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Mbd1 methyl-CpG binding domain protein 1 [ Mus musculus (house mouse) ]

Gene ID: 17190, updated on 6-Jun-2024

Summary

Official Symbol
Mbd1provided by MGI
Official Full Name
methyl-CpG binding domain protein 1provided by MGI
Primary source
MGI:MGI:1333811
See related
Ensembl:ENSMUSG00000024561 AllianceGenome:MGI:1333811
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
PCM1; Cxxc3
Summary
Enables DNA binding activity. Predicted to be involved in negative regulation of astrocyte differentiation and negative regulation of gene expression. Located in cytoplasm; heterochromatin; and nuclear lumen. Is expressed in several structures, including central nervous system; early conceptus; genitourinary system; and retina. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human MBD1 (methyl-CpG binding domain protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 15.4), genital fat pad adult (RPKM 13.7) and 28 other tissues See more
Orthologs
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Genomic context

See Mbd1 in Genome Data Viewer
Location:
18 E2; 18 50.7 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (74400676..74415808)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (74267605..74282737)

Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E2512 Neighboring gene CXXC finger protein 1 Neighboring gene ribosomal protein L10A pseudogene Neighboring gene cilia and flagella associated protein 53 Neighboring gene fatty acid-binding protein, epidermal pseudogene Neighboring gene STARR-seq mESC enhancer starr_45005 Neighboring gene STARR-seq mESC enhancer starr_45006 Neighboring gene STARR-seq mESC enhancer starr_45007 Neighboring gene predicted gene, 41773

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA 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 ISO
Inferred from Sequence Orthology
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables methyl-CpG binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables unmethylated CpG binding ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in negative regulation of astrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of chromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
part_of heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear matrix IDA
Inferred from Direct Assay
more info
PubMed 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
NOT located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
methyl-CpG-binding domain protein 1
Names
methyl-CpG-binding protein MBD1

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)

  1. NM_001357421.2NP_001344350.1  methyl-CpG-binding domain protein 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/Swiss-Prot
    Q3TMA4, Q3U101, Q6NSW0, Q792D6, Q8CCL9, Q9DC19, Q9Z2E2
    Conserved Domains (2) summary
    pfam02008
    Location:359403
    zf-CXXC; CXXC zinc finger domain
    pfam01429
    Location:172
    MBD; Methyl-CpG binding domain
  2. NM_001357422.2NP_001344351.1  methyl-CpG-binding domain protein 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/TrEMBL
    A0A286YCP6
    Conserved Domains (1) summary
    pfam02008
    Location:164208
    zf-CXXC; CXXC zinc finger domain
  3. NM_001357423.2NP_001344352.1  methyl-CpG-binding domain protein 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC147367
    Consensus CDS
    CCDS89280.1
    UniProtKB/Swiss-Prot
    Q3TMA4, Q3U101, Q6NSW0, Q792D6, Q8CCL9, Q9DC19, Q9Z2E2
    UniProtKB/TrEMBL
    A0A286YDI1
    Related
    ENSMUSP00000153428.2, ENSMUST00000224047.2
    Conserved Domains (2) summary
    pfam02008
    Location:359403
    zf-CXXC; CXXC zinc finger domain
    pfam01429
    Location:172
    MBD; Methyl-CpG binding domain
  4. NM_001402889.1NP_001389818.1  methyl-CpG-binding domain protein 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/Swiss-Prot
    Q3TMA4, Q3U101, Q6NSW0, Q792D6, Q8CCL9, Q9DC19, Q9Z2E2
  5. NM_001402890.1NP_001389819.1  methyl-CpG-binding domain protein 1 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/TrEMBL
    A0A5F8MPN9
  6. NM_001402891.1NP_001389820.1  methyl-CpG-binding domain protein 1 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/TrEMBL
    A0A5F8MPN9
    Related
    ENSMUSP00000153085.2, ENSMUST00000224332.2
  7. NM_001402892.1NP_001389821.1  methyl-CpG-binding domain protein 1 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC147367
    UniProtKB/Swiss-Prot
    Q3TMA4, Q3U101, Q6NSW0, Q792D6, Q8CCL9, Q9DC19, Q9Z2E2
  8. NM_001402894.1NP_001389823.1  methyl-CpG-binding domain protein 1 isoform 9

    Status: VALIDATED

    Source sequence(s)
    AC147367
  9. NM_001402895.1NP_001389824.1  methyl-CpG-binding domain protein 1 isoform 10

    Status: VALIDATED

    Source sequence(s)
    AC147367
  10. NM_013594.4NP_038622.2  methyl-CpG-binding domain protein 1 isoform 1

    See identical proteins and their annotated locations for NP_038622.2

    Status: VALIDATED

    Source sequence(s)
    AC147367
    Consensus CDS
    CCDS50321.1
    UniProtKB/TrEMBL
    A0A0R4J159, A0A5F8MPN9
    Related
    ENSMUSP00000095137.4, ENSMUST00000097530.5
    Conserved Domains (2) summary
    pfam02008
    Location:243288
    zf-CXXC; CXXC zinc finger domain
    pfam01429
    Location:569
    MBD; Methyl-CpG binding domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000084.7 Reference GRCm39 C57BL/6J

    Range
    74400676..74415808
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006525707.3XP_006525770.1  methyl-CpG-binding domain protein 1 isoform X3

    UniProtKB/Swiss-Prot
    Q3TMA4, Q3U101, Q6NSW0, Q792D6, Q8CCL9, Q9DC19, Q9Z2E2
    Conserved Domains (2) summary
    pfam01429
    Location:172
    MBD; Methyl-CpG binding domain
    pfam02008
    Location:314360
    zf-CXXC; CXXC zinc finger domain
  2. XM_030250354.2XP_030106214.1  methyl-CpG-binding domain protein 1 isoform X7

    Conserved Domains (1) summary
    pfam02008
    Location:119165
    zf-CXXC; CXXC zinc finger domain