U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC121847961 Sharpr-MPRA regulatory region 4613 [ Homo sapiens (human) ]

Gene ID: 121847961, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC121847961
Gene description
Sharpr-MPRA regulatory region 4613
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. It was validated as a functional enhancer 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 Activating DNase matched - State 5:Enh, candidate strong enhancer, open chromatin). [provided by RefSeq, Jul 2021]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (90598197..90598491)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (88354563..88354857)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (91141429..91141723)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6819 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:90938261-90938762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:90938763-90939262 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6820 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr15:90955563-90956294 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:90957593-90958792 Neighboring gene IQ motif containing GTPase activating protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10077 Neighboring gene MPRA-validated peak2420 silencer Neighboring gene NANOG hESC enhancer GRCh37_chr15:90999383-90999894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10078 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:91054233-91054732 Neighboring gene MPRA-validated peak2421 silencer Neighboring gene MPRA-validated peak2422 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6822 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6821 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6823 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10079 Neighboring gene CREB regulated transcription coactivator 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:91106113-91106613 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6824 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:91126557-91127068 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:91127069-91127580 Neighboring gene uncharacterized LOC124903555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:91137296-91137796 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10080 Neighboring gene uncharacterized LOC124903554 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10081 Neighboring gene CRTC3 antisense RNA 1 Neighboring gene heat shock protein family E (Hsp10) member 1 pseudogene 3

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_075987.1 

    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    90598197..90598491
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    88354563..88354857
    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