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LOC130005047 ATAC-STARR-seq lymphoblastoid active region 4260 [ Homo sapiens (human) ]

Gene ID: 130005047, updated on 12-Sep-2024

Summary

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Gene symbol
LOC130005047
Gene description
ATAC-STARR-seq lymphoblastoid active region 4260
Gene type
biological region
Feature type(s)
regulatory: enhancer
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 an enhancer based on its ability to activate 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

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See LOC130005047 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (308057..308476)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (349291..349710)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (308057..308476)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4259 Neighboring gene interferon induced transmembrane protein 5 Neighboring gene mitochondrial ribosomal protein S24 pseudogene 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:305823-306334 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4261 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4262 Neighboring gene interferon induced transmembrane protein 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:311550-312155 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:313425-313980 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:313981-314536 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4264 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4265 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2994 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2995 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2996 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4266 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:316761-317316 Neighboring gene interferon induced transmembrane protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4267 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:318431-318986 Neighboring gene uncharacterized LOC105376505 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:318987-319542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:320655-321210 Neighboring gene interferon induced transmembrane protein 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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)

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_184492.1 

    Range
    101..520
    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    308057..308476
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    349291..349710
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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