CHRNB1
protein-codingcholinergic receptor nicotinic beta 1 subunit, the group of Cholinergic receptors nicotinic subunits
Gene summary
The muscle acetylcholine receptor is composed of five subunits: two alpha subunits and one beta, one gamma, and one delta subunit. This gene encodes the beta subunit of the acetylcholine receptor. The acetylcholine receptor changes conformation upon acetylcholine binding leading to the opening of an ion-conducting channel across the plasma membrane. Mutations in this gene are associated with slow-channel congenital myasthenic syndrome. [provided by RefSeq, Jul 2008]
- CHRNB
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~12.6 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AD
Disease ID:MONDO:0014582
Submitter: Ambry Genetics
Inheritance Pattern: AR
Disease ID:MONDO:0014582
Submitter: Genomics England PanelApp
Inheritance Pattern: AD
Disease ID:MONDO:0014581
Submitter: Ambry Genetics
Inheritance Pattern: AD
Disease ID:MONDO:0014581
Submitter: ClinGen
*CHRNB1* was first reported in relation to autosomal dominant Congenital Myasthenic Syndrome (CMS) 2A, slow-channel in 1996 (Engel AG, et al., PMID: 8872460). Congenital myasthenic syndrome associated with AChR deficiency is a disorder of the postsynaptic neuromuscular junction (NMJ) characterized clinically by early-onset muscle weakness with variable severity. CMS2A is differentiated by kinetic abnormalities of the acetylcholine receptor channel (AChR), specifically from prolonged opening and activity of the channel, which causes prolonged synaptic currents resulting in a depolarization block. Treatments with cholinesterase inhibitors or amifampridine should be avaided; while treatment with quinine, quinidine, or fluoxetine may be helpful. The clinical features of CMS2A often include easy fatigability and muscle weakness affecting the axial and limb muscles (with hypotonia in early-onset forms), the ocular muscles (leading to ptosis and ophthalmoplegia), and the facial and bulbar musculature (affecting sucking and swallowing, and leading to dysphonia). Per criteria outlined by the ClinGen Lumping and Splitting Working Group, we found difference in molecular mechanism and inheritance pattern. Therefore, the following disease entities have been split into multiple disease entities, Myasthenic syndrome, congenital, 2C, associated with acetylcholine receptor deficiency (OMIM:616314 ), and Myasthenic syndrome, congenital, 2A, slow-channel (OMIM:616313 ). Seven missense variants that have been reported in eleven probands in ten publications (PMIDs: 8872460, 32895905, 29054425, 36099689, 27375219, 16624571, 21822932, 20562457, 14991812, 8651643) are included in this curation. Variants in *CHRNB1* result in functional alterations at the neuromuscular junction, primarily through prolonged acetylcholine receptor (AChR) channel openings and increased calcium permeability, leading to cationic overload and synaptic degeneration (PMIDs: 8872460). Expression studies in HEK293 cells demonstrated prolonged channel open times and increased α-bungarotoxin binding for M2 domain variants (PMIDs: 8872460), while patient muscle biopsies revealed focal activation of caspase-3 and -9 at endplates, correlating with ultrastructural abnormalities such as vacuoles and degenerating mitochondria, without overt cell death (PMID: 14991812). The mechanism of pathogenicity appears to be gain of function. This gene-disease relationship is also supported by expression studies (PMIDs: 29874875, 10562302, 25613900, 8651643, 27375219, 8872460). The Human Protein Atlas (PMID: 25613900) shows *CHRNB1* expression enhanced in skeletal muscles. Biochemical functions show that the beta subunit is interactive with the other four, while protein interactions suggests that deletion variants in the beta subunit disrupt the delta subunit (PMID: 29874875, 10562302). In summary, there is moderate evidence supporting the relationship between *CHRNB1* and autosomal dominant Congenital Myasthenic Syndrome (CMS) 2A. This classification was approved by the ClinGen Congenital Myopathies GCEP on the meeting date October 27, 2025 (SOP Version 11).
Inheritance Pattern: AD
Disease ID:MONDO:0014581
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AR
Disease ID:MONDO:0014582
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AR
Disease ID:MONDO:0014582
Submitter: G2P
Inheritance Pattern: AD
Disease ID:MONDO:0014582
Submitter: G2P
Inheritance Pattern: AD
Disease ID:MONDO:0014581
Submitter: Genomics England PanelApp
Inheritance Pattern: AR
Disease ID:MONDO:0014582
Submitter: ClinGen
*CHRNB1* was first reported in relation to autosomal recessive Congenital Myasthenic Syndrome (CMS) 2C in 1999 (Quiram et al., PMID: 10562302). Congenital myasthenic syndrome associated with AChR deficiency is a disorder of the postsynaptic neuromuscular junction (NMJ) characterized clinically by early-onset muscle weakness with variable severity. CMS2C is differentiated by deficiency of AChR at the endplate resulting in low amplitude of the miniature endplate potential and current. Treatments with cholinesterase inhibitors or amifampridine may be helpful. The clinical features of CMS2C often include easy fatigability and muscle weakness affecting the axial and limb muscles (with hypotonia in early-onset forms), the ocular muscles (leading to ptosis and ophthalmoplegia), and the facial and bulbar musculature (affecting sucking and swallowing, and leading to dysphonia). The symptoms fluctuate and worsen with physical effort. Per criteria outlined by the ClinGen Lumping and Splitting Working Group, we found difference in molecular mechanism and inheritance pattern. Therefore, the following disease entities have been split into multiple disease entities, Myasthenic syndrome, congenital, 2C, associated with acetylcholine receptor deficiency (OMIM:616314 ), and Myasthenic syndrome, congenital, 2A, slow-channel (OMIM:616313 ). Twelve variants (missense, in-frame indel, nonsense, large deletion) that have been reported in seven probands in six publications (PMIDs: 32504635, 26633542, 33060286, 33296147, 10562302) and ClinVar (SCV004047718.1) are included in this curation. Common to many of the probands is an exon 8 skipping. This is either a compound heterozygous variation (typically inherited from mom) with another variant in *CHRNB1*, or in one case (PMID: 33060286) homozygous inheritance with both parents known carriers. Quiram et al, 1999 also showed functional evidence of the patient's intercostal muscle. When compared the number of iodine-125 labeled alpha-bungarotoxin, used to identify and quantify the number of nicotinic acetylcholine receptors (nAChRs) that bind α-Bgt, per end-plate was less than 3% of the normal adult value and less than 7% of the value obtained in a 3-year-old control (PMID: 10562302). The mechanism of pathogenicity appears to be loss of function. This gene-disease relationship is also supported by animal models, and expression studies (PMIDs: 10562302, 27364156, 17959719, 25613900, 29874875). The Human Protein Atlas (PMID: 25613900) shows *CHRNB1* expression enhanced in skeletal muscles. Mouse models show abnormal muscle development and movement when the beta subunit has variants present, consistent with CMS2C (PMID: 17959719). While cattle models show widespread contracture of joints, muscle weakness, and degradation of NMJ. Bovine familial arthrogryposis multiplex congenita (AMC) represents an inherited neuromuscular disorder corresponding to human CMS (PMID: 27364156). Biochemical functions show that the beta subunit is interactive with the other four, while protein interactions suggests that deletion variants in the beta subunit disrupt the delta subunit (PMID: 29874875, 10562302). In summary, there is definitive evidence supporting the relationship between *CHRNB1* and autosomal recessive Congenital Myasthenic Syndrome (CMS) 2C. This has been repeatedly demonstrated in both the research and clinical diagnostic settings, and has been upheld over time. This classification was approved by the ClinGen Congenital Myopathies GCEP on the meeting date July 28, 2025 (SOP Version 11).
