CNKSR2connector enhancer of kinase suppressor of Ras 2
Autism Reports / Total Reports
4 / 14Rare Variants / Common Variants
32 / 0Aliases
CNKSR2, CNK2, KSR2, MAGUINAssociated Syndromes
-Chromosome Band
Xp22.12Associated Disorders
ADHD, ID, EPS, ASDRelevance to Autism
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder".
Molecular Function
This gene encodes a multidomain protein that functions as a scaffold protein to mediate the mitogen-activated protein kinase pathways downstream from Ras. This gene product is induced by vitamin D and inhibits apoptosis in certain cancer cells. It may also play a role in ternary complex assembly of synaptic proteins at the postsynaptic membrane and coupling of signal transduction to membrane/cytoskeletal remodeling.
External Links
SFARI Genomic Platforms
Reports related to CNKSR2 (14 Reports)
# | Type | Title | Author, Year | Autism Report | Associated Disorders |
---|---|---|---|---|---|
1 | Support | Loss-of-Function CNKSR2 Mutation Is a Likely Cause of Non-Syndromic X-Linked Intellectual Disability | Houge G , et al. (2012) | No | ID, epilepsy/seizures, ADHD |
2 | Support | Absent CNKSR2 causes seizures and intellectual, attention, and language deficits | Vaags AK , et al. (2014) | No | ID, epilepsy/seizures |
3 | Primary | Prevalence and architecture of de novo mutations in developmental disorders | et al. (2017) | No | ASD |
4 | Support | CNKSR2 mutation causes the X-linked epilepsy-aphasia syndrome: A case report and review of literature | Sun Y , et al. (2018) | Yes | - |
5 | Support | A de novo variant in the X-linked gene CNKSR2 is associated with seizures and mild intellectual disability in a female patient | Polla DL , et al. (2019) | No | - |
6 | Support | A recurrent PJA1 variant in trigonocephaly and neurodevelopmental disorders | Suzuki T et al. (2020) | Yes | - |
7 | Support | Large-scale targeted sequencing identifies risk genes for neurodevelopmental disorders | Wang T et al. (2020) | Yes | - |
8 | Support | - | Higa LA et al. (2021) | No | ASD, ADHD |
9 | Support | - | Erata E et al. (2021) | No | - |
10 | Support | - | Mahjani B et al. (2021) | Yes | - |
11 | Support | - | Ito H et al. (2021) | No | - |
12 | Support | - | Chuan Z et al. (2022) | No | - |
13 | Support | - | Lucie Sedlackova et al. (2024) | No | - |
14 | Support | - | Yuting Lou et al. (2024) | No | ADHD, epilepsy/seizures |
Rare Variants (32)
Status | Allele Change | Residue Change | Variant Type | Inheritance Pattern | Parental Transmission | Family Type | PubMed ID | Author, Year |
---|---|---|---|---|---|---|---|---|
c.1954+2T>A | - | splice_site_variant | De novo | - | - | 28135719 | et al. (2017) | |
c.1273C>T | p.Gln425Ter | stop_gained | De novo | - | - | 28135719 | et al. (2017) | |
c.1733G>A | p.Trp578Ter | stop_gained | De novo | - | - | 28135719 | et al. (2017) | |
- | - | copy_number_loss | Familial | Maternal | - | 34266427 | Higa LA et al. (2021) | |
c.520-1G>A | - | splice_site_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1905-2A>G | - | splice_site_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1954+2T>A | - | splice_site_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.2055+1G>A | - | splice_site_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1198C>T | p.Arg400Ter | stop_gained | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1564C>T | p.Gln522Ter | stop_gained | Unknown | - | - | 35571021 | Chuan Z et al. (2022) | |
c.175C>T | p.Arg59Cys | missense_variant | Unknown | - | - | 33004838 | Wang T et al. (2020) | |
- | - | copy_number_loss | Familial | Maternal | Simplex | 22511892 | Houge G , et al. (2012) | |
c.1282C>T | p.Arg428Ter | stop_gained | Unknown | - | - | 34615535 | Mahjani B et al. (2021) | |
- | - | copy_number_loss | Familial | Maternal | Simplex | 25223753 | Vaags AK , et al. (2014) | |
c.2782C>T | p.Arg928Cys | missense_variant | Unknown | - | - | 33004838 | Wang T et al. (2020) | |
