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LOC129664886 ReSE screen-validated silencer GRCh37_chr22:48580642-48580843 [ Homo sapiens (human) ]

Gene ID: 129664886, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129664886
Gene description
ReSE screen-validated silencer GRCh37_chr22:48580642-48580843
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 represents an accessible chromatin region 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. This region was identified as a functional silencer in phorbol 12-myristate 13-acetate-treated (for megakaryocytic differentiation) K562 erythroleukemia cells. [provided by RefSeq, Apr 2023]
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Genomic context

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See LOC129664886 in Genome Data Viewer
Location:
chromosome: 22
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (48184830..48185031)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (48677615..48677816)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (48580642..48580843)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124905150 Neighboring gene MPRA-validated peak4509 silencer Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr22:48479499-48480083 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr22:48480084-48480668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19270 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19271 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19274 Neighboring gene uncharacterized LOC107985536 Neighboring gene ReSE screen-validated silencer GRCh37_chr22:48498183-48498415 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19275 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48541592-48542324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48548671-48549462 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48552617-48553118 Neighboring gene uncharacterized LOC107985581 Neighboring gene MPRA-validated peak4510 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:48634595-48635478 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:48635479-48636360 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:48636361-48637242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48640140-48640640 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48649439-48649939 Neighboring gene meiotic recombination hotspot 22A Neighboring gene microRNA 3201 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48698875-48699374 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48698373-48698874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48700689-48701192 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48701193-48701696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48701697-48702200 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48704048-48704548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48708440-48709077 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr22:48709078-48709714 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:48719315-48719816 Neighboring gene uncharacterized LOC105373080

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. Systematic identification of silencers in human cells. Pang B, et al. Nat Genet, 2020 Mar. PMID 32094911, 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 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_161923.1 

    Range
    101..302
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    48184830..48185031
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    48677615..48677816
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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