Clinical Genomic Database (CGD)
Manifestation: Musculoskeletal; Neurologic
Intervention: Musculoskeletal; Neurologic; Pharmacogenomic
Rationale: Most individuals with CMS benefit from AChE inhibitors and/or potassium channel blocker 3,4-diaminopyridine (3,4-DAP), though caution must be used in giving 3,4-DAP to young children and individuals with fast-channel syndromes; For Slow-channel congenital myasthenic syndrome, effective treatment has been reported with therapies such as quinidine, fluoxetine, and ephedrine, while cholinesterase inhibitors and amifampridine should be avoided
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to CHRNB1 variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_000747.3. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 7 | 100 | 107 | |||
| missense | 3 | 2 | 262 | 16 | 1 | 284 |
| nonsense | 1 | 5 | 3 | 9 | ||
| start loss | 1 | 1 | ||||
| frameshift | 8 | 8 | 3 | 19 | ||
| splice donor/acceptor (+/-2bp) | 9 | 2 | 11 | |||
| Total | 12 | 25 | 277 | 116 | 1 | 431 |
Highest pathogenic variant AF is 0.00007682357
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_000738.2 | 11 | MANE Select | |
| Ensembl | ENSP00000304290.2 | 11 | MANE Select | |
| Ensembl | ENSP00000439209.2 | 9 | Standard | |
| Ensembl | ENSP00000439209.2 | 9 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Neuroactive ligand-receptor interaction - Homo sapiens (human)
- role of nicotinic acetylcholine receptors in the regulation of apoptosis
Biological Process
- postsynaptic membrane organization
- skeletal muscle contraction
- cation transport
- muscle contraction
- signal transduction
Molecular Function
- extracellular ligand-gated ion channel activity
- channel activity
- ligand-gated ion channel activity
- acetylcholine receptor activity
- acetylcholine-gated cation-selective channel activity
Cellular Component
- integral component of plasma membrane
- acetylcholine-gated channel complex
- cell junction
- neuromuscular junction
- neuron projection
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000306071
- Coding exons
- 11
- Length
- 12647
- Individuals with no LoFs
- 125697
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 51
- Defined
- 125748
- p
- 0.000203
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 0.438 | 266 | 287 | 0.927 | 0.0000177 | 3248 |
| Missense (PolyPhen) | 82 | 99.946 | 0.82045 | 1267 | ||
| Synonymous | -0.191 | 123 | 120 | 1.02 | 0.00000795 | 1044 |
| Loss of Function | 1.58 | 15 | 23.2 | 0.647 | 0.00000104 | 257 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.00025 | 0.00018 | rare |
| Latino/Admixed American | 0.00014 | 0.00014 | rare |
| Ashkenazi Jewish | 0 | 0.0 | absent |
| East Asian | 0.000054 | 0.000054 | rare |
| Finnish | 0.000046 | 0.000046 | rare |
| European (Non-Finnish) | 0.00027 | 0.00027 | rare |
| South Asian | 0.00023 | 0.00023 | rare |
| Other | 0.00049 | 0.00049 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane. {ECO:0000269|PubMed:27375219}.;
- Disease
- DISEASE: Myasthenic syndrome, congenital, 2A, slow-channel (CMS2A) [MIM:616313]: A form of congenital myasthenic syndrome, a group of disorders characterized by failure of neuromuscular transmission, including pre-synaptic, synaptic, and post-synaptic disorders that are not of autoimmune origin. Clinical features are easy fatigability and muscle weakness affecting the axial and limb muscles (with hypotonia in early-onset forms), the ocular muscles (leading to ptosis and ophthalmoplegia), and the facial and bulbar musculature (affecting sucking and swallowing, and leading to dysphonia). The symptoms fluctuate and worsen with physical effort. CMS2A is a slow-channel myasthenic syndrome. It is caused by kinetic abnormalities of the AChR, resulting in prolonged AChR channel opening episodes, prolonged endplate currents, and depolarization block. This is associated with calcium overload, which may contribute to subsequent degeneration of the endplate and postsynaptic membrane. {ECO:0000269|PubMed:27375219, ECO:0000269|PubMed:8651643, ECO:0000269|PubMed:8872460}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Myasthenic syndrome, congenital, 2C, associated with acetylcholine receptor deficiency (CMS2C) [MIM:616314]: A form of congenital myasthenic syndrome, a group of disorders characterized by failure of neuromuscular transmission, including pre-synaptic, synaptic, and post-synaptic disorders that are not of autoimmune origin. Clinical features are easy fatigability and muscle weakness affecting the axial and limb muscles (with hypotonia in early-onset forms), the ocular muscles (leading to ptosis and ophthalmoplegia), and the facial and bulbar musculature (affecting sucking and swallowing, and leading to dysphonia). The symptoms fluctuate and worsen with physical effort. CMS2C is an autosomal recessive disorder of postsynaptic neuromuscular transmission, due to deficiency of AChR at the endplate that results in low amplitude of the miniature endplate potential and current. CMS2C is clinically characterized by early-onset muscle weakness with variable severity. {ECO:0000269|PubMed:10562302}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
Recessive Scores
- pRec
- 0.146
Intolerance Scores
- LoFtool
- 0.392
- RVIS EVS
- -0.4
- RVIS percentile EVS
- 26.73
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- N
- Indispensability score
- 0.0599
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |