U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC129999374 ATAC-STARR-seq lymphoblastoid active region 26677 [ Homo sapiens (human) ]

Gene ID: 129999374, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC129999374
Gene description
ATAC-STARR-seq lymphoblastoid active region 26677
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 LOC129999374 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 (131522798..131522897)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (132840394..132840493)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (131207557..131207656)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene muskelin 1 Neighboring gene uncharacterized LOC124901747 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:131070963-131071136 Neighboring gene MPRA-validated peak6726 silencer Neighboring gene NANOG hESC enhancer GRCh37_chr7:131123760-131124261 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131190418-131191332 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18662 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131198033-131198892 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:131202395-131202894 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131214845-131215344 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131220834-131221758 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131229138-131229981 Neighboring gene ribosomal protein L31 pseudogene 36 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131235953-131236460 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131236969-131237476 Neighboring gene podocalyxin like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18663 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18664 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131241775-131242322 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131266468-131267072 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:131269032-131269532 Neighboring gene MPRA-validated peak6728 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131277274-131277774 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131289409-131290262 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131290263-131291118 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131291119-131291972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131305309-131305854 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131308691-131309358 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131309359-131310024 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131323052-131323648 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131333987-131334690 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131337191-131337758 Neighboring gene Sharpr-MPRA regulatory regions 8940 and 15248 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131340839-131341390 Neighboring gene eukaryotic translation elongation factor 1 beta 2 pseudogene 6 Neighboring gene ribosomal protein S14 pseudogene 10

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_178820.1 

    Range
    101..200
    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
    131522798..131522897
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    132840394..132840493
    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