GJA1

Chr 6ARAD

gap junction protein alpha 1

The encoded protein forms connexin 43, the major gap junction protein that creates intercellular channels allowing diffusion of small molecules between cells, particularly important for synchronized cardiac contraction and embryonic development. Mutations cause oculodentodigital dysplasia, craniometaphyseal dysplasia, erythrokeratodermia variabilis et progressiva, and syndactyly through both autosomal dominant and autosomal recessive inheritance patterns. Disease can result from multiple mechanisms including gain-of-function effects from specific mutations that disrupt normal gap junction function.

OMIMResearchSummary from RefSeq, OMIM, UniProt, Mechanism
MultiplemechanismAR/ADLOEUF 0.626 OMIM phenotypes
Clinical SummaryGJA1
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Gene-Disease Validity (ClinGen)
congenital heart disease · UDLimited

Limited evidence — not for standalone diagnostic reporting

2 total gene-disease associations curated

Population Constraint (gnomAD)
Constrained for loss-of-function variants (OE-LoF 0.27) despite low pLI — interpret in context.
Some data sources returned errors (1)

ncbi: Error: NCBI fetch failed: 429 https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
0.62LOEUF
pLI 0.155
Z-score 2.58
OE 0.27 (0.130.62)
Tolerant

Typical tolerance to LoF variation

Missense Constraint
1.28Z-score
OE missense 0.75 (0.650.85)
150 obs / 201.0 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.27 (0.130.62)
00.351.4
Missense OE0.75 (0.650.85)
00.61.4
Synonymous OE1.38
01.21.6
LoF obs/exp: 4 / 14.7Missense obs/exp: 150 / 201.0Syn Z: -2.65
Curated Mechanism (G2P)Gene2Phenotype (DDG2P) ↗
definitiveGJA1-related oculodentodigital dysplasia (biallelic)LOFAR
moderateGJA1-related erythrokeratodermia variabilis et progressivaOTHERAD
limitedGJA1-related palmoplantar keratoderma with congenital alopeciaOTHERAD
definitiveGJA1-related oculodentodigital dysplasia (monoallelic)DNAD
DN
0.77top 25%
GOF
0.82top 10%
LOF
0.3259th %ile

This gene has evidence for multiple mechanisms of pathogenicity (gain-of-function and dominant-negative). Both the Badonyi & Marsh prediction and the broader genomic evidence point to gain-of-function as the predominant mechanism. Different variants in this gene may act through different mechanisms — interpret in context of the specific variant.

GOFprediction above median · 1 literature citation
DNprediction above median · 1 literature citation

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Literature Evidence

DNThe substitution of histidine with proline is predicted to dramatically alter the correct folding of the protein, preventing the formation of the entire connexon in a dominant negative manner.PMID:15637728
GOFPatch-clamp studies in transfected HEK293 cells demonstrated a gain-of-function effect with G8V hemichannels.PMID:25168385

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

GJA1 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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