CSDE1cold shock domain containing E1
Autism Reports / Total Reports
3 / 7Rare Variants / Common Variants
31 / 0Chromosome Band
1p13.2Associated Disorders
ADHD, EPSGenetic Category
Rare Single Gene Mutation, Syndromic, FunctionalRelevance to Autism
A de novo nonsense variant in the CSDE1 gene was identified in an ASD proband from the Simons Simplex Collection (SSC; Iossifov et al., 2014). Guo et al., 2019 initially targeted the coding region of the CSDE1 gene using a modified single-molecule molecular inversion probe approach among 4,045 ASD probands from the Autism Clinical and Genetic Resources in China (ACGC) cohort and identified de novo likely gene-disruptive variants in three simplex families. Analysis of the SSC proband, the three ACGC probands, and thirteen additional individuals with likely gene-disruptive variants in CSDE1 identified a new neurodevelopmental syndrome characterized by ASD (a formal diagnosis was made in 10/15 evaluated individuals), intellectual disability, language and motor delay, seizures, MRI brain abnormalities, seizures, macrocephaly, behavioral problems (including ADHD and anxiety), and eye abnormalities.
Molecular Function
RNA-binding protein. Required for internal initiation of translation of human rhinovirus RNA. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain.
External Links
SFARI Genomic Platforms
Reports related to CSDE1 (7 Reports)
# | Type | Title | Author, Year | Autism Report | Associated Disorders |
---|---|---|---|---|---|
1 | Primary | The contribution of de novo coding mutations to autism spectrum disorder | Iossifov I et al. (2014) | Yes | - |
2 | Recent Recommendation | Disruptive variants of CSDE1 associate with autism and interfere with neuronal development and synaptic transmission | Guo H , et al. (2019) | Yes | ADHD, epilepsy/seizures |
3 | Support | - | El Khouri E et al. (2021) | No | Stereotypy |
4 | Support | - | Gangfuß A et al. (2022) | No | - |
5 | Support | - | Zhou X et al. (2022) | Yes | - |
6 | Support | - | Shimelis H et al. (2023) | No | - |
7 | Recent Recommendation | - | Xiangling Meng et al. (2023) | No | - |
Rare Variants (31)
Status | Allele Change | Residue Change | Variant Type | Inheritance Pattern | Parental Transmission | Family Type | PubMed ID | Author, Year |
---|---|---|---|---|---|---|---|---|
c.1660C>T | p.Arg554Ter | stop_gained | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.1036G>A | p.Gly346Arg | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.1567G>C | p.Val523Leu | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.1570G>A | p.Glu524Lys | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.2404C>T | p.Arg802Cys | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.912C>A | p.Ile304%3D | synonymous_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.367C>T | p.Arg123Ter | stop_gained | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1603-1G>A | - | splice_site_variant | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1108C>T | p.Arg370Ter | stop_gained | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1174G>T | p.Glu392Ter | stop_gained | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.229C>T | p.Arg77Ter | stop_gained | De novo | - | Simplex | 25363768 | Iossifov I et al. (2014) | |
c.362C>A | p.Ser121Ter | stop_gained | De novo | - | Simplex | 33867523 | El Khouri E et al. (2021) | |
c.1111C>T | p.Arg371Cys | missense_variant | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.2469G>T | p.Arg823Ser | missense_variant | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.367C>T | p.Arg123Ter | stop_gained | De novo | - | Simplex | 34519148 | Gangfuß A et al. (2022) | |
c.1567G>C | p.Val523Leu | missense_variant | De novo | - | Multiplex | 31579823 | Guo H , et al. (2019) | |
c.367C>T | p.Arg123Ter | stop_gained | Familial | Maternal | Unknown | 31579823 | Guo H , et al. (2019) | |
c.1753+2T>C | - | splice_site_variant | Familial | Paternal | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1330-1G>A | - | splice_site_variant | Familial | Paternal | Unknown | 31579823 | Guo H , et al. (2019) | |
c.1639C>T | p.Gln547Ter | stop_gained | Familial | Paternal | Unknown | 31579823 | Guo H , et al. (2019) | |
