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Relevance to Autism

A de novo missense variant in the HACE1 gene was identified in an ASD proband from the Simons Simplex Collection in Iossifov et al., 2014; functional assessment of this variant by a high throughput Massively Parallel Splicing Assay (MaPSY) in Rhine et al., 2022 demonstrated that this variant disrupted splicing, and this functional effect was further validated by RT-PCR. A de novo in-frame deletion variant and multiple rare de novo non-coding variants in HACE1 have also been observed in ASD probands (Krumm et al., 2015; Yuen et al., 2017;Turner et al., 2017).

Molecular Function

This gene encodes a HECT domain and ankyrin repeat-containing ubiquitin ligase. The encoded protein is involved in specific tagging of target proteins, leading to their subcellular localization or proteasomal degradation. The protein is a potential tumor suppressor and is involved in the pathophysiology of several tumors, including Wilm's tumor. Biallelic variants in HACE1 are responsible for spastic paraplegia and psychomotor retardation with or without seizures (SPPRS; OMIM 616756), an autosomal recessive complex neurodevelopmental disorder with onset in infancy in which affected children show hypotonia followed by severely impaired global development and significant motor disability (Hollstein et al., 2015; Akawi et al., 2015).

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Excess of rare, inherited truncating mutations in autism.
ASD
Support
DD, ID, epilepsy/seizures
Support
Integrating de novo and inherited variants in 42
ASD
Support
Genomic Patterns of De Novo Mutation in Simplex Autism
ASD
Support
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD
Support
DD, epilepsy/seizures
Support
Discovery of four recessive developmental disorders using probabilistic genotype and phenotype matching among 4,125 families
Spastic paraplegia and psychomotor retardation wit
Support
Epilepsy/seizures
Support
HACE1 deficiency causes an autosomal recessive neurodevelopmental syndrome
Spastic paraplegia and psychomotor retardation wit
Recent Recommendation
Massively parallel reporter assays discover de novo exonic splicing mutants in paralogs of Autism genes
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN1301R001 
 missense_variant 
 c.1753C>T 
 p.Arg585Trp 
 De novo 
  
 Simplex 
 GEN1301R002 
 inframe_deletion 
 c.148_150del 
 p.Leu50del 
 De novo 
  
 Simplex 
 GEN1301R003 
 intron_variant 
 c.2212-7180G>T 
  
 De novo 
  
 Simplex 
 GEN1301R004 
 intron_variant 
 c.403-4954T>G 
  
 De novo 
  
 Multiplex 
 GEN1301R005 
 intron_variant 
 c.2344-980C>T 
  
 De novo 
  
 Multiplex 
 GEN1301R006 
 intron_variant 
 c.222-22C>T 
  
 De novo 
  
 Simplex 
 GEN1301R007 
 intron_variant 
 c.2381+2029A>G 
  
 De novo 
  
 Simplex 
 GEN1301R008 
 intron_variant 
 c.618-5554A>G 
  
 De novo 
  
 Simplex 
 GEN1301R009 
 intron_variant 
 c.326+2789T>C 
  
 De novo 
  
 Simplex 
 GEN1301R010 
 intron_variant 
 c.2381+3049dup 
  
 De novo 
  
 Simplex 
 GEN1301R011 
 synonymous_variant 
 c.1953G>A 
 p.Ala651%3D 
 De novo 
  
 Simplex 
 GEN1301R012a 
 stop_gained 
 c.2242C>T 
 p.Arg748Ter 
 Familial 
 Maternal 
  
 GEN1301R012b 
 stop_gained 
 c.152C>G 
 p.Ser51Ter 
 Familial 
 Paternal 
  
 GEN1301R013a 
 splice_site_variant 
 c.402+5G>A 
  
 Familial 
 Both parents 
 Multiplex 
 GEN1301R014a 
 frameshift_variant 
 c.1439_1442del 
 p.Val480AlafsTer7 
 Familial 
  
 Simplex 
 GEN1301R014b 
 frameshift_variant 
 c.259_262del 
 p.Lys87GlufsTer27 
 Familial 
  
 Simplex 
 GEN1301R015 
 stop_gained 
 c.805C>T 
 p.Arg269Ter 
 Unknown 
  
 Simplex 

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
6
Deletion
 5
 
6
Deletion
 1
 
6
Deletion
 1
 
6
Deletion
 2
 
6
Deletion-Duplication
 23
 

No Animal Model Data Available

 

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