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LOC130007193 ATAC-STARR-seq lymphoblastoid silent region 4142 [ Homo sapiens (human) ]

Gene ID: 130007193, updated on 12-Sep-2024

Summary

Gene symbol
LOC130007193
Gene description
ATAC-STARR-seq lymphoblastoid silent region 4142
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 that was validated as a silencer based on its ability to repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

See LOC130007193 in Genome Data Viewer
Location:
chromosome: 12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (3752844..3753343)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (3759419..3759918)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (3862010..3862509)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene protein arginine methyltransferase 8 Neighboring gene thyroid cancer-associated transcript 155 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:3688671-3689170 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3709097-3709922 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3716235-3716736 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3716737-3717236 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3738174-3738805 Neighboring gene calcium release activated channel regulator 2A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3801592-3802218 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4141 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3842402-3843030 Neighboring gene RNA, U6 small nuclear 174, pseudogene Neighboring gene uncharacterized LOC107984495 Neighboring gene poly(ADP-ribose) polymerase family member 11 Neighboring gene OTUD4 pseudogene 1

Genomic regions, transcripts, and products

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_187865.1 

    Range
    101..600
    Download
    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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    3752844..3753343
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    3759419..3759918
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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