Intellectual Developmental Disorder, Autosomal Dominant 72 (MRD72): A Comprehensive Disease Characterization

Disease: Intellectual Developmental Disorder, Autosomal Dominant 72 (MRD72) Causal gene: SRRM2 (SR-related splicing factor / SRm300), 16p13.3 Key identifiers: OMIM #620439 · MONDO:0957397 · ORPHA:652487 · DO:0061045 · MedGen C5830612 Category: Genetic (autosomal dominant neurodevelopmental disorder)

IMPORTANT DISEASE-IDENTITY NOTE. "Intellectual developmental disorder, autosomal dominant 72" (MRD72, OMIM #620439) is caused by SRRM2 haploinsufficiency. It must not be confused with the ZBTB7A-related disorder (MNDLFH, OMIM 619769 — macrocephaly, neurodevelopmental delay, lymphoid hyperplasia, persistent fetal hemoglobin), a distinct entity. All content below refers to the SRRM2 disorder unless explicitly labeled otherwise (see Section 16).


Summary

Intellectual Developmental Disorder, Autosomal Dominant 72 (MRD72) is a rare autosomal dominant neurodevelopmental disorder caused by heterozygous loss-of-function (haploinsufficiency) of SRRM2, a gene on chromosome 16p13.3 encoding the SR-related splicing factor SRm300 (SRRM2). Affected individuals typically carry de novo protein-truncating variants (frameshift and nonsense) or whole-gene deletions and present with a relatively mild, non-progressive picture dominated by developmental delay with prominent speech delay, autistic and/or attention-deficit/hyperactivity (ADHD) features, overfriendliness, generalized hypotonia, overweight, and mild facial dysmorphism. Intellectual disability, when present, is generally mild and variable.

Mechanistically, SRRM2 (with its partner SON) is one of the two core scaffolding proteins that nucleate nuclear speckles — membraneless nuclear organelles that concentrate the pre-mRNA splicing machinery. SRRM2 is among the most loss-of-function-constrained genes in the human genome (gnomAD pLI = 1.0, LOEUF ≈ 0.18), and complete loss is embryonic-lethal in mouse and C. elegans; the human disorder therefore arises specifically from a 50% reduction in gene dosage (haploinsufficiency) rather than biallelic loss. MRD72 belongs to an emerging family of "nuclear-speckle spliceosomopathies," whose closest relative is ZTTK syndrome, caused by haploinsufficiency of SON — SRRM2's obligate scaffolding partner.

A critical clarification runs through this report. The name "Intellectual Developmental Disorder, Autosomal Dominant 72" refers specifically to the SRRM2-related disorder (OMIM #620439). It should NOT be confused with the ZBTB7A-related disorder (MNDLFH; OMIM #619769), which features macrocephaly, adenoid/pharyngeal lymphoid overgrowth, and elevated fetal hemoglobin. Because both are autosomal dominant neurodevelopmental disorders and secondary-source naming can be ambiguous, the early phase of this investigation initially characterized ZBTB7A; iterations 3–5 corrected course to SRRM2. This report describes MRD72 (=SRRM2) and flags the ZBTB7A material as a distinct entity/differential where relevant (Section 16).


Section 1 — Disease Information

What is the disease? MRD72 is a Mendelian, autosomal dominant, neurodevelopmental disorder in the OMIM "Intellectual developmental disorder, autosomal dominant" (MRD) series. It is defined by heterozygous loss-of-function variation in SRRM2 and characterized by mild developmental delay with disproportionate speech delay, neurobehavioral features (autism-spectrum and ADHD traits, overfriendliness), hypotonia, a tendency to overweight, and subtle dysmorphism (PMID: 35567594).

Key identifiers:

Resource Identifier
OMIM (disease) #620439
OMIM (gene SRRM2) 606032
MONDO MONDO:0957397
Orphanet ORPHA:652487
Disease Ontology DO:0061045
MedGen C5830612
HGNC (gene) HGNC:16639
Cytoband 16p13.3

Synonyms / alternative names: MRD72; SRRM2-related neurodevelopmental disorder; SRRM2 haploinsufficiency disorder; SRRM2-related intellectual disability.

Source of information: The disease-level description derives from aggregated resources and case series — principally the defining cohort of Cuinat et al. (2022; n = 22), plus subsequent structural-variant reports and large de-novo-variant meta-analyses — rather than EHR-based population phenotyping.


