CNTN5Contactin 5
Autism Reports / Total Reports
9 / 11Rare Variants / Common Variants
28 / 5Aliases
CNTN5, HNB-2s, MGC163491, NB-2Associated Syndromes
-Chromosome Band
11q22.1Associated Disorders
DD/NDD, ADHD, ID, ASDRelevance to Autism
A paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (van Daalen et al., 2011)
Molecular Function
Contactins mediate cell surface interactions during nervous system development. Has some neurite outgrowth-promoting activity in the cerebral cortical neurons but not in hippocampal neurons. Probably involved in neuronal activity in the auditory system
External Links
SFARI Genomic Platforms
Reports related to CNTN5 (11 Reports)
# | Type | Title | Author, Year | Autism Report | Associated Disorders |
---|---|---|---|---|---|
1 | Primary | Social Responsiveness Scale-aided analysis of the clinical impact of copy number variations in autism | van Daalen E , et al. (2011) | Yes | - |
2 | Support | A discovery resource of rare copy number variations in individuals with autism spectrum disorder | Prasad A , et al. (2013) | Yes | - |
3 | Support | Prospective diagnostic analysis of copy number variants using SNP microarrays in individuals with autism spectrum disorders | Nava C , et al. (2013) | Yes | ID |
4 | Positive Association | De novo mutations in epileptic encephalopathies | Epi4K Consortium , et al. (2013) | No | IS, LGS, DD, ID, ASD, ADHD |
5 | Support | Exome sequencing of extended families with autism reveals genes shared across neurodevelopmental and neuropsychiatric disorders | Cukier HN , et al. (2014) | Yes | - |
6 | Positive Association | A candidate gene association study further corroborates involvement of contactin genes in autism | Poot M (2014) | Yes | - |
7 | Negative Association | No evidence for association of autism with rare heterozygous point mutations in Contactin-Associated Protein-Like 2 (CNTNAP2), or in Other Contactin-Associated Proteins or Contactins | Murdoch JD , et al. (2015) | Yes | - |
8 | Support | CNTN6 mutations are risk factors for abnormal auditory sensory perception in autism spectrum disorders | Mercati O , et al. (2016) | Yes | - |
9 | Support | Mutations in Human Accelerated Regions Disrupt Cognition and Social Behavior | Doan RN , et al. (2016) | Yes | - |
10 | Support | - | Mitani T et al. (2021) | No | - |
11 | Support | - | Zhou X et al. (2022) | Yes | - |
Rare Variants (28)
Status | Allele Change | Residue Change | Variant Type | Inheritance Pattern | Parental Transmission | Family Type | PubMed ID | Author, Year |
---|---|---|---|---|---|---|---|---|
- | - | copy_number_loss | Unknown | - | Unknown | 23632794 | Nava C , et al. (2013) | |
- | - | copy_number_gain | Unknown | - | Unknown | 23275889 | Prasad A , et al. (2013) | |
delACAC | - | intergenic_variant | - | - | Unknown | 27667684 | Doan RN , et al. (2016) | |
c.287A>G | p.Asp96Gly | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
c.2632G>A | p.Ala878Thr | missense_variant | De novo | - | - | 35982159 | Zhou X et al. (2022) | |
- | - | copy_number_gain | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
- | - | copy_number_loss | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
- | - | copy_number_loss | Familial | Paternal | Multiplex | 21837366 | van Daalen E , et al. (2011) | |
c.970G>A | p.Ala324Thr | missense_variant | De novo | - | - | 23934111 | Epi4K Consortium , et al. (2013) | |
