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LOC112577556 Sharpr-MPRA regulatory region 7312 [ Homo sapiens (human) ]

Gene ID: 112577556, updated on 10-Dec-2024

Summary

Gene symbol
LOC112577556
Gene description
Sharpr-MPRA regulatory region 7312
Gene type
biological region
Feature type(s)
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 sequence was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. A subregion was validated as a functional enhancer by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in HepG2 liver carcinoma cells (group: HepG2 Activating non-DNase unmatched - State 7:EnhWF, candidate poised/weak enhancer; flanking open chromatin of candidate enhancers). This locus also includes an accessible chromatin subregion that was validated as an enhancer based on its ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

See LOC112577556 in Genome Data Viewer
Location:
1q
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (234700210..234700536)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (234090941..234091267)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (234835957..234836283)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904555 Neighboring gene uncharacterized LOC105373209 Neighboring gene uncharacterized LOC105373208 Neighboring gene uncharacterized LOC124904556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:234845164-234845664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:234845665-234846165 Neighboring gene Sharpr-MPRA regulatory region 10113 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:234859006-234859568 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:234860133-234860695 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:234860696-234861259 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:234861823-234862386 Neighboring gene long intergenic non-protein coding RNA 1132 Neighboring gene Sharpr-MPRA regulatory region 12432 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2765

Genomic regions, transcripts, and products

General gene information

Other Names

  • ATAC-STARR-seq lymphoblastoid active region 2764

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_060473.2 

    Range
    101..427
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    234700210..234700536
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    234090941..234091267
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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