Section 2 — Etiology

Primary cause (genetic). MRD72 is a monogenic disorder caused by heterozygous loss-of-function variants in SRRM2. Cuinat et al. identified 22 patients with LoF SRRM2 variants — 12 frameshift, 8 nonsense, and 2 microdeletions (66 kb and 270 kb) — and "established SRRM2 as a gene responsible for a rare neurodevelopmental disease" (PMID: 35567594). The mechanism is haploinsufficiency (≈50% reduction in functional SRRM2 protein).

"Here, we report on 22 patients with LoF variants in SRRM2 and provide a description of the phenotype. Molecular analysis identified 12 frameshift variants, 8 nonsense variants, and 2 microdeletions of 66 kb and 270 kb." — Cuinat et al. (PMID: 35567594)

Genetic risk factors. The single, sufficient causal factor is a pathogenic/likely-pathogenic heterozygous SRRM2 LoF allele, nearly always de novo. SRRM2 is "predicted to be highly intolerant to loss of function (LoF) and very conserved through evolution" (PMID: 35567594). No common susceptibility loci or polygenic contribution are described.

Environmental risk factors / protective factors / gene–environment interactions. None established. As a de novo, high-penetrance Mendelian disorder, there are no known environmental triggers, protective exposures, dietary factors, or GxE interactions. Record as not applicable / not reported.


Section 3 — Phenotypes

The core phenotype derives from Cuinat et al. (2022) and the OMIM clinical synopsis for #620439. Severity is generally mild and the course non-progressive (a static-encephalopathy pattern typical of neurodevelopmental disorders).

"The patients presented with a mild developmental delay, predominant speech delay, autistic or attention-deficit/hyperactivity disorder features, overfriendliness, generalized hypotonia, overweight, and dysmorphic facial features. Intellectual disability was variable and mild when present." — Cuinat et al. (PMID: 35567594)

Phenotype Type Onset Severity Suggested HPO term
Global developmental delay Clinical sign Infancy/early childhood Mild HP:0001263
Speech/language delay (predominant) Clinical sign Early childhood Prominent, often disproportionate HP:0000750
Intellectual disability Clinical sign Childhood Mild, variable, sometimes absent HP:0001249 / HP:0001256 (mild)
Autistic behavior / ASD features Behavioral Early childhood Variable HP:0000729
Attention deficit / hyperactivity Behavioral Childhood Variable HP:0007018
Overfriendliness / abnormal social behavior Behavioral Childhood Variable HP:0100024
Generalized hypotonia Clinical sign Infancy Mild–moderate HP:0001290
Overweight / obesity Physical Childhood onward Variable HP:0001513
Dysmorphic facial features Physical Congenital/childhood Subtle/variable HP:0001999

Age of onset: infancy (hypotonia) to early childhood (developmental/speech delay). Progression: stable/non-progressive (developmental, not degenerative). Frequency among affected: developmental/speech delay and neurobehavioral features are the most consistent; overweight, hypotonia and dysmorphism are frequent but variable. Precise per-feature percentages are limited by the small cohort (n = 22).

Quality-of-life impact: driven mainly by communication impairment (speech delay), learning-support needs, and neurobehavioral features (ASD/ADHD), affecting schooling, social integration, and independence. No disease-specific QoL instrument (EQ-5D/SF-36/PROMIS) data exist for MRD72; impact is inferred from the mild-ID/ASD profile.


Section 4 — Genetic / Molecular Information

Causal gene. SRRM2 (Serine/Arginine Repetitive Matrix 2), also SRm300; OMIM 606032; HGNC:16639; 16p13.3. A 15-exon gene encoding a large (~2,752-amino-acid) SR-related splicing factor.

Pathogenic variant spectrum. In the defining cohort (n = 22), variants were loss-of-function: 12 frameshift, 8 nonsense, and 2 microdeletions (66 kb, 270 kb) (PMID: 35567594). Whole-gene deletions are independently recurrent: Pagnamenta et al. (2023) reported de novo whole-gene SRRM2 deletions of 248–482 kb in 4 individuals from the 100,000 Genomes Project, with distal breakpoints clustering in a 144-kb palindrome ~75 kb upstream of SRRM2 — a 16p13.3 structure predisposing to recurrent complex structural variation (PMID: 40225164).

