Gene Gene information from NCBI Gene database.
Entrez ID 79648
Gene name Microcephalin 1
Gene symbol MCPH1
Synonyms (NCBI Gene)
BRIT1MCT
Chromosome 8
Chromosome location 8p23.1
Summary This gene encodes a DNA damage response protein. The encoded protein may play a role in G2/M checkpoint arrest via maintenance of inhibitory phosphorylation of cyclin-dependent kinase 1. Mutations in this gene have been associated with primary autosomal r
SNPs SNP information provided by dbSNP.
27
SNP ID Visualize variation Clinical significance Consequence
rs41313952 T>C Uncertain-significance, conflicting-interpretations-of-pathogenicity Coding sequence variant, non coding transcript variant, missense variant
rs77959215 A>C Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, missense variant, non coding transcript variant
rs121434305 C>G Pathogenic Genic upstream transcript variant, stop gained, coding sequence variant, 5 prime UTR variant, non coding transcript variant
rs139607465 C>A,G,T Uncertain-significance, likely-benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant, missense variant, intron variant, non coding transcript variant
rs139678787 A>G,T Conflicting-interpretations-of-pathogenicity Genic upstream transcript variant, coding sequence variant, synonymous variant, 5 prime UTR variant, non coding transcript variant
miRNA miRNA information provided by mirtarbase database.
278
miRTarBase ID miRNA Experiments Reference
MIRT017612 hsa-miR-335-5p Microarray 18185580
MIRT047634 hsa-miR-10a-5p CLASH 23622248
MIRT046507 hsa-miR-15b-5p CLASH 23622248
MIRT1137975 hsa-miR-1184 CLIP-seq
MIRT1137976 hsa-miR-1297 CLIP-seq
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
E2F1 Activation 22136275
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:0000122 Process Negative regulation of transcription by RNA polymerase II IDA 12837246
GO:0000132 Process Establishment of mitotic spindle orientation IEA
GO:0000278 Process Mitotic cell cycle IBA
GO:0005515 Function Protein binding IPI 18660752, 19287395, 28514442, 33961781
GO:0005654 Component Nucleoplasm IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
607117 6954 ENSG00000147316
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q8NEM0
Protein name Microcephalin
Protein function Implicated in chromosome condensation and DNA damage induced cellular responses. May play a role in neurogenesis and regulation of the size of the cerebral cortex. {ECO:0000269|PubMed:12046007, ECO:0000269|PubMed:15199523, ECO:0000269|PubMed:152
PDB 2WT8 , 3KTF , 3PA6 , 3SHT , 3SHV , 3SZM , 3T1N , 3U3Z , 7C5D
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF12738 PTCB-BRCT 9 75 twin BRCT domain Family
PF12258 Microcephalin 225 607 Microcephalin protein Family
PF16589 BRCT_2 752 832 BRCT domain, a BRCA1 C-terminus domain Family
Tissue specificity TISSUE SPECIFICITY: Expressed in fetal brain, liver and kidney. {ECO:0000269|PubMed:12046007}.
Sequence
MAAPILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTW
DKAQKRGVKLVSVLW
VEKCRTAGAHIDESLFPAANMNEHLSSLIKKKRKCMQPKDFNFKT
PENDKRFQKKFEKMAKELQRQKTNLDDDVPILLFESNGSLIYTPTIEINSRHHSAMEKRL
QEMKEKRENLSPTSSQMIQQSHDNPSNSLCEAPLNISRDTLCSDEYFAGGLHSSFDDLCG
NSGCGNQERKLEGSINDIKSDVCISSLVLKANNIHSSPSFTHLDKSSPQKFLSNLSKEEI
NLQRNIAGKVVTPDQKQAAGMSQETFEEKYRLSPTLSSTKGHLLIHSRPRSSSVKRKRVS
HGSHSPPKEKCKRKRSTRRSIMPRLQLCRSEDRLQHVAGPALEALSCGESSYDDYFSPDN
LKERYSENLPPESQLPSSPAQLSCRSLSKKERTSIFEMSDFSCVGKKTRTVDITNFTAKT
ISSPRKTGNGEGRATSSCVTSAPEEALRCCRQAGKEDACPEGNGFSYTIEDPALPKGHDD
DLTPLEGSLEEMKEAVGLKSTQNKGTTSKISNSSEGEAQSEHEPCFIVDCNMETSTEEKE
NLPGGYS
GSVKNRPTRHDVLDDSCDGFKDLIKPHEELKKSGRGKKPTRTLVMTSMPSEKQ
NVVIQVVDKLKGFSIAPDVCETTTHVLSGKPLRTLNVLLGIARGCWVLSYDWVLWSLELG
HWISEEPFELSHHFPAAPLCRSECHLSAGPYRGTLFADQPAMFVSPASSPPVAKLCELVH
LCGGRVSQVPRQASIVIGPYSGKKKATVKYLSEKWVLDSITQHKVCAPENYL
LSQ
Sequence length 835
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  Reactome
    Condensation of Prophase Chromosomes
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
46
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
Abnormal brain morphology Likely pathogenic; Pathogenic rs199422125 RCV000454240
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Abnormality of the nervous system Likely pathogenic; Pathogenic rs759663956 RCV001814465
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Acute myeloid leukemia Likely pathogenic rs201721894 RCV005897388
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Autosomal recessive primary microcephaly Likely pathogenic; Pathogenic rs587783735, rs2129580766, rs369240170, rs975741762, rs1809107219, rs370842740, rs1171432546, rs1803597889, rs387906961, rs1554496609 RCV003486664
RCV002266534
RCV002283367
RCV003155846
RCV003236285
View all (5 more)
★★★★★
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
ATHEROSCLEROSIS GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign; Likely benign; Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cholangiocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Clear cell carcinoma of kidney Benign; Likely benign ClinVar
★★☆☆☆
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
Adrenal Gland Pheochromocytoma Adrenal Gland Pheochromocytoma BEFREE 19925808
★☆☆☆☆
Found in Text Mining only
Adult Rickets Rickets BEFREE 28858396
★☆☆☆☆
Found in Text Mining only
Agenesis of corpus callosum Agenesis Of Corpus Callosum HPO_DG
★☆☆☆☆
Found in Text Mining only
Alzheimer Disease Alzheimer disease Pubtator 21297427, 32193444 Associate
★☆☆☆☆
Found in Text Mining only
Aphasia Aphasia Pubtator 33094427 Associate
★☆☆☆☆
Found in Text Mining only
Astrocytoma Astrocytoma BEFREE 18636190
★☆☆☆☆
Found in Text Mining only
Ataxia Telangiectasia Ataxia telangiectasia Pubtator 25301947 Associate
★☆☆☆☆
Found in Text Mining only
Autism Spectrum Disorders Autism Spectrum Disorder BEFREE 19793310, 21837366
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism BEFREE 18716609
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism Pubtator 18716609, 22139841, 23575222 Associate
★☆☆☆☆
Found in Text Mining only