JAG2

protein-coding

jagged canonical Notch ligand 2, the group of MicroRNA protein coding host genes

Gene summary

The Notch signaling pathway is an intercellular signaling mechanism that is essential for proper embryonic development. Members of the Notch gene family encode transmembrane receptors that are critical for various cell fate decisions. The protein encoded by this gene is one of several ligands that activate Notch and related receptors. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

MANE transcript

NM_002226.5

Inheritance

AR

ClinVar variants

P:8U:264B:79

Top phenotype

Muscular dystrophy, limb-girdle, autosomal recessive 27

gnomAD constraint

pLI —, LoF o/e 0.06

Max pathogenic AF

—

Genomic locus

chr14:105,140,982-105,168,824

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~27.8 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

muscular dystrophy, limb-girdle, autosomal recessive 27STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0030456

Submitter: G2P

muscular dystrophy, limb-girdle, autosomal recessive 27STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0030456

Submitter: Labcorp Genetics (formerly Invitae)

autosomal recessive limb-girdle muscular dystrophyMODERATE

Inheritance Pattern: AR

Disease ID:MONDO:0015152

Submitter: ClinGen

JAG2 encodes jagged canonical Notch ligand 2, one of several ligands that activate Notch and related receptors. JAG2 was first reported in relation to autosomal recessive limb girdle muscular dystrophy in 2021 (Coppens et al., PMID: 33861953). Among the 27 patients from 16 families described to date, symptom onset ranges from infancy to adolescence/young adulthood. Muscle weakness is typically progressive with lower extremity and proximal dominance; loss of ambulation occurs in a subset of individuals. Reduced or absent deep tendon reflexes are common, and serum CK is normal or mildly elevated. Muscle biopsy findings are primarily dystrophic but may also include myopathic features. Additional features observed in some patients include scoliosis, joint contractures, ptosis and mild facial weakness, muscle atrophy or hypertrophy, cardiac features, asymptomatic moderate respiratory muscle weakness, intellectual disability or global developmental delay, speech delay, and autism spectrum disorder. Eighteen variants (13 missense, 1 in-frame indel, 1 nonsense, 2 frameshift, and 1 large deletion) reported in 16 probands in three publications (PMID: 33861953, 34878394, 39121631) are included in this curation. Co-segregation of JAG2 variants in affected family members was observed in multiple families, including three with at least three affected individuals. The mechanism of pathogenicity appears to be loss of function. However, additional investigation is needed as the effects of missense variants on gene function have not yet been determined, and many missense variants were identified in a homozygous state, often in consanguineous families. This gene-disease relationship is also supported by experimental evidence, including altered Notch pathway gene expression in patient muscle tissue and murine myoblasts following shRNA-mediated JAG2 knockdown as well as age-related locomotor decline in Drosophila following RNAi-mediated downregulation of Serrate (JAG2 ortholog)-dependent Notch signaling in adult muscle progenitors (PMID: 33861953, 39121631). In summary, there is moderate evidence supporting the relationship between JAG2 and autosomal recessive limb girdle muscular dystrophy. While more evidence is needed to establish this relationship definitively, no convincing contradictory evidence has emerged. This classification was approved by the ClinGen Muscular Dystrophies and Myopathies GCEP on August 13, 2024 (SOP Version 10).

muscular dystrophy, limb-girdle, autosomal recessive 27STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0030456

Submitter: PanelApp Australia

Clinical Genomic Database (CGD)

Muscular dystrophy, limb-girdle, autosomal recessive 27AR

Manifestation: Cardiovascular; Musculoskeletal

Intervention: Cardiovascular

Rationale: The condition can include cardiomyopathy and arrhythmia, and awareness may allow early diagnosis and management

Refs: 33861953Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to JAG2 variants in ClinVar

6 Conditions Cataloged
not specifiedTotal: 251
not providedTotal: 72
JAG2-related disorderTotal: 59
Muscular dystrophy, limb-girdle, autosomal recessive 27Total: 27
Mendelian syndromes with cleft lip/palateTotal: 1
Orofacial cleft 1Total: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_002226.5. 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.

EffectPLPVUSLBBSum
synonymous
2
clinvar
47
clinvar
13
clinvar
62
missense
5
clinvar
257
clinvar
16
clinvar
3
clinvar
281
nonsense
2
clinvar
2
start loss
0
frameshift
1
clinvar
3
clinvar
4
splice donor/acceptor (+/-2bp)
2
clinvar
2
Total172646316351

Highest pathogenic variant AF is 0.00017246042

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 38 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_002226.5RefSeqNP_002217.326MANE Select
ENST00000331782.8EnsemblENSP00000328169.326MANE Select
NM_145159.3RefSeqNP_660142.125Standard
ENST00000347004.2EnsemblENSP00000328566.225Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
jag2bDanio rerio

Structure: pronephric tubule

Quality: has extra parts of type

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Breast cancer - Homo sapiens (human)
  • Th1 and Th2 cell differentiation - Homo sapiens (human)
  • Pathways in cancer - Homo sapiens (human)
  • Notch signaling pathway - Homo sapiens (human)
  • NOTCH-Core

Biological Process

  • skeletal system development
  • in utero embryonic development
  • respiratory system process
  • Notch signaling pathway
  • spermatogenesis

Molecular Function

  • Notch binding
  • calcium ion binding
  • protein binding
  • growth factor activity

Cellular Component

  • plasma membrane
  • integral component of plasma membrane

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000331782
Coding exons
26
Length
27844
Individuals with no LoFs
125282
Homozygous LoFs
0
Heterozygous LoFs
9
Defined
125291
p
0.0000359
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.206268010.7820.00005898019
Missense (PolyPhen)207354.690.58363584
Synonymous-2.344133571.160.00003122372
Loss of Function6.95463.90.06260.00000328685

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000210.00019rare
Latino/Admixed American0.0000290.000029rare
Ashkenazi Jewish00.0absent
East Asian00.0absent
Finnish00.0absent
European (Non-Finnish)0.0000480.000044rare
South Asian00.0absent
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Putative Notch ligand involved in the mediation of Notch signaling. Involved in limb development (By similarity). {ECO:0000250}.;

Recessive Scores

pRec
0.354

Intolerance Scores

LoFtool
0.00958
RVIS EVS
-1.3
RVIS percentile EVS
4.99

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.921

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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