Test Catalog

Test ID: MECPZ    
MECP2 Gene, Full Gene Analysis, Varies

Useful For Suggests clinical disorders or settings where the test may be helpful

Diagnosis of Rett syndrome or other MECP2-related disorders

Testing Algorithm Delineates situations when tests are added to the initial order. This includes reflex and additional tests.

Clinical Information Discusses physiology, pathophysiology, and general clinical aspects, as they relate to a laboratory test

Methyl-CpG-binding protein 2 (MeCP2) is a transcriptional repressor protein encoded by the MECP2 gene located on the X chromosome. Genetic mutations in MECP2 alter the expression of targeted genes and can be associated with variable phenotypes in females including classic Rett syndrome, variant or atypical Rett syndrome, mild mental retardation, and asymptomatic carriers. Males with MECP2 mutations can present with variable phenotypes as well. The variability in males can, in part, be attributed to the type of MECP2 mutation present; point mutations are typically associated with severe neonatal encephalopathy and gene duplications are associated with MECP2 duplication syndrome. Full MECP2 gene analysis via sequencing and large duplication/deletion studies has been useful in identifying germline mutations in individuals with these clinical presentations.


Rett Syndrome:

Rett syndrome is an X-linked, panethnic condition with an incidence of approximately 1 in 8,500 to 1 in 15,000 females. Disease course typically begins after 6 to 18 months of apparently normal development with rapid regression in language and motor skills. A hallmark feature of this condition is repetitive, stereotyped hand movements, sometimes described as hand-wringing. Clinical criteria have been established for diagnosis of classic and atypical or variant Rett syndrome. Greater than 88% of females with a clinical diagnosis of classic Rett syndrome demonstrate a mutation by this test. The detection rate is approximately 43% for females with a clinical diagnosis of atypical or variant Rett syndrome. For individuals in whom there is clinical suspicion for Rett syndrome, but clinical criteria are not met, the detection rate is lower given the phenotypic overlap with other conditions (eg, Angelman syndrome).


Nonrandom X chromosome inactivation, resulting in phenotypic variability within families, has been reported in females with MECP2 mutations. Although 99.5% of mutations associated with Rett syndrome are de novo, asymptomatic or very mildly affected carrier mothers of classically affected daughters have been reported. Genetic counseling should be provided with this, and the possibility of germline or somatic mosaicism, in mind.


MECP2 Duplication Syndrome:

Although MECP2 mutations are reported in males, these males typically do not present with classic Rett syndrome unless an abnormal karyotype (ie, 47,XXY) or somatic mosaicism is also present. More commonly, MECP2 mutations have been reported in karyotypically normal males presenting with neonatal encephalopathy and mental retardation syndromes. MECP2 duplication syndrome is an increasingly reported severe mental retardation syndrome characterized by infantile hypotonia, absence of speech, and progressive spasticity. Seizures and recurrent respiratory infections are commonly reported as well. These MECP2 gene duplications vary in size from 0.3 to 2.3 Mb. Although chromosome analysis can identify some larger duplications, other methods such as multiplex ligation-dependent probe amplification (MLPA) can identify essentially all MECP2 gene duplications. Males with nongene-duplication type mutations can present with other mental retardation syndromes (ie, Angelman-like syndrome) or neonatal encephalopathy and early death.


To date, all males found to have an MECP2 duplication are clinically affected and have inherited the duplication from their asymptomatic mothers. Therefore, mothers of sons with MECP2 duplication syndrome are thought to be obligate carriers whose male offspring have a 50% risk of being affected.

Reference Values Describes reference intervals and additional information for interpretation of test results. May include intervals based on age and sex when appropriate. Intervals are Mayo-derived, unless otherwise designated. If an interpretive report is provided, the reference value field will state this.

An interpretive report will be provided.

Interpretation Provides information to assist in interpretation of the test results

All detected alterations are evaluated according to American College of Medical Genetics recommendations.(1) Variants are classified based on known, predicted, or possible pathogenicity and reported with interpretive comments detailing their potential or known significance.

Cautions Discusses conditions that may cause diagnostic confusion, including improper specimen collection and handling, inappropriate test selection, and interfering substances

A small percentage of individuals who are carriers or have a diagnosis of a MECP2-related disorder may have a mutation that is not identified by this method (eg, promoter mutations, deep intronic alterations). The absence of a mutation, therefore, does not eliminate the possibility of positive carrier status or the diagnosis of a MECP2-related disorder. For carrier testing, it is important to first document the presence of a MECP2 gene mutation in an affected family member.


In some cases, DNA alterations of undetermined significance may be identified.


Rare polymorphisms exist that could lead to false-negative or false-positive results. If results obtained do not match the clinical findings, additional testing should be considered.


Test results should be interpreted in the context of clinical findings, family history, and other laboratory data. Errors in our interpretation of results may occur if information given to us is inaccurate or incomplete.


In addition to disease-related probes, the multiplex ligation-dependent probe technique utilizes probes localized to other chromosomal regions as internal controls. In certain circumstances, these control probes may detect other diseases or conditions for which this test was not specifically intended. Results of the control probes are not normally reported. However, in cases where clinically relevant information is identified, the ordering physician will be informed of the result and provided with recommendations for any appropriate follow-up testing.


Phenotypic overlap exists between MECP2-related conditions and several conditions not associated with MECP2 mutations. This assay will not detect alterations in other genes or chromosomal rearrangements that could result in a similar phenotype.

Clinical Reference Recommendations for in-depth reading of a clinical nature

1. Richards S, Aziz N, Bale S, et al: Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology. Genet Med 2015 May;17(5):405-424

2. Moretti P, Zoghbi HY: MeCP2 dysfunction in Rett syndrome and related disorders. Curr Opin Genet Dev 2006;6(3):276-281.

3. Shahbazian MD, Zoghbi HY: Molecular genetics of Rett syndrome and clinical spectrum of MECP2 mutations. Curr Opin Genet Dev 2001;14:171-176.

4. Van Esch H, Bauters M, Ignatius J, et al: Duplication of the MECP2 region is a frequent cause of severe mental retardation and progressive neurological symptoms in males. Am J Hum Genet 2005;77:442-453.

5. Hagberg B, Hanefeld F, Percy A, Skjedal O: An update on clinically applicable diagnostic criteria in Rett syndrome. Comments to Rett Syndrome Clinical Criteria Consensus Panel Satellite to European Paediatric Neurology Society Meeting, Baden Baden, Germany, 11 September 2001 Eur J Paediatr Neurol 2002:6:293-297

6. Laurvick CL, de Klerk N, Bower C, et al: Rett syndrome in Australia: a review of the epidemiology. J Pediatr 2006:148:347-352

Special Instructions Library of PDFs including pertinent information and forms related to the test