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LOC130060136 ATAC-STARR-seq lymphoblastoid silent region 8110 [ Homo sapiens (human) ]

Gene ID: 130060136, updated on 12-Sep-2024

Summary

Gene symbol
LOC130060136
Gene description
ATAC-STARR-seq lymphoblastoid silent region 8110
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 represents an accessible chromatin region that was validated as a silencer based on its ability to repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

See LOC130060136 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (7350211..7350350)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (7254197..7254336)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (7253530..7253669)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11611 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8107 Neighboring gene G protein pathway suppressor 2 Neighboring gene neuralized E3 ubiquitin protein ligase 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:7226660-7227166 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:7227167-7227672 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:7231927-7232586 Neighboring gene Sharpr-MPRA regulatory region 1992 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11614 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11615 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7239291-7240052 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7240053-7240814 Neighboring gene ArfGAP with coiled-coil, ankyrin repeat and PH domains 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11616 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11617 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8111 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8112 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8113 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7258016-7258542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7258543-7259069 Neighboring gene potassium channel tetramerization domain containing 11 Neighboring gene transmembrane protein 95

Genomic regions, transcripts, and products

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_194557.1 

    Range
    101..240
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    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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    7350211..7350350
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_021160020.1 Reference GRCh38.p14 PATCHES

    Range
    108576..108715
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    7254197..7254336
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    GenBank, FASTA, Sequence Viewer (Graphics)