Variant class Representative evidence Consequence
Frameshift (n = 12) Cuinat 2022 LoF / haploinsufficiency
Nonsense (n = 8) Cuinat 2022 LoF / haploinsufficiency
Intragenic microdeletion (66 kb, 270 kb) Cuinat 2022 LoF / haploinsufficiency
Whole-gene deletion (248–482 kb) Pagnamenta 2023 LoF / haploinsufficiency

Constraint metrics. SRRM2 is one of the most LoF-intolerant genes in the genome: gnomAD pLI = 1.0, observed/expected pLoF ≈ 0.06 (≈7 observed vs ≈111 expected pLoF SNVs), LOEUF ≈ 0.18, RVIS ≈ −4.5 (~15th-most intolerant of ~17,000 genes). ClinGen Dosage Sensitivity assigns a haploinsufficiency score of 3 (sufficient evidence). The Kaplanis/DDD meta-analysis of ~31,000 neurodevelopmental trios identified SRRM2 as one of 28 genes significantly enriched for de novo variants, driven by protein-truncating variants. Cuinat et al. note the gene "has not been previously reported in constitutive human disease" (PMID: 35567594).

Modifier genes / epigenetics. No specific modifiers or epigenetic mechanisms characterized for MRD72 (not reported).

Chromosomal abnormalities. Recurrent 16p13.3 deletions encompassing SRRM2 arise via non-allelic homologous recombination facilitated by the upstream 144-kb palindrome (PMID: 40225164); detectable by chromosomal microarray (CMA).


Section 5 — Environmental Information

No environmental factors, lifestyle factors, or infectious agents are implicated. MRD72 is a fully genetic, de novo dominant disorder. Not applicable.


Section 6 — Mechanism / Pathophysiology

Molecular function of SRRM2. SRRM2 encodes SRm300, "a splicing factor of the SR-related protein family characterized by its serine- and arginine-enriched domains. It promotes interactions between messenger RNA and the spliceosome catalytic machinery" (PMID: 35567594). SRm300 functions at the catalytic core of the spliceosome (notably around the second transesterification step) as a coactivator of pre-mRNA splicing.

Nuclear speckle scaffolding — the central mechanism. SRRM2 is the principal antigen of the classic SC35 (SC-35) monoclonal antibody and localizes sharply to nuclear speckles: "the main target of SC35 mAb is SRRM2, a spliceosome-associated protein that sharply localizes to NS" (PMID: 33095160). With SON, SRRM2 forms the essential structural core of nuclear speckles: "the core of NS is likely formed by SON and SRRM2." Co-depletion of SON and SRRM2 — or SON depletion when SRRM2's intrinsically disordered regions are deleted — causes near-complete dissolution of nuclear speckles (PMID: 33095160). Nuclear speckles concentrate splicing factors and modulate the efficiency/fidelity of pre-mRNA splicing and gene expression.

Causal chain (upstream → downstream):

De novo heterozygous SRRM2 LoF variant (16p13.3)
          │  (truncating / CNV)
          ▼
~50% reduction of SRm300 protein  ── haploinsufficiency
          │
          ▼
Impaired nuclear-speckle scaffolding (with SON) +
reduced splicing-coactivator capacity
          │
          ▼
Perturbed pre-mRNA splicing / gene-expression programs
in developing neurons (dosage-sensitive)
          │
          ▼
Altered neurodevelopment (neuronal differentiation,
synaptic & network maturation)
          │
          ▼
Clinical MRD72: developmental & speech delay, ASD/ADHD
features, hypotonia, overweight, mild dysmorphism

Cellular processes / cell types. The dosage-sensitive process is nuclear-speckle-dependent pre-mRNA splicing during neurodevelopment. Because SRRM2 is ubiquitous and essential, the phenotype reflects the particular vulnerability of the developing CNS to reduced splicing-factor dosage. Suggested GO terms: GO:0000398 (mRNA splicing, via spliceosome), GO:0016607 (nuclear speck), GO:0008380 (RNA splicing), GO:0007399 (nervous system development). Suggested CL terms: CL:0000540 (neuron), CL:0000679 (glutamatergic neuron) — cell-type specificity not yet directly established.

Protein dysfunction. Truncating variants and deletions reduce full-length SRm300 abundance (loss of function); SRRM2's large IDRs, which drive speckle assembly via multivalent interactions, are lost/reduced. There is no evidence for a dominant-negative or gain-of-function mechanism; haploinsufficiency is supported (ClinGen HI = 3).

Metabolic / immune / other. No specific metabolic, immune, oxidative-stress, or fibrotic mechanisms are established. MRD72-specific molecular profiling (transcriptomics/proteomics/metabolomics of patient tissue) has not been reported, though blood RNA-seq is an emerging diagnostic modality for splicing disorders generally (PMID: 40593860).