- | - | copy_number_loss | Familial | Maternal | Multiplex | 25223753 | Vaags AK , et al. (2014) | |
c.2185C>T | p.Arg729Ter | stop_gained | De novo | - | Simplex | 30397616 | Sun Y , et al. (2018) | |
c.2349T>G | p.Tyr783Ter | stop_gained | De novo | - | Simplex | 34266427 | Higa LA et al. (2021) | |
c.2545C>T | p.Arg849Ter | stop_gained | Familial | Maternal | - | 34266427 | Higa LA et al. (2021) | |
c.2304G>A | p.Trp768Ter | stop_gained | De novo | - | Simplex | 31414730 | Polla DL , et al. (2019) | |
c.259del | p.Thr87ProfsTer6 | frameshift_variant | Unknown | - | - | 33004838 | Wang T et al. (2020) | |
c.809_810del | p.Val270GlyfsTer54 | frameshift_variant | De novo | - | - | 28135719 | et al. (2017) | |
c.1936_1937del | p.Arg646AspfsTer2 | frameshift_variant | De novo | - | - | 28135719 | et al. (2017) | |
c.2005del | p.Ala669GlnfsTer48 | frameshift_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1653_1656del | p.Asn551LysfsTer4 | frameshift_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1988_1989del | p.Arg663AsnfsTer2 | frameshift_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.2026_2027del | p.Arg676AspfsTer2 | frameshift_variant | De novo | - | - | 34266427 | Higa LA et al. (2021) | |
c.1567+1G>A | - | splice_site_variant | Familial | Maternal | Multiplex | 38337158 | Yuting Lou et al. (2024) | |
c.1537C>T | p.Pro513Ser | missense_variant | Familial | Maternal | Simplex | 34266427 | Higa LA et al. (2021) | |
c.2693G>A | p.Ser898Asn | missense_variant | Familial | Maternal | Simplex | 32530565 | Suzuki T et al. (2020) | |
c.931A>T | p.Met311Leu | missense_variant | Familial | Maternal | - | 38008000 | Lucie Sedlackova et al. (2024) | |
c.453dup | p.Asp152ArgfsTer8 | frameshift_variant | Familial | Maternal | Multiplex | 25223753 | Vaags AK , et al. (2014) |
Common Variants
No common variants reported.
SFARI Gene score
Strong Candidate, Syndromic
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
Score Delta: Score remained at 2S
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."
10/1/2020
Score remained at 2S
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
7/1/2020
Score remained at 2S
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
10/1/2019
Decreased from 3S to 2S
New Scoring Scheme
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
Reports Added
[New Scoring Scheme]7/1/2019
Decreased from 3S to 3S
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
10/1/2018
Decreased from 3S to 3S
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head. Mutations in the CNKSR2 gene had previously been shown to cause a syndromic form of X-linked intellectual disability [Houge-type X-linked syndromic mental retardation (MRXSHG, OMIM 301008)] characterized by epilepsy, speech delay, and attention problems/hyperactivity (Houge et al., 2011; Vaags et al., 2014).
1/1/2017
Increased from to 3S
Description
Analysis of de novo variants identified in patients from the Deciphering Developmental Disorders (DDD) Study cohort, along with meta-analysis of probands from previously published studies, identified CNKSR2 as a gene exceeding genome-wide significance (P<7.0E-07) (Deciphering Developmental Disorders Study, 2017). Of the five cases with de novo loss-of-function variants in the CNKSR2 gene from the DDD cohort, two (DECIPHER IDs 260220 and 266616) were reported to have the Human Phenotype Ontology (HPO) term "Autism spectrum disorder". Other recurrent HPO terms used in cases with CNKSR2 variants were joint hypermobility, global developmental delay, and abnormality of the head.
Krishnan Probability Score
Score 0.59722958787948
Ranking 430/25841 scored genes
[Show Scoring Methodology]
ExAC Score
Score 0.99974804937338
Ranking 809/18225 scored genes
[Show Scoring Methodology]
Sanders TADA Score
Score 0.94278057126092
Ranking 15436/18665 scored genes
[Show Scoring Methodology]
Zhang D Score
Score 0.63625800237619
Ranking 26/20870 scored genes
[Show Scoring Methodology]