U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC129932984 ATAC-STARR-seq lymphoblastoid active region 15220 [ Homo sapiens (human) ]

Gene ID: 129932984, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC129932984
Gene description
ATAC-STARR-seq lymphoblastoid active region 15220
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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC129932984 in Genome Data Viewer
Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (2758013..2758272)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (2768724..2768983)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (2761785..2762044)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373389 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11105 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:2530602-2531801 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2569029-2569986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2641129-2641629 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2650988-2651602 Neighboring gene uncharacterized LOC107985839 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2660703-2661676 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2665611-2666112 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2668465-2669157 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2700169-2700670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2700671-2701170 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2706918-2707875 Neighboring gene uncharacterized LOC105373390 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr2:2775469-2775986 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2792619-2793223 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2792014-2792618 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2791409-2792013 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2796071-2796790 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2796791-2797509 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:2841318-2841951 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr2:2845889-2846419 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:2854499-2855406 Neighboring gene uncharacterized LOC124905968 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11106 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11107 Neighboring gene long intergenic non-protein coding RNA 1250 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:2952587-2953786 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_58239 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:3034172-3035371 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:3038327-3038874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:3066843-3067343 Neighboring gene small nucleolar RNA U13

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_166009.1 

    Range
    101..360
    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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    2758013..2758272
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    2768724..2768983
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases