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APOB3'MAR APOB 3' scaffold/matrix attachment region [ Homo sapiens (human) ]

Gene ID: 106632268, updated on 10-Oct-2023

Summary

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Gene symbol
APOB3'MAR
Gene description
APOB 3' scaffold/matrix attachment region
Gene type
biological region
Feature type(s)
regulatory: DNase_I_hypersensitive_site, insulator, matrix_attachment_region
repeat_region
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This region represents a portion of an approximately 50 kb DNase I sensitive domain encompassing the apolipoprotein B (APOB) gene. It includes a matrix attachment region (S/MAR) that coincides with a DNase I hypersensitive site and contains over 30 copies of an approximately 15 nt AT-rich hypervariable repeat. There is also an additional DNase I hypersensitive site further upstream in the 3' UTR of APOB. The S/MAR element can confer position-independent expression to a transgene and functions as an insulator in a Drosophila model system. [provided by RefSeq, Oct 2015]
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Genomic context

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See APOB3'MAR in Genome Data Viewer
Location:
2p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (21000401..21001841)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (21033620..21035060)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (21223273..21224713)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr2:20893576-20893760 Neighboring gene lipid droplet associated hydrolase Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:21021737-21022562 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15407 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15408 Neighboring gene long intergenic non-protein coding RNA 2850 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:21211745-21212246 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:21212247-21212746 Neighboring gene APOB 5' regulatory region Neighboring gene apolipoprotein B Neighboring gene Sharpr-MPRA regulatory region 5245 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:21290821-21291609 Neighboring gene uncharacterized LOC124905593 Neighboring gene uncharacterized LOC124908055 Neighboring gene APOB intestinal control region Neighboring gene tudor domain containing 15

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. Human matrix attachment regions are necessary for the establishment but not the maintenance of transgene insulation in Drosophila melanogaster. Namciu SJ, et al. Mol Cell Biol, 2004 Dec. PMID 15542833, Free PMC Article
  2. The effect of matrix attached regions (MAR) and specialized chromatin structure (SCS) on the expression of gene constructs in cultured cells and in transgenic mice. Attal J, et al. Mol Biol Rep, 1995-1996. PMID 8858571
  3. Variant mapping of the Apo(B) AT rich minisatellite. Dependence on nucleotide sequence of the copy number variations. Instability of the non-canonical alleles. Desmarais E, et al. Nucleic Acids Res, 1993 May 11. PMID 8502559, Free PMC Article
  4. A hypervariable region 3' to the human apolipoprotein B gene. Knott TJ, et al. Nucleic Acids Res, 1986 Nov 25. PMID 3786150, Free PMC Article
  5. A unique AT-rich hypervariable minisatellite 3' to the ApoB gene defines a high information restriction fragment length polymorphism. Huang LS, et al. J Biol Chem, 1987 Jul 5. PMID 2885324

See all (14) citations in PubMed

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

  • APOB A/T-rich hypervariable region
  • apolipoprotein B 3' S/MAR
  • apolipoprotein B HVR

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_042877.1 

    Range
    101..1541
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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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    21000401..21001841
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791767.1 Reference GRCh38.p14 PATCHES

    Range
    51069..52509
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    21033620..21035060
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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