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Cd8_cii Cd8 alpha DNase I hypersensitive cluster CII [ Mus musculus (house mouse) ]

Gene ID: 106699569, updated on 8-Feb-2024

Summary

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Gene symbol
Cd8_cii
Gene description
Cd8 alpha DNase I hypersensitive cluster CII
Gene type
biological region
Feature type(s)
misc_feature: conserved_region
protein_bind
regulatory: DNase_I_hypersensitive_site, enhancer, matrix_attachment_region, silencer, transcriptional_cis_regulatory_region
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
E8V; L2a
Summary
This region is located upstream of the Cd8a (CD8a molecule) coding sequence and contains multiple DNase I hypersensitive sites overlapping positive and negative gene regulatory elements. This sequence is important for directing expression of Cd8 antigen in thermocytes and peripheral T cells. It contains an element that binds SATB homeobox 1 and associates with matrix proteins, and may therefore function as a scaffold/matrix attachment region (S/MAR). Association of Ikaros zinc finger protein with this region can suppress position effect variegation of a transgene. A subregion was also identified as a candidate cis-regulatory module (CRM) in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. That subregion was validated as an enhancer by high-throughput CapStarr-seq reporter assays showing strong activity in P5424 T cells. [provided by RefSeq, Mar 2023]
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Genomic context

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See Cd8_cii in Genome Data Viewer
Location:
chromosome: 6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (71345395..71350794)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (71368411..71373810)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:71266617-71266800 Neighboring gene predicted gene, 38828 Neighboring gene CD8 subunit beta 1 Neighboring gene Cd8 alpha DNase I hypersensitive cluster CIV Neighboring gene Cd8 alpha DNase I hypersensitive cluster CIII Neighboring gene CD8 subunit alpha Neighboring gene STARR-seq mESC enhancer starr_16262 Neighboring gene required for meiotic nuclear division 5 homolog A Neighboring gene STARR-positive B cell enhancer ABC_E343 Neighboring gene predicted gene, 30582

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Functional GATA-3 binding sites within murine CD8 alpha upstream regulatory sequences. Landry DB, et al. J Exp Med, 1993 Sep 1. PMID 8350061, Free PMC Article
  2. Cis-acting DNA elements and cell type-specific nuclear proteins which may play a role in regulation of mouse CD8 alpha (Lyt-2) gene transcription. Lee WH, et al. Int Immunol, 1994 Sep. PMID 7819139
  3. The L2a element is a mouse CD8 silencer that interacts with MAR-binding proteins SATB1 and CDP. Yao X, et al. Mol Immunol, 2010 Nov-Dec. PMID 20884053, Free PMC Article
  4. Variegated expression of CD8 alpha resulting from in situ deletion of regulatory sequences. Garefalaki A, et al. Immunity, 2002 May. PMID 12049716
  5. Distinct stage-specific cis-active transcriptional mechanisms control expression of T cell coreceptor CD8 alpha at double- and single-positive stages of thymic development. Zhang XL, et al. J Immunol, 1998 Sep 1. PMID 9725219

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Other Names

  • CapStarr-seq enhancer MGSCv37_chr6:71319440-71319767
  • Cd8 regulatory element E8V

NCBI Reference Sequences (RefSeq)

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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.

Genomic

  1. NG_044962.1 

    Range
    101..5500
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    71345395..71350794
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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