Gene Gene information from NCBI Gene database.
Entrez ID 1736
Gene name Dyskerin pseudouridine synthase 1
Gene symbol DKC1
Synonyms (NCBI Gene)
CBF5CHINE1DKCDKCXNAP57NOLA4XAP101
Chromosome X
Chromosome location Xq28
Summary This gene functions in two distinct complexes. It plays an active role in telomerase stabilization and maintenance, as well as recognition of snoRNAs containing H/ACA sequences which provides stability during biogenesis and assembly into H/ACA small nucle
SNPs SNP information provided by dbSNP.
30
SNP ID Visualize variation Clinical significance Consequence
rs2728726 C>A,G Pathogenic Non coding transcript variant, coding sequence variant, missense variant
rs28936072 T>C Pathogenic Coding sequence variant, non coding transcript variant, missense variant
rs121912290 C>G,T Pathogenic Coding sequence variant, non coding transcript variant, missense variant
rs121912291 G>A Pathogenic Coding sequence variant, non coding transcript variant, missense variant
rs121912292 C>G Pathogenic Coding sequence variant, non coding transcript variant, missense variant
miRNA miRNA information provided by mirtarbase database.
185
miRTarBase ID miRNA Experiments Reference
MIRT022796 hsa-miR-124-3p Proteomics;Microarray 18668037
MIRT031769 hsa-miR-16-5p Proteomics 18668040
MIRT036690 hsa-miR-935 CLASH 23622248
MIRT755971 hsa-miR-326 Luciferase reporter assayWestern blottingqRT-PCR 37426487
MIRT937433 hsa-miR-1226 CLIP-seq
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
60
GO ID Ontology Definition Evidence Reference
GO:0000455 Process Enzyme-directed rRNA pseudouridine synthesis IMP 25219674
GO:0000495 Process Box H/ACA sno(s)RNA 3'-end processing IBA
GO:0001522 Process Pseudouridine synthesis IEA
GO:0001650 Component Fibrillar center IDA
GO:0003720 Function Telomerase activity IDA 23685356
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
300126 2890 ENSG00000130826
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
O60832
Protein name H/ACA ribonucleoprotein complex subunit DKC1 (EC 5.4.99.-) (CBF5 homolog) (Dyskerin) (Nopp140-associated protein of 57 kDa) (Nucleolar protein NAP57) (Nucleolar protein family A member 4) (snoRNP protein DKC1)
Protein function [Isoform 1]: Catalytic subunit of H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA (PubMed:25219674, PubMed:32554502). This involves the isomerization of uridine such that the ribose is su
PDB 7BGB , 7TRC , 7V9A , 8OUE , 8OUF
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF08068 DKCLD 49 106 DKCLD (NUC011) domain Domain
PF01509 TruB_N 110 226 TruB family pseudouridylate synthase (N terminal domain) Family
PF16198 TruB_C_2 227 294 tRNA pseudouridylate synthase B C-terminal domain Family
PF01472 PUA 297 370 PUA domain Family
Tissue specificity TISSUE SPECIFICITY: Ubiquitously expressed. {ECO:0000269|PubMed:10903840}.
Sequence
Sequence length 514
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Ribosome biogenesis in eukaryotes   Telomere Extension By Telomerase
rRNA modification in the nucleus and cytosol
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
18
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
Cataracts, hearing impairment, nephrotic syndrome, and enterocolitis 1 Pathogenic rs2523685088 RCV003236695
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
DKC1-related disorder Pathogenic rs1603429348 RCV004730843
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Dyskeratosis congenita Pathogenic; Likely pathogenic rs2523680394, rs137854489, rs121912288, rs121912304, rs2523673228, rs121912289, rs121912297, rs121912290, rs1569558474 RCV004060759
RCV000634495
RCV000464438
RCV000816060
RCV003646411
View all (4 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Dyskeratosis congenita, X-linked Likely pathogenic; Pathogenic rs199422245, rs121912293, rs137854489, rs121912292, rs121912294, rs121912295, rs121912288, rs1603429348, rs121912304, rs28936072, rs137854491, rs1569558616, rs2523679280, rs2523695424, rs1114167422
View all (8 more)
RCV001845042
RCV000012338
RCV000012339
RCV000012340
RCV000012341
View all (18 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
APLASTIC ANEMIA Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CEREBELLAR HYPOPLASIA/ATROPHY, EPILEPSY, AND GLOBAL DEVELOPMENTAL DELAY Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Congenital cerebellar hypoplasia Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Familial cancer of breast 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
Acute Erythroblastic Leukemia Erythroblastic Leukemia BEFREE 31413099
★☆☆☆☆
Found in Text Mining only
Adrenoleukodystrophy Adrenoleukodystrophy Pubtator 21415081 Associate
★☆☆☆☆
Found in Text Mining only
Alopecia Alopecia HPO_DG
★☆☆☆☆
Found in Text Mining only
Alveolitis Extrinsic Allergic Extrinsic allergic alveolitis Pubtator 31268371 Associate
★☆☆☆☆
Found in Text Mining only
Anaplastic Ependymoma Anaplastic Ependymoma BEFREE 17196947
★☆☆☆☆
Found in Text Mining only
Anemia Anemia HPO_DG
★☆☆☆☆
Found in Text Mining only
Anemia Anemia CLINVAR_DG
★☆☆☆☆
Found in Text Mining only
Anemia Aplastic Aplastic anemia Pubtator 10583221, 20954562, 21931702, 27418648 Associate
★☆☆☆☆
Found in Text Mining only
Aplastic Anemia Aplastic anemia BEFREE 10438713, 10583221
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
B-Cell Lymphomas B-Cell Lymphoma BEFREE 16841302
★☆☆☆☆
Found in Text Mining only