c.474T>G | p.Ile158Met | missense_variant | Familial | - | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.1588A>G | p.Ile530Val | missense_variant | Unknown | - | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.2611G>C | p.Ala871Pro | missense_variant | Unknown | - | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.2368T>A | p.Leu790Ile | missense_variant | Familial | - | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.3235T>A | p.Ser1079Thr | missense_variant | Unknown | - | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.724G>T | p.Asp242Tyr | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.760C>T | p.Leu254Phe | missense_variant | Familial | Paternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.1015G>A | p.Gly339Ser | missense_variant | Familial | Paternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.1091C>T | p.Ala364Val | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.1583T>C | p.Ile528Thr | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.2510G>A | p.Arg837Gln | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.2651C>T | p.Ala884Val | missense_variant | Familial | Paternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.2696T>C | p.Ile899Thr | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.2803G>A | p.Val935Ile | missense_variant | Familial | Maternal | Simplex | 27166760 | Mercati O , et al. (2016) | |
c.460G>C | p.Asp154His | missense_variant | Familial | Both parents | Simplex | 34582790 | Mitani T et al. (2021) | |
c.3194A>T | p.Tyr1065Phe | missense_variant | Familial | Maternal | Unknown | 27166760 | Mercati O , et al. (2016) | |
c.2415A>C | p.Glu805Asp | missense_variant | Familial | Maternal | Multiplex | 27166760 | Mercati O , et al. (2016) | |
c.2798C>T | p.Ser933Phe | missense_variant | Familial | Maternal | Multiplex | 27166760 | Mercati O , et al. (2016) | |
c.2368T>A | p.Leu790Ile | missense_variant | Familial | - | Extended multiplex (at least one pair of ASD affec | 24410847 | Cukier HN , et al. (2014) |
Common Variants (5)
Status | Allele Change | Residue Change | Variant Type | Inheritance Pattern | Paternal Transmission | Family Type | PubMed ID | Author, Year |
---|---|---|---|---|---|---|---|---|
c.674-15646C>T;c.452-15646C>T | Allele 1, A; allele 2, G | intron_variant | - | - | - | 25337070 | Poot M (2014) | |
c.878-20611T>C;c.656-20611T>C | Allele 1, G; allele 2, A | intron_variant | - | - | - | 25337070 | Poot M (2014) | |
c.56-96487G>T;c.56-121795G>T;c.56-121796G>T | Allele 1, C; allele 2, A | intron_variant | - | - | - | 25337070 | Poot M (2014) | |
c.878-6106C>T;c.656-6106C>T | - | intron_variant | - | - | - | 25337070 | Poot M (2014) | |
c.674-8709A>C;c.452-8709A>C | C/A | intron_variant | - | - | - | 25337070 | Poot M (2014) |
SFARI Gene score
Strong Candidate
CNVs affecting the CNTN5 gene have been identified in ASD cases, including a paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (PMIDs 21837366, 23275889, 23632794). Potentially damaging missense variants in CNTN5 have also been identified in ASD probands (PMIDs 23934111, 24410847). Screening for CNTN5 CNVs and SNVs in ASD cases and controls in Mercati et al., 2016 demonstrated that CNTN5 rare SNVs were enriched in ASD cases compared to controls (P=0.01). In the same report, ASD cases with CNTN5 rare variants were shown to be more prone to suffer from hyperacusis than ASD cases without such variants (P=0.03). Intronic polymorphisms in this gene also showed association with ASD in a case-control analysis of 67 ASD patients and 117 healthy controls (Poot 2014).
Score Delta: Score remained at 2
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.
7/1/2020
Score remained at 2
Description
CNVs affecting the CNTN5 gene have been identified in ASD cases, including a paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (PMIDs 21837366, 23275889, 23632794). Potentially damaging missense variants in CNTN5 have also been identified in ASD probands (PMIDs 23934111, 24410847). Screening for CNTN5 CNVs and SNVs in ASD cases and controls in Mercati et al., 2016 demonstrated that CNTN5 rare SNVs were enriched in ASD cases compared to controls (P=0.01). In the same report, ASD cases with CNTN5 rare variants were shown to be more prone to suffer from hyperacusis than ASD cases without such variants (P=0.03). Intronic polymorphisms in this gene also showed association with ASD in a case-control analysis of 67 ASD patients and 117 healthy controls (Poot 2014).
