U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC129998575 ATAC-STARR-seq lymphoblastoid active region 26115 [ Homo sapiens (human) ]

Gene ID: 129998575, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC129998575
Gene description
ATAC-STARR-seq lymphoblastoid active region 26115
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 LOC129998575 in Genome Data Viewer
Location:
chromosome: 7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (70903988..70904047)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (72127673..72127732)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (70368974..70369033)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene activator of transcription and developmental regulator AUTS2 Neighboring gene uncharacterized LOC105375347 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26112 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18234 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70227272-70227983 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18235 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:70300982-70302181 Neighboring gene neuroepithelial cell transforming 1 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70303269-70304021 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_99892 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:70323140-70324089 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70334305-70334806 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70349989-70350672 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70349305-70349988 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26113 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26114 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70357656-70358422 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70359189-70359954 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70359955-70360720 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70372487-70372988 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70372989-70373488 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:70399984-70400486 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70704063-70704563 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70720332-70720840 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70720841-70721350 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 17 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70849771-70850414 Neighboring gene NANOG hESC enhancer GRCh37_chr7:70854822-70855327 Neighboring gene microRNA 3914-1 Neighboring gene microRNA 3914-2 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:70867825-70868017 Neighboring gene NANOG hESC enhancer GRCh37_chr7:70918079-70918580 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:70921486-70922344 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70922345-70923203 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:70930681-70931567 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:70929793-70930680 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70939578-70940457 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70942936-70943436 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70943437-70943937 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70945609-70946361 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:70946362-70947113 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70954147-70954866 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70954867-70955585 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:70955586-70956304 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:71112201-71112702 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:71147425-71148210 Neighboring gene RN7SK pseudogene 75

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_178021.1 

    Range
    101..160
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    70903988..70904047
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    72127673..72127732
    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