c.911_912insCG | p.Lys305GlyfsTer5 | frameshift_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.149del | p.Phe50SerfsTer14 | frameshift_variant | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.110dup | p.Tyr37Ter | frameshift_variant | Familial | Paternal | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1396dup | p.Val466GlyfsTer23 | frameshift_variant | De novo | - | Simplex | 31579823 | Guo H , et al. (2019) | |
c.905_906del | p.Lys302ArgfsTer12 | frameshift_variant | De novo | - | Unknown | 31579823 | Guo H , et al. (2019) | |
c.1173dup | p.Glu392ArgfsTer7 | frameshift_variant | De novo | - | Simplex | 36475376 | Shimelis H et al. (2023) | |
c.105del | p.Ser36LeufsTer28 | frameshift_variant | Familial | Paternal | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1678dup | p.Asp560GlyfsTer6 | frameshift_variant | Unknown | Not maternal | Unknown | 31579823 | Guo H , et al. (2019) | |
c.2368_2371del | p.Lys790SerfsTer17 | frameshift_variant | Familial | Maternal | Simplex | 31579823 | Guo H , et al. (2019) | |
c.1225dup | p.Arg409LysfsTer3 | frameshift_variant | Familial | Maternal | Multi-generational | 31579823 | Guo H , et al. (2019) | |
c.2333del | p.Gly778AspfsTer30 | frameshift_variant | Unknown | Not maternal | Multi-generational | 31579823 | Guo H , et al. (2019) |
Common Variants
No common variants reported.
SFARI Gene score
High Confidence, Syndromic
Score Delta: Score remained at 1S
criteria met
See SFARI Gene'scoring criteriaWe considered a rigorous statistical comparison between cases and controls, yielding genome-wide statistical significance, with independent replication, to be the strongest possible evidence for a gene. These criteria were relaxed slightly for category 2.
The syndromic category includes mutations that are associated with a substantial degree of increased risk and consistently linked to additional characteristics not required for an ASD diagnosis. If there is independent evidence implicating a gene in idiopathic ASD, it will be listed as "#S" (e.g., 2S, 3S, etc.). If there is no such independent evidence, the gene will be listed simply as "S."
4/1/2021
Score remained at 1
Description
A de novo nonsense variant in the CSDE1 gene was identified in an ASD proband from the Simons Simplex Collection (SSC; Iossifov et al., 2014). Guo et al., 2019 initially targeted the coding region of the CSDE1 gene using a modified single-molecule molecular inversion probe approach among 4,045 ASD probands from the Autism Clinical and Genetic Resources in China (ACGC) cohort and identified de novo likely gene-disruptive variants in three simplex families. Analysis of the SSC proband, the three ACGC probands, and thirteen additional individuals with likely gene-disruptive variants in CSDE1 identified a new neurodevelopmental syndrome characterized by ASD (a formal diagnosis was made in 10/15 evaluated individuals), intellectual disability, language and motor delay, seizures, MRI brain abnormalities, seizures, macrocephaly, behavioral problems (including ADHD and anxiety), and eye abnormalities.
10/1/2019
Increased from to 1
New Scoring Scheme
Description
A de novo nonsense variant in the CSDE1 gene was identified in an ASD proband from the Simons Simplex Collection (SSC; Iossifov et al., 2014). Guo et al., 2019 initially targeted the coding region of the CSDE1 gene using a modified single-molecule molecular inversion probe approach among 4,045 ASD probands from the Autism Clinical and Genetic Resources in China (ACGC) cohort and identified de novo likely gene-disruptive variants in three simplex families. Analysis of the SSC proband, the three ACGC probands, and thirteen additional individuals with likely gene-disruptive variants in CSDE1 identified a new neurodevelopmental syndrome characterized by ASD (a formal diagnosis was made in 10/15 evaluated individuals), intellectual disability, language and motor delay, seizures, MRI brain abnormalities, seizures, macrocephaly, behavioral problems (including ADHD and anxiety), and eye abnormalities.
Reports Added
[New Scoring Scheme]Krishnan Probability Score
Score 0.49092036609447
Ranking 5904/25841 scored genes
[Show Scoring Methodology]
ExAC Score
Score 0.99995156373162
Ranking 582/18225 scored genes
[Show Scoring Methodology]
Sanders TADA Score
Score 0.27952200851702
Ranking 164/18665 scored genes
[Show Scoring Methodology]
Zhang D Score
Score 0.076182035402907
Ranking 6624/20870 scored genes
[Show Scoring Methodology]