign (Apr 01, 2023) | |||
9-131893988-G-C | Inborn genetic diseases | Uncertain significance (Dec 21, 2022) | ||
9-131939387-C-G | See cases | Uncertain significance (Nov 25, 2022) | ||
9-131939387-CAT-C | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Uncertain significance (Apr 28, 2021) | ||
9-131939427-A-T | Uncertain significance (Jun 17, 2022) | |||
9-131939431-C-T | Uncertain significance (Jun 17, 2022) | |||
9-131939471-A-T | Uncertain significance (May 02, 2024) | |||
9-132014365-G-A | Uncertain significance (May 12, 2024) | |||
9-132014368-C-T | Inborn genetic diseases | Uncertain significance (Jul 08, 2021) | ||
9-132014374-G-T | Inborn genetic diseases | Uncertain significance (Oct 20, 2023) | ||
9-132014396-C-T | Inborn genetic diseases | Uncertain significance (Jul 14, 2024) | ||
9-132014407-C-A | Inborn genetic diseases | Uncertain significance (May 28, 2024) | ||
9-132014422-ACT-A | Neurodevelopmental disorder with spasticity, cataracts, and cerebellar hypoplasia | Pathogenic (Apr 23, 2021) | ||
9-132077471-G-C | Inborn genetic diseases | Uncertain significance (Nov 15, 2021) |
GnomAD
Source:
Gene | Type | Bio Type | Transcript | Coding Exons | Length |
---|---|---|---|---|---|
MED27 | protein_coding | protein_coding | ENST00000292035 | 8 | 219802 |
pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
---|---|---|---|---|---|---|
0.0000177 | 0.890 | 125716 | 0 | 32 | 125748 | 0.000127 |
Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
---|---|---|---|---|---|---|
Missense | 1.26 | 131 | 179 | 0.734 | 0.00000971 | 2029 |
Missense in Polyphen | 21 | 44.504 | 0.47187 | 466 | ||
Synonymous | 0.0300 | 70 | 70.3 | 0.995 | 0.00000381 | 599 |
Loss of Function | 1.52 | 10 | 16.7 | 0.599 | 8.60e-7 | 190 |
LoF frequencies by population
Ethnicity | Sum of pLOFs | p |
---|---|---|
African & African-American | 0.000116 | 0.000116 |
Ashkenazi Jewish | 0.0000992 | 0.0000992 |
East Asian | 0.000172 | 0.000163 |
Finnish | 0.00 | 0.00 |
European (Non-Finnish) | 0.000177 | 0.000176 |
Middle Eastern | 0.000172 | 0.000163 |
South Asian | 0.0000980 | 0.0000980 |
Other | 0.000163 | 0.000163 |
dbNSFP
Source:
- Function
- FUNCTION: Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. {ECO:0000269|PubMed:10882111, ECO:0000269|PubMed:9989412}.;
- Pathway
- Thyroid hormone signaling pathway - Homo sapiens (human);Developmental Biology;Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription;Transcriptional regulation of white adipocyte differentiation
(Consensus)
Recessive Scores
- pRec
- 0.109
Intolerance Scores
- loftool
- 0.371
- rvis_EVS
- -0.47
- rvis_percentile_EVS
- 23.04
Haploinsufficiency Scores
- pHI
- 0.175
- hipred
- Y
- hipred_score
- 0.661
- ghis
- 0.616
Essentials
- essential_gene_CRISPR
- E
- essential_gene_CRISPR2
- E
- essential_gene_gene_trap
- E
- gene_indispensability_pred
- E
- gene_indispensability_score
- 0.731
Gene Damage Prediction
All | Recessive | Dominant | |
---|---|---|---|
Mendelian | Medium | Medium | Medium |
Primary Immunodeficiency | Medium | Medium | Medium |
Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Med27
- Phenotype
Gene ontology
- Biological process
- regulation of transcription by RNA polymerase II;transcription initiation from RNA polymerase II promoter;protein ubiquitination;stem cell population maintenance;positive regulation of nucleic acid-templated transcription
- Cellular component
- ubiquitin ligase complex;nucleus;nucleoplasm;transcription factor complex;nucleolus;cytosol;mediator complex
- Molecular function
- transcription coactivator activity;protein binding;ubiquitin protein ligase activity