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LOC109245079 FGF19 upstream enhancer [ Homo sapiens (human) ]

Gene ID: 109245079, updated on 14-Mar-2024

Summary

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Gene symbol
LOC109245079
Gene description
FGF19 upstream enhancer
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 region represents a conserved enhancer located approximately 17 kb upstream of the fibroblast growth factor 19 gene. A subregion can drive expression of a reporter transgene in the developing nervous system. Another subregion was also validated as an enhancer by the ChIP-STARR-seq massively parallel reporter assay in naive and primed human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K4me1 histone modification. [provided by RefSeq, Jan 2023]
Orthologs
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Genomic context

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Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (69720829..69721720)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (69737731..69738625)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (69535739..69536488)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3697 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:69489913-69490413 Neighboring gene LTO1 maturation factor of ABCE1 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:69500700-69500870 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:69503328-69504527 Neighboring gene Sharpr-MPRA regulatory region 8818 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69515109-69516061 Neighboring gene FGF19 5' regulatory region Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69521101-69521730 Neighboring gene fibroblast growth factor 19 Neighboring gene MPRA-validated peak1327 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69555555-69556140 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69556141-69556725 Neighboring gene DNAJB6 pseudogene 5 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69565172-69565761 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69565762-69566352 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69579027-69580027 Neighboring gene FGF4 3' enhancer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69588083-69589008 Neighboring gene FGF4 promoter region Neighboring gene fibroblast growth factor 4

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. Analysis of Fibroblast growth factor 15 cis-elements reveals two conserved enhancers which are closely related to cardiac outflow tract development. Saitsu H, et al. Mech Dev, 2006 Sep. PMID 16930954
  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 variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Homology

Other Names

  • NANOG-H3K4me1 hESC enhancer GRCh37_chr11:69535597-69536248

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_052548.2 

    Range
    101..992
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    69720829..69721720
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    69737731..69738625
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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