U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC124375242 Sharpr-MPRA regulatory region 7357 [ Homo sapiens (human) ]

Gene ID: 124375242, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC124375242
Gene description
Sharpr-MPRA regulatory region 7357
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 17:Gen3', transcription 3' end of genes, highly expressed, more exonic). [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
Location:
9q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (135941723..135942017)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (148169148..148169442)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (138833569..138833863)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr9:138712950-138713111 Neighboring gene calmodulin regulated spectrin associated protein 1 Neighboring gene Sharpr-MPRA regulatory region 6734 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138770145-138770777 Neighboring gene Sharpr-MPRA regulatory region 8889 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138780903-138781606 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:138796685-138797884 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20489 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20490 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20491 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20492 Neighboring gene CAMSAP1 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29293 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29294 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138823557-138824056 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:138838500-138839699 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:138842180-138842463 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:138852839-138853339 Neighboring gene UBA domain containing 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138860297-138860930 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:138863893-138864078 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138865698-138866480 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138881416-138882094 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138882772-138883449 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138884127-138884804 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138884805-138885482 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138904343-138905133 Neighboring gene uncharacterized LOC124902307 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:138912910-138913832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138913833-138914753 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138915830-138916368 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138916406-138916996 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:138921801-138922013 Neighboring gene NACC family member 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:223743486-223744062 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138947679-138948279 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138948280-138948879 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138948880-138949481 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138966482-138967232 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138972585-138973346 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138978791-138979750 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138982379-138983071 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138985151-138985842 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20495 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20496 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138995039-138995738 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29296 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20497 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138999932-139000544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:139001156-139001768 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:139001769-139002380 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:139002381-139002992 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:139008667-139009242 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:139009243-139009818 Neighboring gene uncharacterized LOC107987142 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20499 Neighboring gene transmembrane protein 250

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_078963.1 

    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    135941723..135942017
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    148169148..148169442
    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