Mbd2 methyl-CpG binding domain protein 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Mbd2provided by RGD
Official Full Name: methyl-CpG binding domain protein 2provided by RGD
Primary source: RGD:1595452
See related: Ensembl:ENSRNOG00000011853 AllianceGenome:RGD:1595452
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
Summary: Enables chromatin binding activity. Involved in several processes, including maternal behavior; positive regulation of chromatin binding activity; and regulation of nucleobase-containing compound metabolic process. Located in chromatin. Used to study choline deficiency disease. Biomarker of choline deficiency disease; transient cerebral ischemia; and visual epilepsy. Human ortholog(s) of this gene implicated in schizophrenia. Orthologous to human MBD2 (methyl-CpG binding domain protein 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 255.4), Lung (RPKM 224.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18q12.1

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (66449196..66516112)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (64174002..64240795)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (65814026..65885115)

Chromosome 18 - NC_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

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General gene information

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Markers

RH129492 (e-PCR)
- UniSTS:212796

BE107285 (e-PCR)
- UniSTS:261481

AU049630 (e-PCR)
- UniSTS:146076

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables C2H2 zinc finger domain binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables siRNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA methylation-dependent heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA methylation-dependent heterochromatin formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cellular response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in embryonic organ development	IEP Inferred from Expression Pattern more info	PubMed
involved_in epigenetic regulation of gene expression	IEP Inferred from Expression Pattern more info	PubMed
involved_in maternal behavior	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within maternal behavior	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	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 positive regulation of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mechanical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in ventricular cardiac muscle tissue development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of NuRD complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
NOT located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: methyl-CpG-binding domain protein 2

NCBI Reference Sequences (RefSeq)

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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_001115025.1 → NP_001108497.1 methyl-CpG-binding domain protein 2

See identical proteins and their annotated locations for NP_001108497.1

Status: PROVISIONAL

Source sequence(s)

BC158877

UniProtKB/TrEMBL

B0BNM2, D4A986

Related

ENSRNOP00000016112.7, ENSRNOT00000016112.8

Conserved Domains (3) summary

cd01396
Location:152 → 215

MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding ...

pfam14048
Location:298 → 388

MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3

pfam16564
Location:228 → 293

MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD