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LOC114004407 Sharpr-MPRA regulatory region 11620 [ Homo sapiens (human) ]

Gene ID: 114004407, updated on 10-Oct-2023

Summary

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Gene symbol
LOC114004407
Gene description
Sharpr-MPRA regulatory region 11620
Gene type
biological region
Feature type(s)
regulatory: silencer
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 repressive element 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 Repressive non-DNase unmatched - State 22:ReprW, weaker Polycomb repression). [provided by RefSeq, Jan 2019]
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Genomic context

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See LOC114004407 in Genome Data Viewer
Location:
7q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (158524377..158524671)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (159733738..159734032)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (158317069..158317363)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene protein tyrosine phosphatase receptor type N2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157666565-157667400 Neighboring gene PTPRN2 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157679661-157680178 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157689624-157690124 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_97987 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:157725255-157726454 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr7:157748173-157748781 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:157763321-157763527 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157775009-157775954 Neighboring gene uncharacterized LOC105375613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157782013-157782612 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157783813-157784412 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157783213-157783812 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157791993-157792738 Neighboring gene NANOG hESC enhancer GRCh37_chr7:157792768-157793272 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157799559-157800539 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157800540-157801519 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157802753-157803315 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157808367-157809026 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157809027-157809686 Neighboring gene Sharpr-MPRA regulatory region 9999 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:157843588-157843764 Neighboring gene MPRA-validated peak6878 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157859561-157860514 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157870087-157870586 Neighboring gene Sharpr-MPRA regulatory region 5343 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157903511-157904242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157904657-157905158 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157926052-157926594 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157929890-157930772 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157935377-157936298 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr7:157940629-157941180 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:157941181-157941730 Neighboring gene D7S22 minisatellite repeat instability region Neighboring gene ReSE screen-validated silencer GRCh37_chr7:157954594-157954842 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:157957089-157957613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:157987247-157987747 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158030483-158031396 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158037992-158038492 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158053060-158053970 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158069190-158069934 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158073864-158074606 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158075350-158076092 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158103424-158103936 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158108910-158109661 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158109662-158110412 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158110413-158111164 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158118125-158119111 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:158122041-158122238 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:158127303-158127803 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:158134077-158134576 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:158134599-158135798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158142965-158143559 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158144749-158145341 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:158166900-158168099 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158190023-158190630 Neighboring gene MPRA-validated peak6880 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158207355-158207879 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158206830-158207354 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:158230280-158230780 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:158261913-158262077 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_98034 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158289893-158290448 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158292995-158293940 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158300949-158301460 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158320163-158320663 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158319662-158320162 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158322953-158323722 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158323723-158324491 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158330775-158331759 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158342742-158343550 Neighboring gene MPRA-validated peak6883 silencer Neighboring gene uncharacterized LOC124901793 Neighboring gene Sharpr-MPRA regulatory region 10119 Neighboring gene microRNA 595

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. Toward a complete human genome sequence. Sanger Center, et al. Genome Res, 1998 Nov. PMID 9847074
  2. 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 variants in ClinVar

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_063907.1 

    Range
    101..395
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    158524377..158524671
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    159733738..159734032
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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