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Aliases for MBD3L2 Gene

Aliases for MBD3L2 Gene

  • Methyl-CpG Binding Domain Protein 3 Like 2 2 3 5
  • Methyl-CpG-Binding Domain Protein 3-Like 2 3 4
  • MBD3-Like Protein 2 3 4
  • CTB-25J19.1 3

External Ids for MBD3L2 Gene

Previous GeneCards Identifiers for MBD3L2 Gene

  • GC19P007109
  • GC19P006989
  • GC19P007000

Summaries for MBD3L2 Gene

Entrez Gene Summary for MBD3L2 Gene

  • This gene encodes a protein that is related to methyl-CpG-binding proteins but lacks the methyl-CpG binding domain. The protein has been found in germ cell tumors and some somatic tissues. [provided by RefSeq, Jul 2008]

GeneCards Summary for MBD3L2 Gene

MBD3L2 (Methyl-CpG Binding Domain Protein 3 Like 2) is a Protein Coding gene. Among its related pathways are Signaling events mediated by HDAC Class I. An important paralog of this gene is MBD3L2B.

Additional gene information for MBD3L2 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MBD3L2 Gene

Genomics for MBD3L2 Gene

GeneHancer (GH) Regulatory Elements for MBD3L2 Gene

Promoters and enhancers for MBD3L2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J007049 Promoter 0.5 EPDnew 600.7 0.0 -34 0.1 MBD3L2 MBD3L4
GH19J007058 Promoter 0.5 EPDnew 0.4 +9.4 9375 0.1 MBD3L3 MBD3L2 GC19P007064
GH19J007056 Enhancer 0.2 Ensembl 0.4 +7.1 7080 0.4 MBD3L2 GC19P007064 MBD3L3
GH19J007041 Enhancer 0.2 Ensembl 0.4 -7.4 -7420 1 MBD3L4 MBD3L2
GH19J007060 Enhancer 0.2 Ensembl 0.4 +10.9 10879 0.4 GC19P007064 MBD3L3 MBD3L2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around MBD3L2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the MBD3L2 gene promoter:
  • STAT1
  • STAT1alpha
  • STAT1beta
  • STAT3

Genomic Locations for MBD3L2 Gene

Genomic Locations for MBD3L2 Gene
2,415 bases
Plus strand
2,415 bases
Plus strand

Genomic View for MBD3L2 Gene

Genes around MBD3L2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MBD3L2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MBD3L2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MBD3L2 Gene

Proteins for MBD3L2 Gene

  • Protein details for MBD3L2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Methyl-CpG-binding domain protein 3-like 2
    Protein Accession:

    Protein attributes for MBD3L2 Gene

    208 amino acids
    Molecular mass:
    22994 Da
    Quaternary structure:
    No Data Available
    • The MBD3L proteins are encoded by strongly repeated regions of the 19p13 chromosome. The exact number of functional copies is unclear, and some of them may represent pseudogenes.
    • Sequence=AAM28154.2; Type=Frameshift; Positions=204; Evidence={ECO:0000305};

neXtProt entry for MBD3L2 Gene

Post-translational modifications for MBD3L2 Gene

No Post-translational modifications

Other Protein References for MBD3L2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for MBD3L2 Gene

Domains & Families for MBD3L2 Gene

Gene Families for MBD3L2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for MBD3L2 Gene

Suggested Antigen Peptide Sequences for MBD3L2 Gene

GenScript: Design optimal peptide antigens:
  • Methyl-CpG-binding domain protein 3-like 2 (MB3L2_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the MBD3L family.
  • Belongs to the MBD3L family.
genes like me logo Genes that share domains with MBD3L2: view

Function for MBD3L2 Gene

Gene Ontology (GO) - Molecular Function for MBD3L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008327 methyl-CpG binding IBA 21873635
genes like me logo Genes that share ontologies with MBD3L2: view
genes like me logo Genes that share phenotypes with MBD3L2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for MBD3L2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for MBD3L2 Gene

Localization for MBD3L2 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for MBD3L2 gene
Compartment Confidence
nucleus 4
mitochondrion 1
peroxisome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for MBD3L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with MBD3L2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for MBD3L2 Gene

Pathways & Interactions for MBD3L2 Gene

PathCards logo

SuperPathways for MBD3L2 Gene

genes like me logo Genes that share pathways with MBD3L2: view

Pathways by source for MBD3L2 Gene

1 BioSystems pathway for MBD3L2 Gene

Gene Ontology (GO) - Biological Process for MBD3L2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IBA 21873635
GO:0006346 methylation-dependent chromatin silencing IBA 21873635
genes like me logo Genes that share ontologies with MBD3L2: view

No data available for SIGNOR curated interactions for MBD3L2 Gene

Drugs & Compounds for MBD3L2 Gene

No Compound Related Data Available

Transcripts for MBD3L2 Gene

mRNA/cDNA for MBD3L2 Gene

(1) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(4) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for MBD3L2 Gene

Methyl-CpG binding domain protein 3-like 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for MBD3L2

Alternative Splicing Database (ASD) splice patterns (SP) for MBD3L2 Gene

No ASD Table

Relevant External Links for MBD3L2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MBD3L2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MBD3L2 Gene

NURSA nuclear receptor signaling pathways regulating expression of MBD3L2 Gene:


SOURCE GeneReport for Unigene cluster for MBD3L2 Gene:


mRNA Expression by UniProt/SwissProt for MBD3L2 Gene:

Tissue specificity: Detected at low levels in several somatic tissues. Highly expressed in the ovarian teratocarcinoma cell line PA-1.
genes like me logo Genes that share expression patterns with MBD3L2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for MBD3L2 Gene

Orthologs for MBD3L2 Gene

This gene was present in the common ancestor of animals.

Orthologs for MBD3L2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia MBD3L2 34
  • 98.24 (n)
-- 35
  • 94 (a)
-- 35
  • 93 (a)
-- 35
  • 92 (a)
(Canis familiaris)
Mammalia LOC100688619 34
  • 66.67 (n)
-- 35
  • 35 (a)
(Bos Taurus)
Mammalia MBD3L3 34
  • 62.96 (n)
-- 35
  • 49 (a)
(Rattus norvegicus)
Mammalia Mbd3l2 34
  • 57.24 (n)
(Mus musculus)
Mammalia Mbd3l2 35 34
  • 56.75 (n)
(Monodelphis domestica)
Mammalia -- 35
  • 24 (a)
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 21 (a)
(Gallus gallus)
Aves MBD3 35
  • 25 (a)
(Danio rerio)
Actinopterygii mbd3b 35
  • 24 (a)
mbd3a 35
  • 22 (a)
fruit fly
(Drosophila melanogaster)
Insecta MBD-like 35
  • 12 (a)
Species where no ortholog for MBD3L2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for MBD3L2 Gene

Gene Tree for MBD3L2 (if available)
Gene Tree for MBD3L2 (if available)
Evolutionary constrained regions (ECRs) for MBD3L2: view image

Paralogs for MBD3L2 Gene

Paralogs for MBD3L2 Gene

(6) SIMAP similar genes for MBD3L2 Gene using alignment to 1 proteins:

  • MB3L2_HUMAN Pseudogenes for MBD3L2 Gene

genes like me logo Genes that share paralogs with MBD3L2: view

Variants for MBD3L2 Gene

Sequence variations from dbSNP and Humsavar for MBD3L2 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1002417770 -- 7,048,007(+) T/A/C upstream_transcript_variant
rs1005912550 -- 7,051,749(+) A/G downstream_transcript_variant
rs1007716707 -- 7,052,203(+) T/C downstream_transcript_variant
rs1007750899 -- 7,052,073(+) G/A downstream_transcript_variant
rs1009298919 -- 7,048,770(+) G/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for MBD3L2 Gene

Variant ID Type Subtype PubMed ID
dgv136e55 CNV gain 17911159
dgv1701n106 OTHER inversion 24896259
dgv1984e59 CNV duplication 20981092
dgv3421n100 CNV gain 25217958
dgv393n27 CNV gain 19166990
dgv6237n54 CNV gain 21841781
dgv6241n54 CNV gain 21841781
dgv6242n54 CNV gain 21841781
dgv6243n54 CNV loss 21841781
dgv6244n54 CNV loss 21841781
esv24114 CNV gain+loss 19812545
esv2751809 CNV gain 17911159
esv2751810 CNV loss 17911159
esv2760525 CNV gain 21179565
esv2762977 CNV gain+loss 21179565
esv3349509 CNV duplication 20981092
esv33729 CNV gain+loss 17666407
esv3414313 CNV duplication 20981092
esv3415066 CNV duplication 20981092
esv3574297 CNV gain 25503493
nsv1056752 CNV gain 25217958
nsv1061916 CNV gain 25217958
nsv1141328 CNV duplication 24896259
nsv1152474 CNV duplication 26484159
nsv482211 CNV gain 20164927
nsv517794 CNV gain+loss 19592680
nsv578487 CNV gain+loss 21841781
nsv821572 CNV duplication 20802225
nsv953956 CNV duplication 24416366
nsv960778 CNV duplication 23825009

Variation tolerance for MBD3L2 Gene

Gene Damage Index Score: 0.74; 15.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MBD3L2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MBD3L2 Gene

Disorders for MBD3L2 Gene

Additional Disease Information for MBD3L2

No disorders were found for MBD3L2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MBD3L2 Gene

Publications for MBD3L2 Gene

  1. MBD3L1 and MBD3L2, two new proteins homologous to the methyl-CpG-binding proteins MBD2 and MBD3: characterization of MBD3L1 as a testis-specific transcriptional repressor. (PMID: 12504854) Jiang CL … Pfeifer GP (Genomics 2002) 3 4 23 58
  2. MBD3L2 interacts with MBD3 and components of the NuRD complex and can oppose MBD2-MeCP1-mediated methylation silencing. (PMID: 15701600) Jin SG … Pfeifer GP (The Journal of biological chemistry 2005) 3 23 58
  3. MBD3L2 promotes Tet2 enzymatic activity for mediating 5-methylcytosine oxidation. (PMID: 26769901) Peng L … Yu W (Journal of cell science 2016) 3 58
  4. Unique features of the anti-parallel, heterodimeric coiled-coil interaction between methyl-cytosine binding domain 2 (MBD2) homologues and GATA zinc finger domain containing 2A (GATAD2A/p66α). (PMID: 23239876) Walavalkar NM … Williams DC (The Journal of biological chemistry 2013) 3 58
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 58

Products for MBD3L2 Gene

Sources for MBD3L2 Gene

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