Mecp2 methyl CpG binding protein 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29386, updated on 25-Apr-2024

Summary

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Official Symbol: Mecp2provided by RGD
Official Full Name: methyl CpG binding protein 2provided by RGD
Primary source: RGD:3075
See related: Ensembl:ENSRNOG00000056659 AllianceGenome:RGD:3075
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: MECP2_e1
Summary: Enables several functions, including DNA binding activity; histone deacetylase binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including nervous system development; positive regulation of dense core granule transport; and regulation of dendrite extension. Located in chromatin; cytosol; and nucleus. Part of protein-containing complex. Is active in glutamatergic synapse. Used to study Rett syndrome. Biomarker of hepatocellular carcinoma; transient cerebral ischemia; and visual epilepsy. Human ortholog(s) of this gene implicated in Rett syndrome; X-linked intellectual disability-psychosis-macroorchidism syndrome; autistic disorder; severe congenital encephalopathy due to MECP2 mutation; and syndromic X-linked intellectual disability Lubs type. Orthologous to human MECP2 (methyl-CpG binding protein 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 91.9), Lung (RPKM 87.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

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See Mecp2 in Genome Data Viewer

Location:: Xq37

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (156932481..156995981, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (151781177..151844687, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (156650389..156713813)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

MiR-488-3p facilitates wound healing through CYP1B1-mediated Wnt/beta-catenin signaling pathway by targeting MeCP2.
Title: MiR-488-3p facilitates wound healing through CYP1B1-mediated Wnt/β-catenin signaling pathway by targeting MeCP2.
Aberrant brain functional and structural developments in MECP2 duplication rats.
Title: Aberrant brain functional and structural developments in MECP2 duplication rats.
Autistic-like social deficits in hippocampal MeCP2 knockdown rat models are rescued by ketamine.
Title: Autistic-like social deficits in hippocampal MeCP2 knockdown rat models are rescued by ketamine.
Inhibition of miR-205 promotes proliferation, migration and fibrosis of tenocytes through targeting MECP2: Implications for rotator cuff injury.
Title: Inhibition of miR-205 promotes proliferation, migration and fibrosis of tenocytes through targeting MECP2: Implications for rotator cuff injury.
Collapse of complexity of brain and body activity due to excessive inhibition and MeCP2 disruption.
Title: Collapse of complexity of brain and body activity due to excessive inhibition and MeCP2 disruption.
MeCP2 attenuates cardiomyocyte hypoxia/reperfusion-induced injury via regulation of the SFRP4/Wnt/beta-catenin axis.
Title: MeCP2 attenuates cardiomyocyte hypoxia/reperfusion-induced injury via regulation of the SFRP4/Wnt/β-catenin axis.
MeCP2 inactivation of LncRNA GAS5 triggers cardiac fibroblasts activation in cardiac fibrosis.
Title: MeCP2 inactivation of LncRNA GAS5 triggers cardiac fibroblasts activation in cardiac fibrosis.
Role of nucleus accumbens microRNA-181a and MeCP2 in incubation of heroin craving in male rats.
Title: Role of nucleus accumbens microRNA-181a and MeCP2 in incubation of heroin craving in male rats.
MeCP2 triggers diabetic cardiomyopathy and cardiac fibroblast proliferation by inhibiting RASSF1A.
Title: MeCP2 triggers diabetic cardiomyopathy and cardiac fibroblast proliferation by inhibiting RASSF1A.
Seizures in early-life brain dysregulate MeCP2, a critical mediator of synaptic development.
Title: Regulation of seizure-induced MeCP2 Ser421 phosphorylation in the developing brain.

Submit: New GeneRIF Correction See all GeneRIFs (70)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BE114216 (e-PCR)
- UniSTS:247456

