HILPDA
Basic information
Region (hg38): 7:128455848-128458418
Previous symbols: [ "C7orf68" ]
Links
Phenotypes
GenCC
Source:
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 HILPDA 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 | 6 | |||||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| inframe indel | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| splice region | 0 | |||||
| non coding | 0 | |||||
| Total | 0 | 0 | 4 | 2 | 0 |
Variants in HILPDA
This is a list of pathogenic ClinVar variants found in the HILPDA region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
| Position | Type | Phenotype | Significance | ClinVar |
|---|---|---|---|---|
| 7-128457354-G-T | not specified | Uncertain significance (Oct 14, 2023) | ||
| 7-128457368-C-G | not specified | Uncertain significance (Oct 26, 2022) | ||
| 7-128457372-C-T | not specified | Likely benign (May 17, 2023) | ||
| 7-128457387-G-C | not specified | Uncertain significance (Nov 28, 2023) | ||
| 7-128457416-G-A | not specified | Uncertain significance (Aug 17, 2021) | ||
| 7-128457422-A-C | not specified | Likely benign (Jun 24, 2022) |
GnomAD
Source:
| Gene | Type | Bio Type | Transcript | Coding Exons | Length |
|---|---|---|---|---|---|
| HILPDA | protein_coding | protein_coding | ENST00000257696 | 1 | 2570 |
| pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
|---|---|---|---|---|---|---|
| 0.316 | 0.500 | 125700 | 0 | 1 | 125701 | 0.00000398 |
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
|---|---|---|---|---|---|---|
| Missense | 0.273 | 29 | 33.4 | 0.867 | 0.00000158 | 395 |
| Missense in Polyphen | 3 | 5.7999 | 0.51725 | 72 | ||
| Synonymous | -0.607 | 19 | 15.9 | 1.19 | 8.36e-7 | 142 |
| Loss of Function | 0.531 | 0 | 0.328 | 0.00 | 1.32e-8 | 6 |
LoF frequencies by population
| Ethnicity | Sum of pLOFs | p |
|---|---|---|
| African & African-American | 0.00 | 0.00 |
| 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 | 0.0000327 | 0.0000327 |
| Other | 0.00 | 0.00 |
dbNSFP
Source:
- Function
- FUNCTION: Increases intracellular lipid accumulation. Stimulates expression of cytokines including IL6, MIF and VEGFA. Enhances cell growth and proliferation. {ECO:0000269|PubMed:15930302, ECO:0000269|PubMed:20624928}.;
- Pathway
- Vitamin D Receptor Pathway;Lipid Metabolism Pathway;Metabolism of lipids;Metabolism;Lipid particle organization
(Consensus)
Intolerance Scores
- loftool
- rvis_EVS
- 0.46
- rvis_percentile_EVS
- 78.16
Haploinsufficiency Scores
- pHI
- hipred
- N
- hipred_score
- 0.144
- ghis
Essentials
- essential_gene_CRISPR
- N
- essential_gene_CRISPR2
- N
- essential_gene_gene_trap
- N
- gene_indispensability_pred
- N
- gene_indispensability_score
- 0.114
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Hilpda
- Phenotype
Gene ontology
- Biological process
- positive regulation of cytokine production;positive regulation of cell population proliferation;positive regulation of lipid storage;lipid droplet organization;autocrine signaling;cellular response to hypoxia
- Cellular component
- extracellular space;nucleoplasm;lipid droplet;cytosol;cell surface;integral component of membrane;secretory granule
- Molecular function
- signaling receptor binding;protein binding