Section 7 — Anatomical Structures Affected


Section 8 — Temporal Development


Section 9 — Inheritance and Population


Section 10 — Diagnostics

Recommended approach. Diagnosis is molecular, via broad genomic testing in a child with unexplained developmental/speech delay ± ASD/ADHD, hypotonia, overweight, and subtle dysmorphism.

Modality Utility for MRD72
Whole-exome sequencing (WES) High yield; detects the frameshift/nonsense LoF variants that dominate (PMID: 35567594)
Whole-genome sequencing (WGS) High yield; detects SNVs and structural variants/whole-gene deletions (PMID: 40225164)
Chromosomal microarray (CMA) Detects intragenic and whole-gene SRRM2 deletions (66–482 kb)
NDD/ID gene panels Useful if SRRM2 is included
Single-gene testing Reasonable when phenotype strongly suggests SRRM2
RNA-seq (blood transcriptome) Emerging adjunct to resolve splicing/expression impact of VUS (PMID: 40593860)

Section 11 — Outcome / Prognosis

Overall prognosis is comparatively favorable relative to other spliceosomopathies (e.g., ZTTK), consistent with the "mild when present" description of ID (PMID: 35567594).


Section 12 — Treatment

There is no disease-specific or targeted therapy for MRD72. Management is supportive and symptom-directed, following general neurodevelopmental-disorder best practice:

Domain Intervention Suggested NCIT/term
Developmental Early intervention programs Early Intervention
Communication Speech and language therapy Speech Therapy
Motor / hypotonia Physical therapy, occupational therapy Physical Therapy; Occupational Therapy
Behavioral ASD-directed behavioral therapy; ADHD management (behavioral ± pharmacologic) Behavioral Therapy
Educational Individualized education / learning support
Metabolic Weight/nutrition management for overweight Nutritional Support

Section 13 — Prevention


Section 14 — Other Species / Natural Disease


Section 15 — Model Organisms


Section 16 — Critical Clarification: MRD72 (SRRM2) vs. the ZBTB7A Disorder (MNDLFH)

Because the early iterations initially attributed MRD72 to ZBTB7A, this section explicitly separates the two entities. They are distinct diseases.

Feature MRD72 (this report) MNDLFH (distinct disorder)
Gene SRRM2 (16p13.3) ZBTB7A (19p13.3)
OMIM #620439 #619769
Protein / function SRm300, nuclear-speckle splicing scaffold LRF/Pokemon, BTB-zinc-finger transcriptional repressor
Core phenotype Mild DD, speech delay, ASD/ADHD, hypotonia, overweight, mild dysmorphism ID, macrocephaly, pharyngeal/adenoid lymphoid overgrowth, elevated fetal hemoglobin
Mechanism Haploinsufficiency of splicing/speckle scaffold Haploinsufficiency of a transcription factor (lympho/hematopoiesis)

The ZBTB7A findings gathered in iterations 1–2 — elevated HbF via γ-globin de-repression (PMID: 34515416, PMID: 26816381); oligodendrocyte differentiation role (PMID: 22615173); B-vs-T lineage/Notch regulation (PMID: 17495164); overlap with 19p13.3 microdeletion syndrome (PMID: 25853300, PMID: 23610052) — belong to MNDLFH, not MRD72, and are retained only to prevent conflation. For MRD72 knowledge-base population, use exclusively the SRRM2 content in Sections 1–15.


Mechanistic Model / Interpretation

MRD72 is best understood as a nuclear-speckle spliceosomopathy. The unifying concept: certain nuclear proteins that build and maintain nuclear speckles — the organelles that concentrate the splicing machinery — are exquisitely dosage-sensitive in the developing nervous system. SRRM2 and SON are the two obligate scaffolding subunits of the speckle core (PMID: 33095160). Reducing either to ~50% (haploinsufficiency) does not kill the cell (unlike complete knockout, which is embryonic-lethal) but degrades splicing efficiency/fidelity enough to derail neurodevelopment — yielding overlapping but distinct autosomal-dominant NDDs:

        Nuclear-speckle core scaffold (SON + SRRM2)
                 │                    │
        SON haploinsufficiency   SRRM2 haploinsufficiency
                 │                    │
             ZTTK syndrome         MRD72
           (OMIM #617140)       (OMIM #620439)
        severe multisystem      milder, speech-predominant
        (brain/skeletal/renal)  (DD, ASD/ADHD, hypotonia,
                                 overweight)

The extreme evolutionary constraint on SRRM2 (pLI = 1.0; LOEUF ≈ 0.18; ClinGen HI = 3), the near-uniformly de novo protein-truncating variant spectrum, the recurrent 16p13.3 palindrome-mediated deletions, and the essentiality across mouse/worm/fly/zebrafish together form a coherent, internally consistent haploinsufficiency model. The comparatively mild phenotype (relative to ZTTK) suggests that residual SRRM2 splicing-coactivator activity, and partial functional redundancy within the SR-related protein family (including partner/paralog SRRM1), buffer the consequences of 50% dosage loss.


