Gene Gene information from NCBI Gene database.
Entrez ID 55777
Gene name Methyl-CpG binding domain protein 5
Gene symbol MBD5
Synonyms (NCBI Gene)
C2DELq23.1DEL2Q23.1MRD1
Chromosome 2
Chromosome location 2q23.1
Summary This gene encodes a member of the methyl-CpG-binding domain (MBD) family. The MBD consists of about 70 residues and is the minimal region required for a methyl-CpG-binding protein binding specifically to methylated DNA. In addition to the MBD domain, this
SNPs SNP information provided by dbSNP.
52
SNP ID Visualize variation Clinical significance Consequence
rs34995577 G>A Likely-benign, likely-pathogenic, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant, non coding transcript variant
rs115145637 A>G Conflicting-interpretations-of-pathogenicity, likely-benign Non coding transcript variant, synonymous variant, coding sequence variant
rs138058889 G>A,T Conflicting-interpretations-of-pathogenicity, likely-benign Non coding transcript variant, synonymous variant, coding sequence variant
rs141855494 A>C,G Conflicting-interpretations-of-pathogenicity, benign-likely-benign Non coding transcript variant, coding sequence variant, synonymous variant
rs145475623 C>T Likely-benign, likely-pathogenic, conflicting-interpretations-of-pathogenicity Missense variant, coding sequence variant, non coding transcript variant
miRNA miRNA information provided by mirtarbase database.
16
miRTarBase ID miRNA Experiments Reference
MIRT016873 hsa-miR-335-5p Microarray 18185580
MIRT498259 hsa-miR-6796-3p PAR-CLIP 22291592
MIRT498258 hsa-miR-7151-5p PAR-CLIP 22291592
MIRT498259 hsa-miR-6796-3p PAR-CLIP 22291592
MIRT498258 hsa-miR-7151-5p PAR-CLIP 22291592
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
20
GO ID Ontology Definition Evidence Reference
GO:0003677 Function DNA binding IDA 20700456
GO:0003682 Function Chromatin binding IBA
GO:0003682 Function Chromatin binding IDA 20700456
GO:0005515 Function Protein binding IPI 32296183
GO:0005634 Component Nucleus IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
611472 20444 ENSG00000204406
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q9P267
Protein name Methyl-CpG-binding domain protein 5 (Methyl-CpG-binding protein MBD5)
Protein function Non-catalytic component of the polycomb repressive deubiquitinase (PR-DUB) complex, a complex that specifically mediates deubiquitination of histone H2A monoubiquitinated at 'Lys-120' (H2AK119ub1) (PubMed:24634419). Important for stability of PR
Family and domains
Tissue specificity TISSUE SPECIFICITY: Detected in heart, placenta, liver, skeletal muscle, kidney and pancreas. {ECO:0000269|PubMed:12529184}.
Sequence
MNGGKECDGGDKEGGLPAIQVPVGWQRRVDQNGVLYVSPSGSLLSCLEQVKTYLLTDGTC
KCGLECPLILPKVFNFDPGAAVKQRTAEDVKADEDVTKLCIHKRKIIAVATLHKSMEAPH
PSLVLTSPGGGTNATPVVPSRAATPRSVRNKSHEGITNSVMPECKNPFKLMIGSSNAMGR
LYVQELPGSQQQELHPVYPRQRLGSSEHGQKSPFRGSHGGLPSPASSGSQIYGDGSISPR
TDPLGSPDVFTRSNPGFHGAPNSSPIHLNRTPLSPPSVMLHGSPVQSSCAMAGRTNIPLS
PTLTTKSPVMKKPMCNFSTNMEIPRAMFHHKPPQGPPPPPPPSCALQKKPLTSEKDPLGI
LDPIPSKPVNQNPVIINPTSFHSNVHSQVPMMNVSMPPAVVPLPSNLPLPTVKPGHMNHG
SHVQRVQHSASTSLSPSPVTSPVHMMGTGIGRIEASPQRSRSSSTSSDHGNFMMPPVGPQ
ATSSGIKVPPRSPRSTIGSPRPSMPSSPSTKSDGHHQYKDIPNPLIAGISNVLNTPSSAA
FPTASAGSSSVKSQPGLLGMPLNQILNQHNAASFPASSLLSAAAKAQLANQNKLAGNNSS
SSSNSGAVAGSGNTEGHSTLNTMFPPTANMLLPTGEGQSGRAALRDKLMSQQKDALRKRK
