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LOC121331335 Sharpr-MPRA regulatory region 6609 [ Homo sapiens (human) ]

Gene ID: 121331335, updated on 12-Sep-2024

Summary

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Gene symbol
LOC121331335
Gene description
Sharpr-MPRA regulatory region 6609
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 was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. It was validated as a functional enhancer by the Sharpr-MPRA technique (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 5:Enh, candidate strong enhancer, open chromatin). [provided by RefSeq, May 2021]
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Genomic context

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See LOC121331335 in Genome Data Viewer
Location:
9q
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (95852627..95852921)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (108023979..108024273)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (98614909..98615203)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376161 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:98534876-98535833 Neighboring gene ERCC6L2 antisense RNA 1 Neighboring gene uncharacterized LOC107987103 Neighboring gene Sharpr-MPRA regulatory region 9073 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28642 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:98596601-98597800 Neighboring gene uncharacterized LOC124902221 Neighboring gene RNA, U2 small nuclear 46, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28643 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28644 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28645 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:98637828-98638702 Neighboring gene ERCC excision repair 6 like 2 Neighboring gene RNA, 5S ribosomal pseudogene 289

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. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, 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_074359.1 

    Range
    101..395
    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    95852627..95852921
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    108023979..108024273
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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