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LOC108254691 CSNK1D-CD7 intergenic CAGE-defined low expression enhancer [ Homo sapiens (human) ]

Gene ID: 108254691, updated on 10-Oct-2023

Summary

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Gene symbol
LOC108254691
Gene description
CSNK1D-CD7 intergenic CAGE-defined low expression enhancer
Gene type
biological region
Feature type(s)
misc_feature: CAGE_cluster
regulatory: enhancer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic element is located in the intergenic region between the CSNK1D (casein kinase 1 delta) and CD7 (CD7 molecule) genes. It was defined as a low expression actively transcribed enhancer based on the presence of balanced bidirectional capped transcripts by cap analysis of gene expression (CAGE). It was validated as a functional enhancer by reporter assays in HeLa cells. [provided by RefSeq, Jul 2016]
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Genomic context

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Location:
17q25
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (82297922..82298599)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (83166676..83167353)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (80255798..80256475)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9206 Neighboring gene uncharacterized LOC124904089 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:80234577-80235076 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9207 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9208 Neighboring gene long intergenic non-protein coding RNA 1970 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12997 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12999 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13000 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13001 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13002 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13003 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:80261261-80261761 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:80272095-80272682 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9210 Neighboring gene CD7 molecule Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:80282821-80283426 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:80283427-80284032 Neighboring gene secreted and transmembrane 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:80290146-80290948

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. An atlas of active enhancers across human cell types and tissues. Andersson R, et al. Nature, 2014 Mar 27. PMID 24670763, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • CSNK1D-CD7 interval low CAGE FANTOM5 enhancer

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_051038.1 

    Range
    101..778
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    82297922..82298599
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    83166676..83167353
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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