QPPTTVLSLLRQSQMDSSAVPKPGPDLLRKQGQGSFPISSMSQLLQSMSCQSSHLSSNST
PGCGASNTALPCSANQLHFTDPSMNSSVLQNIPLRGEAVHCHNANTNFVHSNSPVPNHHL
AGLINQIQASGNCGMLSQSGMALGNSLHPNPPQSRISTSSTPVIPNSIVSSYNQTSSEAG
GSGPSSSIAIAGTNHPAITKTTSVLQDGVIVTTAAGNPLQSQLPIGSDFPFVGQEHALHF
PSNSTSNNHLPHPLNPSLLSSLPISLPVNQQHLLNQNLLNILQPSAGEGDMSSINNTLSN
HQLTHLQSLLNNNQMFPPNQQQQQLLQGYQNLQAFQGQSTIPCPANNNPMACLFQNFQVR
MQEDAALLNKRISTQPGLTALPENPNTTLPPFQDTPCELQPRIDPSLGQQVKDGLVVGGP
GDASVDAIYKAVVDAASKGMQVVITTAVNSTTQISPIPALSAMSAFTASIGDPLNLSSAV
SAVIHGRNMGGVDHDGRLRNSRGARLPKNLDHGKNVNEGDGFEYFKSASCHTSKKQWDGE
QSPRGERNRWKYEEFLDHPGHIHSSPCHERPNNVSTLPFLPGEQHPILLPPRNCPGDKIL
EENFRYNNYKRTMMSFKERLENTVERCAHINGNRPRQSRGFGELLSTAKQDLVLEEQSPS
SSNSLENSLVKDYIHYNGDFNAKSVNGCVPSPSDAKSISSEDDLRNPDSPSSNELIHYRP
RTFNVGDLVWGQIKGLTSWPGKLVREDDVHNSCQQSPEEGKVEPEKLKTLTEGLEAYSRV
RKRNRKSGKLNNHLEAAIHEAMSELDKMSGTVHQIPQGDRQMRPPKPKRRKISR
Sequence length 1494
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Polycomb repressive complex   UCH proteinases
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
39
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Autism spectrum disorder Pathogenic; Likely pathogenic rs2105571544, rs1553518509 RCV003127861
RCV000754667
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Intellectual disability Likely pathogenic; Pathogenic rs1553518509, rs1680708290, rs1681481862 RCV001257688
RCV001257755
RCV001257754
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Intellectual disability, autosomal dominant 1 Likely pathogenic; Pathogenic rs2105627349, rs2105571544, rs2105622677, rs1293936199, rs766179352, rs2105633124, rs2105130509, rs2105124073, rs2105635449, rs1450731543, rs2105639771, rs2105124818, rs2105571301, rs2105131625, rs2105633619
View all (56 more)
RCV001376000
RCV001388646
RCV001381929
RCV001389526
RCV001387381
View all (66 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
MBD5 associated neurodevelopmental disorder Likely pathogenic; Pathogenic rs1553518593 RCV003226341
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
ATRIAL FIBRILLATION CTD, Disgenet, GWAS catalog
CTD, Disgenet, GWAS catalog
CTD, Disgenet, GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDERS Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autistic behavior Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISTIC DISORDER Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
22q13.3 Deletion Syndrome 22q13.3 deletion syndrome BEFREE 24779060
★☆☆☆☆
Found in Text Mining only
2q23.1 microdeletion syndrome 2q23.1 microdeletion syndrome ORPHANET_DG 19809484
★☆☆☆☆
Found in Text Mining only
2q23.1 microdeletion syndrome 2q23.1 microdeletion syndrome Orphanet
★☆☆☆☆
Found in Text Mining only
Anxiety Anxiety Disorder BEFREE 23587880
★☆☆☆☆
Found in Text Mining only
Anxiety Anxiety disorder Pubtator 23587880 Associate
★☆☆☆☆
Found in Text Mining only
Anxiety Disorders Anxiety Disorder BEFREE 23587880
★☆☆☆☆
Found in Text Mining only
Astigmatism Astigmatism HPO_DG
★☆☆☆☆
Found in Text Mining only
Atrial Fibrillation Atrial Fibrillation CTD_human_DG 29892015
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autism Spectrum Disorder Autism Pubtator 21981781, 23632792, 24885232, 25271084, 25853262, 34050248 Associate
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Autism Spectrum Disorder Autism Pubtator 23055267 Inhibit
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)