U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC124174263 Sharpr-MPRA regulatory region 10423 [ Homo sapiens (human) ]

Gene ID: 124174263, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC124174263
Gene description
Sharpr-MPRA regulatory region 10423
Gene type
biological region
Feature type(s)
regulatory: silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic sequence was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. It was validated as a functional repressive element by the Sharpr-MPRA technique (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in K562 erythroleukemia cells (group: K562 Repressive non-DNase unmatched - State 22:ReprW, weaker Polycomb repression). [provided by RefSeq, Feb 2022]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC124174263 in Genome Data Viewer
Location:
8q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (60945590..60945884)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (61369356..61369650)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (61858149..61858443)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:61822345-61822846 Neighboring gene uncharacterized LOC105375938 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:61835189-61835702 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:61834675-61835188 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27431 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:61841844-61842028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27433 Neighboring gene hCG1816373-like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27434 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27435 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27436 Neighboring gene nuclear autoantigenic sperm protein pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27438 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27439 Neighboring gene Sharpr-MPRA regulatory region 12445 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:61925759-61926468 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:61925128-61925715 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:61929973-61931172 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19233 Neighboring gene clavesin 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:61964453-61964975 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:61989140-61989380 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:61989895-61990569 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:61990570-61991243 Neighboring gene meiotic recombination hotspot G Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:62033015-62033646 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27440 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27441 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27442 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27443 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19234 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:62075983-62076484 Neighboring gene nucleophosmin 1 pseudogene 6

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. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, 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)

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_078562.1 

    Range
    101..395
    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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    60945590..60945884
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    61369356..61369650
    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