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LOC127891453 H3K4me1 hESC enhancer GRCh37_chr19:39087374-39087874 [ Homo sapiens (human) ]

Gene ID: 127891453, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127891453
Gene description
H3K4me1 hESC enhancer GRCh37_chr19:39087374-39087874
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 region was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay in naive human embryonic stem cells. This enhancer is marked by the H3K4me1 histone modification. A genetic variant at this locus, rs142550499, may be associated with coronavirus disease 2019 (COVID-19) hospitalization. [provided by RefSeq, Dec 2022]
Annotation information
Note: This locus has been reviewed for its involvement in coronavirus biology, and is locus in the vicinity of disease-associated variant(s).
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Genomic context

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See LOC127891453 in Genome Data Viewer
Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (38596734..38597234)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (41400710..41401210)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (39087374..39087874)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38917687-38918201 Neighboring gene MPRA-validated peak3471 silencer Neighboring gene family with sequence similarity 98 member C Neighboring gene RAS guanyl releasing protein 4 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10575 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38925085-38925660 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:38932363-38932538 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38932982-38933942 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38943427-38943954 Neighboring gene MPRA-validated peak3472 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38953733-38954234 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38954745-38955341 Neighboring gene ryanodine receptor 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:38969337-38969680 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38986475-38987366 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr19:38995830-38997029 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10576 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14572 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14573 Neighboring gene uncharacterized LOC124904710 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14574 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14575 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14576 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10577 Neighboring gene MPRA-validated peak3473 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39070191-39070692 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14578 Neighboring gene MAP4K1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39098110-39098610 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39098611-39099111 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39103339-39103839 Neighboring gene mitogen-activated protein kinase kinase kinase kinase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14579 Neighboring gene NANOG hESC enhancer GRCh37_chr19:39112860-39113720 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39114367-39114868 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:39121815-39122606 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:39122654-39123853 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39125282-39126240 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39127485-39128424 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39130305-39131243 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10578 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10579 Neighboring gene Sharpr-MPRA regulatory region 11915 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:39139812-39140010 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14582 Neighboring gene eukaryotic translation initiation factor 3 subunit K Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39142765-39143374 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39143375-39143983 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:39144522-39145390 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:39145391-39146259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10580 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:39148471-39149116 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39150898-39151588 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39155729-39156418 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39156419-39157108 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39157109-39157798 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14583 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14584 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14585 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14587 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:39168839-39169424 Neighboring gene actinin alpha 4 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39173979-39174762 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14590 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39184359-39184950 Neighboring gene uncharacterized LOC107985291 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39193145-39193645 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39195255-39196024 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:39198444-39199230 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39208396-39209241 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:39209276-39209996 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39217269-39218152

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. A year of COVID-19 GWAS results from the GRASP portal reveals potential genetic risk factors. Thibord F, et al. HGG Adv, 2022 Apr 14. PMID 35224516, Free PMC Article
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

NCBI Reference Sequences (RefSeq)

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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_141318.1 

    Range
    101..601
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    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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    38596734..38597234
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_014040929.1 Reference GRCh38.p14 PATCHES

    Range
    6370..6870
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    41400710..41401210
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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