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LOC121175356 Sharpr-MPRA regulatory region 3063 [ Homo sapiens (human) ]

Gene ID: 121175356, updated on 10-Oct-2023

Summary

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Gene symbol
LOC121175356
Gene description
Sharpr-MPRA regulatory region 3063
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 both HepG2 liver carcinoma cells (group: HepG2 Activating DNase matched - State 8:EnhW, candidate weak enhancer and open chromatin) and K562 erythroleukemia cells (group: K562 Activating non-DNase unmatched - State 14:Gen5', transcription transition, highly expressed genes towards 5' end). [provided by RefSeq, Apr 2021]
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Genomic context

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Location:
7q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (102134409..102134703)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (103451298..103451592)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (101777689..101777983)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101241532-101242460 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101242461-101243388 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18486 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101257215-101258142 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101258143-101259071 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101259072-101259999 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101262113-101262652 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101262653-101263192 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101267192-101268119 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:7310423-7310940 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:7309904-7310422 Neighboring gene myosin light chain 10 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18487 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101342297-101342944 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101349551-101349730 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101376622-101377520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26408 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101386177-101387120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101387749-101388269 Neighboring gene NANOG hESC enhancer GRCh37_chr7:101447145-101447694 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18490 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18489 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:101459162-101460090 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18493 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18494 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18495 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18496 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101464366-101465068 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101467637-101468199 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101475068-101475709 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26410 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101504139-101504852 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101520321-101521126 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101526861-101527028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26411 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18497 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101533527-101534237 Neighboring gene cut like homeobox 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101539092-101539592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101539593-101540093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101543621-101544120 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101578689-101579260 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101578117-101578688 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101579261-101579832 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101579833-101580404 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101583727-101584614 Neighboring gene Sharpr-MPRA regulatory region 4286 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101585503-101586390 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:101595769-101596968 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101621873-101622514 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26413 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26414 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101628325-101629237 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:101630224-101631423 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101632213-101633022 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26417 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101641118-101641805 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101641806-101642492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26418 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101679949-101680151 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26419 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101707086-101707802 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101711090-101711280 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:101740358-101741557 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101738967-101739478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101744257-101744758 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101744759-101745258 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101745526-101746202 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101746203-101746878 Neighboring gene Sharpr-MPRA regulatory region 1808 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:101762457-101762956 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101766794-101767020 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101768501-101769053 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:101793464-101793605 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101796109-101796814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101806365-101807260 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101807261-101808154 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101812271-101812822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:101812823-101813373 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:101821837-101822337 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:101841732-101842931 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26420 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18498 Neighboring gene uncharacterized LOC124901711

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 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_074288.1 

    Range
    101..395
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    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
    102134409..102134703
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    103451298..103451592
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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