Mecp2 (e-PCR), detects polymorphism
- UniSTS:507063

REN88847 (e-PCR)
- UniSTS:413645

REN88597 (e-PCR)
- UniSTS:413395

REN88598 (e-PCR)
- UniSTS:413396

Mecp2 (e-PCR), detects polymorphism
- UniSTS:143851

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables double-stranded methylated DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded methylated DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables double-stranded methylated DNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded methylated DNA binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	IPI Inferred from Physical Interaction more info	PubMed
enables four-way junction DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables histone deacetylase binding	IPI Inferred from Physical Interaction more info	PubMed
enables histone reader activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables methyl-CpG binding	IBA Inferred from Biological aspect of Ancestor more info
enables methyl-CpG binding	IDA Inferred from Direct Assay more info	PubMed
enables methyl-CpG binding	ISO Inferred from Sequence Orthology more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables molecular condensate scaffold activity	ISO Inferred from Sequence Orthology more info
enables nucleic acid binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables siRNA binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info
enables unmethylated CpG binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in Notch signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adult locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in associative learning	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within behavioral fear response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within biogenic amine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cardiolipin metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of catecholamine secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to isoquinoline alkaloid	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to potassium ion	IDA Inferred from Direct Assay more info	PubMed
involved_in cerebellum development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cerebellum development	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dendrite development	ISO Inferred from Sequence Orthology more info
involved_in epigenetic regulation of gene expression	IEP Inferred from Expression Pattern more info	PubMed
involved_in epigenetic regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epigenetic regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within excitatory postsynaptic potential	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within genomic imprinting	ISO Inferred from Sequence Orthology more info
acts_upstream_of glial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glucocorticoid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glutamine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in hippocampus development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within inositol metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within learning	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within long-term memory	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in lung alveolus development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within memory	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organismal response to stress	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of astrocyte differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of blood vessel endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendrite extension	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of dendritic spine development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of locomotion involved in locomotory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of primary miRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of respiratory gaseous exchange	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of smooth muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nervous system process involved in regulation of systemic arterial blood pressure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process controlling posture	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in olfactory bulb development	IEP Inferred from Expression Pattern more info	PubMed
involved_in oligodendrocyte development	IEP Inferred from Expression Pattern more info	PubMed
involved_in oligodendrocyte differentiation	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within phosphatidylcholine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of anterograde dense core granule transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of branching morphogenesis of a nerve	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of dendrite extension	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of dendritic spine development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of glial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of microtubule nucleation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of retrograde dense core granule transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-embryonic development	ISO Inferred from Sequence Orthology more info
involved_in principal sensory nucleus of trigeminal nerve development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within proprioception	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of action potential firing threshold	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of respiratory gaseous exchange by nervous system process	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse organization	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of synaptic plasticity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within respiratory gaseous exchange by respiratory system	ISO Inferred from Sequence Orthology more info
involved_in response to alcohol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to cocaine	IDA Inferred from Direct Assay more info	PubMed
involved_in response to cocaine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in response to ionizing radiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lead ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to other organism	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of pain	ISO Inferred from Sequence Orthology more info
involved_in social behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within social behavior	ISO Inferred from Sequence Orthology more info
involved_in spinal cord development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within startle response	ISO Inferred from Sequence Orthology more info
involved_in striatum development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in thalamus development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of trans-synaptic signaling by BDNF	ISO Inferred from Sequence Orthology more info
involved_in ventricular cardiac muscle tissue development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within ventricular system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within visual learning	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in centrosome	ISO Inferred from Sequence Orthology more info
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
part_of heterochromatin	IBA Inferred from Biological aspect of Ancestor more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: methyl-CpG-binding protein 2

Names: meCP-2 protein

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_022673.2 → NP_073164.2 methyl-CpG-binding protein 2

See identical proteins and their annotated locations for NP_073164.2

Status: PROVISIONAL

Source sequence(s)

DQ897369

UniProtKB/Swiss-Prot

Q00566, Q09HV7, Q09HV8

UniProtKB/TrEMBL

A0A0G2JWK2, A6KRS9

Conserved Domains (1) summary

smart00391
Location:92 → 169

MBD; Methyl-CpG binding domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086039.1 Reference GRCr8

Range

156932481..156995981 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039099534.2 → XP_038955462.1 methyl-CpG-binding protein 2 isoform X1

UniProtKB/TrEMBL

A0A8I6ABA1, A6KRS9

Related

ENSRNOP00000094658.1

Conserved Domains (1) summary

smart00391
Location:120 → 197

MBD; Methyl-CpG binding domain
XM_063279838.1 → XP_063135908.1 methyl-CpG-binding protein 2 isoform X2

UniProtKB/TrEMBL

A0A0G2JWK2
XM_017601935.3 → XP_017457424.1 methyl-CpG-binding protein 2 isoform X3

UniProtKB/Swiss-Prot

Q00566, Q09HV7, Q09HV8

UniProtKB/TrEMBL

A0A8I6ABA1, A6KRS9