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LOC121466725 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125035807-125036625 [ Homo sapiens (human) ]

Gene ID: 121466725, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121466725
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125035807-125036625
Gene type
biological region
Feature type(s)
regulatory: enhancer, 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. The major subregion was validated as an active enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. A subregion was also validated as a functional enhancer by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 5:Enh, candidate strong enhancer, open chromatin). Another subregion was validated as a functional repressive element by Sharpr-MPRA in K562 cells (group: K562 Repressive DNase matched - State 5:Enh, candidate strong enhancer, open chromatin). [provided by RefSeq, Nov 2022]
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Genomic context

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Location:
12q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (124551183..124552079)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (124556488..124557384)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (125036209..125036503)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene nuclear receptor corepressor 2 Neighboring gene uncharacterized LOC124903044 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124911835-124912374 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124912375-124912913 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124917723-124918330 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124917115-124917722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7285 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124924007-124924726 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124924727-124925447 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124937508-124938346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5058 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5059 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124947144-124947710 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124947711-124948278 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7287 Neighboring gene conserved acetylation island sequence 32 enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5060 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124963398-124963907 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124964417-124964926 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124964927-124965434 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7289 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7288 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124975405-124975905 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124979536-124980495 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:124980496-124981454 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr12:124988989-124990188 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124992013-124992598 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:124992911-124993125 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124993187-124993772 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124996849-124997397 Neighboring gene uncharacterized LOC105370047 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124997398-124997946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125005559-125006111 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125012056-125013044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125016945-125017877 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125024060-125024769 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125026984-125027517 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125028586-125029120 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7292 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125040245-125041002 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125042521-125043280 Neighboring gene Sharpr-MPRA regulatory region 1212 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5061 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5062 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5063 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5064 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5065 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7293 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125052750-125053610 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125053611-125054471 Neighboring gene Sharpr-MPRA regulatory region 12812 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125077891-125078394 Neighboring gene uncharacterized LOC101927436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7294 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125106212-125107104 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125107105-125107998 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:125117605-125118804 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:125120143-125120783 Neighboring gene Sharpr-MPRA regulatory region 4504 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125130641-125131250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125136801-125137314 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125136287-125136800 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_25120 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125158286-125158903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125160065-125160662 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125161261-125161858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7296 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7297 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125169899-125170441 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125169354-125169898 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125172481-125173202 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125179365-125179866 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125197387-125198032 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125198033-125198677 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125215664-125216268 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125216269-125216872 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125218412-125219186 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125219187-125219961 Neighboring gene uncharacterized LOC124903045

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
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, 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)

General gene information

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Other Names

  • Sharpr-MPRA regulatory region 4202
  • Sharpr-MPRA regulatory region 979

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_074658.2 

    Range
    101..997
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    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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    124551183..124552079
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    124556488..124557384
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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