U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC108251799 SIK1-LINC00319 intergenic CAGE-defined high expression enhancer [ Homo sapiens (human) ]

Gene ID: 108251799, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC108251799
Gene description
SIK1-LINC00319 intergenic CAGE-defined high 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 SIK1 (salt inducible kinase 1) and LINC00319 (long intergenic non-protein coding RNA 319) genes. It was defined as a high 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 both HeLa and HepG2 cells. [provided by RefSeq, Jul 2016]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC108251799 in Genome Data Viewer
Location:
21q22.3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (43440806..43441532)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (41796068..41796794)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (44860686..44861412)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:44834223-44834804 Neighboring gene uncharacterized LOC124905029 Neighboring gene Sharpr-MPRA regulatory region 10850 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:44853691-44854192 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:44854193-44854692 Neighboring gene salt inducible kinase 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:44865413-44866032 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:44866033-44866652 Neighboring gene H3K27ac hESC enhancer GRCh37_chr21:44867273-44867892 Neighboring gene uncharacterized LOC124900467 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:44874448-44875423 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:44875523-44876522 Neighboring gene long intergenic non-protein coding RNA 319 Neighboring gene ReSE screen-validated silencer GRCh37_chr21:44876822-44877032 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:44882521-44883518 Neighboring gene uncharacterized LOC102723380 Neighboring gene heat shock transcription factor 2 binding protein Neighboring gene long intergenic non-protein coding RNA 313

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. 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

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 Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

  • SIK1-LINC00319 interval high CAGE FANTOM5 enhancer

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.

Genomic

  1. NG_051002.1 

    Range
    101..827
    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_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    43440806..43441532
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    41796068..41796794
    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.

Molecular Biology Databases