U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC123924917 Sharpr-MPRA regulatory region 4516 [ Homo sapiens (human) ]

Gene ID: 123924917, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC123924917
Gene description
Sharpr-MPRA regulatory region 4516
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 HepG2 liver carcinoma cells (group: HepG2 Repressive non-DNase unmatched - State 22:ReprW, weaker Polycomb repression). [provided by RefSeq, Jan 2022]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
7p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (22677730..22678024)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (22813638..22813932)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (22717349..22717643)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22602981-22603482 Neighboring gene STEAP1B antisense RNA 1 Neighboring gene CAGE-defined low expression enhancer in LOC100506178-LOC401312 intergenic region Neighboring gene uncharacterized LOC401312 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22703992-22704599 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22704600-22705208 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22705209-22705815 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22708433-22709061 Neighboring gene CRISPRi-validated cis-regulatory element chr7.1154 Neighboring gene CRISPRi-validated cis-regulatory element chr7.1155 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:22748460-22749096 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18003 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:22766269-22767468 Neighboring gene IL6 antisense RNA 1 Neighboring gene interleukin 6 Neighboring gene MT-CYB pseudogene 42

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_078309.1 

    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    22677730..22678024
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    22813638..22813932
    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