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LOC121132697 Sharpr-MPRA regulatory region 13581 [ Homo sapiens (human) ]

Gene ID: 121132697, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121132697
Gene description
Sharpr-MPRA regulatory region 13581
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 16:ElonW, transcriptional elongation, weaker H3K36me3). [provided by RefSeq, Apr 2021]
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Genomic context

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Location:
6q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (85551311..85551605)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (86768117..86768411)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (86261029..86261323)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene TPT1 pseudogene 6 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17366 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24787 Neighboring gene 5'-nucleotidase ecto Neighboring gene ReSE screen-validated silencer GRCh37_chr6:86210956-86211197 Neighboring gene sorting nexin 14 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:86263391-86263890 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:86262889-86263390 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:86302067-86302652 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:86302653-86303236 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:86303237-86303820 Neighboring gene synaptotagmin binding cytoplasmic RNA interacting protein Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17368 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17369 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17370 Neighboring gene pyruvate kinase M1/2 pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See Variation Viewer (GRCh37.p13)

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_074239.1 

    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    85551311..85551605
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    86768117..86768411
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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