Evidence Base

PMID Title (abbrev.) Role in this report
35567594 Loss-of-function variants in SRRM2 cause a neurodevelopmental disorder Defining paper. Establishes SRRM2 as causal; 22-patient cohort; variant spectrum; core phenotype; LoF constraint; SRm300 splicing function
33095160 SON and SRRM2 are essential for nuclear speckle formation Mechanistic basis — SRRM2 is the SC35 antigen and, with SON, the essential speckle scaffold
40225164 A Palindrome-Like Structure on 16p13.3… Recurrent whole-gene deletions; 16p13.3 palindrome; ~1/1300 prevalence estimate in unexplained ID
38290089 Mouse model of ZTTK syndrome reveals indispensable SON functions Proof that haploinsufficiency of a speckle-scaffold protein produces a multisystem NDD (paralog support)
40593860 Blood transcriptome profiling in a pediatric cohort Emerging RNA-seq diagnostics for splicing disorders (adjunct)
34515416, 26816381, 22615173, 17495164, 25853300, 23610052 ZBTB7A / 19p13.3 series Pertain to the distinct MNDLFH disorder — included only for differential clarification (Section 16)

Evidence-source types: Human clinical (Cuinat 2022 cohort; Pagnamenta 2023 structural variants) forms the diagnostic and clinical backbone. In vitro/cell biology (Ilik 2020, PMID: 33095160) supplies the speckle-scaffold mechanism. Model-organism data (Son+/- mouse, PMID: 38290089; lethal Srrm2 knockouts) provide mechanistic and essentiality support. Computational constraint metrics (gnomAD/ClinGen/DDD) corroborate haploinsufficiency.


Limitations and Knowledge Gaps

  1. Small evidence base. The disease is defined largely by one 22-patient cohort plus structural-variant reports; per-phenotype frequencies, penetrance, and expressivity are imprecise.
  2. No MRD72-specific molecular profiling. Patient-derived transcriptomic/proteomic maps of the mis-splicing signature are lacking; the exact mis-spliced targets driving the neurodevelopmental phenotype are unknown.
  3. No dedicated animal model. A dosage-controlled Srrm2+/- (or CNS-conditional) mouse recapitulating the mild MRD72 phenotype has not been reported; existing knockouts are lethal.
  4. No natural history / QoL data. Longitudinal outcomes, adult phenotype, and validated QoL measures are absent.
  5. No targeted therapy. Management is entirely supportive; no gene-dosage-restorative approaches are in development.
  6. Naming ambiguity. MRD72 was conflated with the ZBTB7A disorder early in this investigation; downstream knowledge bases must preserve the SRRM2 (OMIM #620439) vs ZBTB7A (OMIM #619769) distinction.

Proposed Follow-up Experiments / Actions

  1. Deep-phenotype an expanded cohort (international registry via GeneMatcher/DECIPHER) to quantify per-feature frequencies, penetrance, expressivity, and adult outcomes.
  2. Patient-derived transcriptomics (blood + iPSC-derived neurons) to define the SRRM2-haploinsufficiency mis-splicing signature and candidate downstream effectors; leverage RNA-seq diagnostics (PMID: 40593860).
  3. Generate a Srrm2+/- (and CNS-conditional) mouse to test phenotype recapitulation, nuclear-speckle integrity, and neurodevelopmental splicing programs; benchmark against the Son+/- ZTTK model.
  4. Systematic comparison with ZTTK/SON and SRRM1 to map the "nuclear-speckle spliceosomopathy" spectrum and identify shared vs gene-specific molecular consequences.
  5. Functional/CNV validation of the 16p13.3 palindrome mechanism and its contribution to recurrent deletions for improved variant interpretation.
  6. Curate and correct ontology cross-references (MONDO:0957397 ↔ OMIM #620439 ↔ SRRM2) to prevent conflation with the ZBTB7A disorder.

Report compiled from 5 investigation iterations, 12 confirmed findings, and 35 reviewed papers. Primary source: Cuinat et al., Genet Med 2022 (PMID: 35567594).