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LOC129660504 ReSE screen-validated silencer GRCh37_chr1:225900316-225900482 [ Homo sapiens (human) ]

Gene ID: 129660504, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129660504
Gene description
ReSE screen-validated silencer GRCh37_chr1:225900316-225900482
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 K562 erythroleukemia cells. [provided by RefSeq, Apr 2023]
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Genomic context

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See LOC129660504 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (225712614..225712780)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (224900626..224900792)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (225900316..225900482)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225643575-225644075 Neighboring gene Sharpr-MPRA regulatory region 13241 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225648195-225648876 Neighboring gene long intergenic non-protein coding RNA 2765 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225653249-225654138 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2624 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2625 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2626 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225660151-225660670 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225660671-225661190 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1857 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2627 Neighboring gene uncharacterized LOC124904526 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:225696090-225697289 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225704628-225705150 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225705151-225705671 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225706601-225707102 Neighboring gene ENAH actin regulator Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225736695-225737194 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225749625-225750126 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_5624 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:225802428-225803258 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1858 Neighboring gene uncharacterized LOC102723834 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:225887458-225888657 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:225897976-225899175 Neighboring gene uncharacterized LOC107985352 Neighboring gene RNA, U6 small nuclear 1304, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:225938191-225938690 Neighboring gene uncharacterized LOC124904527

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_157541.1 

    Range
    101..267
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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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    225712614..225712780
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    224900626..224900792
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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