U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC129929373 ATAC-STARR-seq lymphoblastoid active region 151 [ Homo sapiens (human) ]

Gene ID: 129929373, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC129929373
Gene description
ATAC-STARR-seq lymphoblastoid active region 151
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 LOC129929373 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (10495429..10495488)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (10039036..10039095)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (10555486..10555545)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene CENPS-CORT readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid active region 149 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10534116-10535081 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 247 Neighboring gene cortistatin Neighboring gene Sharpr-MPRA regulatory region 5895 Neighboring gene DNA fragmentation factor subunit alpha Neighboring gene ATAC-STARR-seq lymphoblastoid active region 152 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 153 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10568725-10569413 Neighboring gene peroxisomal biogenesis factor 14 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:10588102-10589301 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10601005-10601548 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10616013-10616674 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 248 Neighboring gene Sharpr-MPRA regulatory region 3136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10654141-10654658 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10654659-10655176 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10662571-10663072 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10663073-10663572 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10675589-10676274 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10676275-10676958 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10678456-10679010 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10682167-10682666 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:10683990-10685189 Neighboring gene RNA, 7SL, cytoplasmic 614, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10693091-10694054 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10695017-10695979 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10706359-10706864 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10715263-10715920 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10720335-10720845 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10719824-10720334 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10724469-10725217 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10725218-10725965 Neighboring gene castor zinc finger 1 Neighboring gene VISTA enhancer hs289 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10735694-10736484 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10736485-10737273 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10738853-10739642 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10739643-10740432 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10746179-10746778 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10746779-10747379 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 249 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 250 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 251 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 252 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10761480-10761980 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10763789-10764710 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10764711-10765633 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10765634-10766555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10772353-10772897 Neighboring gene VISTA enhancer hs389 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10787641-10788438 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:10788439-10789235 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 253 Neighboring gene VISTA enhancer hs2094 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:10804287-10805486 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10805585-10806508 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:10814763-10814950 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10821512-10822012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10822013-10822513 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10845108-10845670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:10845671-10846231 Neighboring gene VISTA enhancer hs408

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_162430.1 

    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    10495429..10495488
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    10039036..10039095
    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