10/1/2019
Decreased from 3 to 2
New Scoring Scheme
Description
CNVs affecting the CNTN5 gene have been identified in ASD cases, including a paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (PMIDs 21837366, 23275889, 23632794). Potentially damaging missense variants in CNTN5 have also been identified in ASD probands (PMIDs 23934111, 24410847). Screening for CNTN5 CNVs and SNVs in ASD cases and controls in Mercati et al., 2016 demonstrated that CNTN5 rare SNVs were enriched in ASD cases compared to controls (P=0.01). In the same report, ASD cases with CNTN5 rare variants were shown to be more prone to suffer from hyperacusis than ASD cases without such variants (P=0.03). Intronic polymorphisms in this gene also showed association with ASD in a case-control analysis of 67 ASD patients and 117 healthy controls (Poot 2014).
Reports Added
[New Scoring Scheme]10/1/2016
Decreased from 3 to 3
Description
CNVs affecting the CNTN5 gene have been identified in ASD cases, including a paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (PMIDs 21837366, 23275889, 23632794). Potentially damaging missense variants in CNTN5 have also been identified in ASD probands (PMIDs 23934111, 24410847). Screening for CNTN5 CNVs and SNVs in ASD cases and controls in Mercati et al., 2016 demonstrated that CNTN5 rare SNVs were enriched in ASD cases compared to controls (P=0.01). In the same report, ASD cases with CNTN5 rare variants were shown to be more prone to suffer from hyperacusis than ASD cases without such variants (P=0.03). Intronic polymorphisms in this gene also showed association with ASD in a case-control analysis of 67 ASD patients and 117 healthy controls (Poot 2014).
4/1/2016
Increased from to 3
Description
CNVs affecting the CNTN5 gene have been identified in ASD cases, including a paternally-inherited deletion of the CNTN5 gene co-segregated with ASD in a multiplex family with three affected male children (PMIDs 21837366, 23275889, 23632794). Potentially damaging missense variants in CNTN5 have also been identified in ASD probands (PMIDs 23934111, 24410847). Screening for CNTN5 CNVs and SNVs in ASD cases and controls in Mercati et al., 2016 demonstrated that CNTN5 rare SNVs were enriched in ASD cases compared to controls (P=0.01). In the same report, ASD cases with CNTN5 rare variants were shown to be more prone to suffer from hyperacusis than ASD cases without such variants (P=0.03). Intronic polymorphisms in this gene also showed association with ASD in a case-control analysis of 67 ASD patients and 117 healthy controls (Poot 2014).
Reports Added
[Social Responsiveness Scale-aided analysis of the clinical impact of copy number variations in autism.2011] [A discovery resource of rare copy number variations in individuals with autism spectrum disorder.2013] [Prospective diagnostic analysis of copy number variants using SNP microarrays in individuals with autism spectrum disorders.2013] [Exome sequencing of extended families with autism reveals genes shared across neurodevelopmental and neuropsychiatric disorders.2014] [A candidate gene association study further corroborates involvement of contactin genes in autism.2014] [No evidence for association of autism with rare heterozygous point mutations in Contactin-Associated Protein-Like 2 (CNTNAP2), or in Other Contacti...2015] [De novo mutations in epileptic encephalopathies.2013] [CNTN6 mutations are risk factors for abnormal auditory sensory perception in autism spectrum disorders.2016]Krishnan Probability Score
Score 0.49644820199256
Ranking 2597/25841 scored genes
[Show Scoring Methodology]
ExAC Score
Score 0.0013540614430326
Ranking 11573/18225 scored genes
[Show Scoring Methodology]
Sanders TADA Score
Score 0.9433876305931
Ranking 15668/18665 scored genes
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Larsen Cumulative Evidence Score
Score 8
Ranking 220/461 scored genes
[Show Scoring Methodology]