U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC130009148 ATAC-STARR-seq lymphoblastoid active region 7294 [ Homo sapiens (human) ]

Gene ID: 130009148, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC130009148
Gene description
ATAC-STARR-seq lymphoblastoid active region 7294
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 LOC130009148 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 (124609472..124609601)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (124614748..124614877)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (125094018..125094147)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene nuclear receptor corepressor 2 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:124997398-124997946 Neighboring gene uncharacterized LOC105370047 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125005559-125006111 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125012056-125013044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125016945-125017877 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125024060-125024769 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125026984-125027517 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125028586-125029120 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7292 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125035807-125036625 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125040245-125041002 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125042521-125043280 Neighboring gene Sharpr-MPRA regulatory region 1212 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5061 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5062 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5063 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5064 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125052750-125053610 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7293 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5065 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125053611-125054471 Neighboring gene Sharpr-MPRA regulatory region 12812 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125077891-125078394 Neighboring gene uncharacterized LOC101927436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125106212-125107104 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125107105-125107998 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:125117605-125118804 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:125120143-125120783 Neighboring gene Sharpr-MPRA regulatory region 4504 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125130641-125131250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125136801-125137314 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125136287-125136800 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_25120 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125158286-125158903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125160065-125160662 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125161261-125161858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7296 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7297 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125169354-125169898 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125169899-125170441 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125172481-125173202 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125179365-125179866 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125197387-125198032 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125198033-125198677 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125215664-125216268 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125216269-125216872 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125218412-125219186 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125219187-125219961 Neighboring gene uncharacterized LOC124903045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7298 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125234102-125234622 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125234623-125235143 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125239799-125240701 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125242645-125243146 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125243147-125243646 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125245231-125245731 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7300 Neighboring gene Sharpr-MPRA regulatory region 2215 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7302 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7303 Neighboring gene MPRA-validated peak2030 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:125268792-125269560 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:125270855-125271355 Neighboring gene uncharacterized LOC124903046 Neighboring gene scavenger receptor class B member 1

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_187594.1 

    Range
    101..230
    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
    124609472..124609601
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    124614748..124614877
    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