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LOC106799845 nonconserved acetylation island sequence 106 enhancer [ Homo sapiens (human) ]

Gene ID: 106799845, updated on 10-Oct-2023

Summary

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Gene symbol
LOC106799845
Gene description
nonconserved acetylation island sequence 106 enhancer
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 region, which is not conserved between human and mouse at the sequence level, can function as an enhancer in human Jurkat T cells. Its chromatin structure represents a histone acetylation island in human T cells based on the diacetylation of histone H3 at lysines 9 and 14. A subregion was also shown to be an enhancer by the ChIP-STARR-seq massively parallel reporter assay in primed human embryonic stem cells, where it is marked by the H3K4me1 histone modification. An accessible chromatin subregion was used in a lentiviral ReSE (repressive ability of silencer elements) screen that assays for cell survival based on transcriptional repression of an apoptosis-inducing fusion protein. That subregion was identified as a functional silencer in K562 erythroleukemia cells. [provided by RefSeq, Jun 2023]
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Genomic context

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See LOC106799845 in Genome Data Viewer
Location:
7p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (2507761..2508616)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (2621203..2622058)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (2547395..2548250)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17870 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17871 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25529 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25530 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25531 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25532 Neighboring gene carbohydrate sulfotransferase 12 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2471770-2472662 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2472663-2473554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2482261-2482761 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:2488098-2488281 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2490871-2491526 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2491527-2492180 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2510727-2511330 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2513557-2514102 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17873 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2518193-2518788 Neighboring gene galectin-related inter-fiber protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2526820-2527704 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2534319-2535080 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2538982-2539948 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2539949-2540914 Neighboring gene uncharacterized LOC107986759 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17874 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17875 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17876 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25533 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25534 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2562611-2563123 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2568003-2568977 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2568978-2569951 Neighboring gene LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25535 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:2570927-2571899 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:2573085-2574005 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:2574006-2574925 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2575635-2576136 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:2576137-2576636 Neighboring gene microRNA 4648 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:2586847-2587013 Neighboring gene uncharacterized LOC124901849 Neighboring gene BRCA1 associated ATM activator 1

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-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns. Roh TY, et al. Genome Res, 2007 Jan. PMID 17135569, Free PMC Article
  2. Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping. Roh TY, et al. Genes Dev, 2005 Mar 1. PMID 15706033, Free PMC Article
  3. Toward a complete human genome sequence. Sanger Center, et al. Genome Res, 1998 Nov. PMID 9847074
  4. Systematic identification of silencers in human cells. Pang B, et al. Nat Genet, 2020 Mar. PMID 32094911, Free PMC Article
  5. 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

  • H3K4me1 hESC enhancer GRCh37_chr7:2547597-2548124
  • ReSE screen-validated silencer GRCh37_chr7:2547770-2547923
  • non-conserved AI 106

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_046146.1 

    Range
    101..956
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    2507761..2508616
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    2621203..2622058
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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