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LOC108491827 LAMC3 intron enhancer-blocking element 9-2 [ Homo sapiens (human) ]

Gene ID: 108491827, updated on 10-Oct-2023

Summary

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Gene symbol
LOC108491827
Gene description
LAMC3 intron enhancer-blocking element 9-2
Gene type
biological region
Feature type(s)
regulatory: enhancer_blocking_element
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 is located in an intron of the LAMC3 (laminin subunit gamma 3) gene on chromosome 9. It was identified as a putative enhancer-blocking chromatin insulator based on strong CTCF association by ChIP-seq analysis in K562 erythroleukemia cells. It was validated as a functional enhancer-blocking element based on its ability to block activity of an enhancer when positioned between the enhancer and a promoter in a lentiviral reporter assay. [provided by RefSeq, Aug 2016]
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Genomic context

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See LOC108491827 in Genome Data Viewer
Location:
9q34.12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (131057958..131058172)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (143266182..143266396)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (133933345..133933559)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene fibrinogen C domain containing 1 Neighboring gene Sharpr-MPRA regulatory region 15615 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:133818700-133818873 Neighboring gene FIBCD1 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:133822337-133822542 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:133835976-133836150 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:133837863-133838450 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:133838451-133839037 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133856871-133857391 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133861291-133862162 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133870475-133871031 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20410 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29169 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133887620-133888188 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133888189-133888756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133888757-133889324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133892018-133892589 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:133894433-133894620 Neighboring gene uncharacterized LOC124900284 Neighboring gene laminin subunit gamma 3 Neighboring gene LAMC3 intron enhancer-blocking element 9-5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133925447-133925947 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:133927058-133928257 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133933565-133934066 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133944345-133944854 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133954421-133954984 Neighboring gene uncharacterized LOC124902289 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133967720-133968318 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133968319-133968915 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133969713-133970214 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133972255-133972754 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133976923-133977473 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133977739-133978658 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133983561-133984060 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133985267-133985946 Neighboring gene allograft inflammatory factor 1 like

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. Identification and characterization of enhancer-blocking insulators to reduce retroviral vector genotoxicity. Groth AC, et al. PLoS One, 2013. PMID 24098520, Free PMC Article
  2. Widespread plasticity in CTCF occupancy linked to DNA methylation. Wang H, et al. Genome Res, 2012 Sep. PMID 22955980, 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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Other Names

  • chromatin insulator 9-2

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_051346.1 

    Range
    101..315
    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    131057958..131058172
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    143266182..143266396
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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