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LOC108169209 ZCCHC7 intron homotypic cluster of transcription factor binding sites enhancer [ Homo sapiens (human) ]

Gene ID: 108169209, updated on 10-Oct-2023

Summary

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Gene symbol
LOC108169209
Gene description
ZCCHC7 intron homotypic cluster of transcription factor binding sites enhancer
Gene type
biological region
Feature type(s)
misc_feature: conserved_region
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 is located in an intron of the ZCCHC7 (zinc finger CCHC-type containing 7) gene. It was identified as a homotypic cluster of transcription factor binding sites (HCT) based on the presence of multiple binding motifs for POU3F2 (POU class 3 homeobox 2). This HCT was validated as a functional enhancer in transgenic reporter assays in zebrafish. [provided by RefSeq, Jun 2016]
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Genomic context

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See LOC108169209 in Genome Data Viewer
Location:
9p13.2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (37213355..37214554)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (37237027..37238226)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (37213352..37214551)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376034 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28378 Neighboring gene zinc finger CCHC-type containing 7 Neighboring gene NANOG hESC enhancer GRCh37_chr9:37149770-37150271 Neighboring gene uncharacterized LOC105376033 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:37184571-37185145 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28379 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28380 Neighboring gene Sharpr-MPRA regulatory region 4584 Neighboring gene NANOG hESC enhancer GRCh37_chr9:37226199-37226700 Neighboring gene Sharpr-MPRA regulatory region 4537 Neighboring gene VISTA enhancer hs901 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28382 Neighboring gene RNA, U6 small nuclear 677, pseudogene Neighboring gene uncharacterized LOC124902153 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28383 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28384 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28386 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28387 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:37385483-37385983 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28388 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28389 Neighboring gene long intergenic non-protein coding RNA 1627

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. Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers. Gotea V, et al. Genome Res, 2010 May. PMID 20363979, 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

  • POU3F2 HCT enhancer

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_050907.1 

    Range
    101..1300
    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
    37213355..37214554
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    37237027..37238226
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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