U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    SCARNA13 small Cajal body-specific RNA 13 [ Homo sapiens (human) ]

    Gene ID: 677768, updated on 27-Aug-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    SCARNA13provided by HGNC
    Official Full Name
    small Cajal body-specific RNA 13provided by HGNC
    Primary source
    HGNC:HGNC:32570
    See related
    Ensembl:ENSG00000252481 AllianceGenome:HGNC:32570
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    U93
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    14q32.13
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (95533355..95533629, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (89764048..89764322, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (95999692..95999966, complement)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370640 Neighboring gene spectrin repeat containing nuclear envelope family member 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8957 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8958 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr14:95904894-95906093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95917656-95918448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8959 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95941052-95941938 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95941939-95942824 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8960 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:95961573-95962074 Neighboring gene H3K4me1 hESC enhancers GRCh37_chr14:95966308-95966888 and GRCh37_chr14:95966889-95967468 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8962 Neighboring gene Sharpr-MPRA regulatory region 11978 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8963 Neighboring gene SYNE3 antisense RNA 1 Neighboring gene CRISPRi-validated cis-regulatory element chr14.2067 Neighboring gene Sharpr-MPRA regulatory region 6741 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:95999817-96000606 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:96000607-96001396 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6049 Neighboring gene CRISPRi-validated cis-regulatory element chr14.2077 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr14:96014120-96014995 Neighboring gene small nucleolar RNA host gene 10 Neighboring gene glutaredoxin 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:96024009-96024508 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:96042156-96043078 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:96043079-96044000 Neighboring gene long intergenic non-protein coding RNA 2318

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. A Cajal body-specific pseudouridylation guide RNA is composed of two box H/ACA snoRNA-like domains. Kiss AM, et al. Nucleic Acids Res, 2002 Nov 1. PMID 12409454, Free PMC Article
    2. Domain specific mutations in dyskerin disrupt 3' end processing of scaRNA13. Nagpal N, et al. Nucleic Acids Res, 2022 Sep 9. PMID 36018809, Free PMC Article
    3. hNaf1 is required for accumulation of human box H/ACA snoRNPs, scaRNPs, and telomerase. Hoareau-Aveilla C, et al. RNA, 2006 May. PMID 16601202, Free PMC Article
    4. Proteostatic control of telomerase function through TRiC-mediated folding of TCAB1. Freund A, et al. Cell, 2014 Dec 4. PMID 25467444, Free PMC Article
    5. SIRT7-dependent deacetylation of the U3-55k protein controls pre-rRNA processing. Chen S, et al. Nat Commun, 2016 Feb 12. PMID 26867678, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Domain specific mutations in dyskerin disrupt 3' end processing of scaRNA13.
      Title: Domain specific mutations in dyskerin disrupt 3' end processing of scaRNA13.
    Submit: New GeneRIF Correction

    Phenotypes

    Go to the top of the page Help

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Cajal body IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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.

    RNA

    1. NR_003002.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AF492209
      Related
      ENST00000516672.1

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      95533355..95533629 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      89764048..89764322 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials