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STAG3L5P-PVRIG2P-PILRB STAG3L5P-PVRIG2P-PILRB readthrough [ Homo sapiens (human) ]

Gene ID: 101752399, updated on 10-Oct-2023

Summary

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Official Symbol
STAG3L5P-PVRIG2P-PILRBprovided by HGNC
Official Full Name
STAG3L5P-PVRIG2P-PILRB readthroughprovided by HGNC
Primary source
HGNC:HGNC:48898
See related
Ensembl:ENSG00000272752 AllianceGenome:HGNC:48898
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PILRB; FDFACT; LOC101735302-LOC101752334-PILRB
Summary
This locus represents naturally occurring readthrough transcription among the neighboring LOC101735302 (stromal antigen 3 pseudogene), LOC101752334 (poliovirus receptor related immunoglobulin domain containing pseudogene) and PILRB (paired immunoglobin-like type 2 receptor beta) genes on chromosome 7. The readthrough transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is unlikely to produce a protein product. [provided by RefSeq, Jun 2013]
Expression
Ubiquitous expression in testis (RPKM 49.6), spleen (RPKM 33.6) and 25 other tissues See more
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Genomic context

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See STAG3L5P-PVRIG2P-PILRB in Genome Data Viewer
Location:
7q22.1
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (100336065..100367831)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101576150..101607910)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99933688..99965454)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene CASTOR family member 3, pseudogene Neighboring gene uncharacterized LOC105375426 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99866902-99867424 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99867949-99868470 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18427 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18428 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18429 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:99886514-99886677 Neighboring gene speedy/RINGO cell cycle regulator family member E3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:99932790-99933668 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18430 Neighboring gene PMS1 homolog 2, mismatch repair system component pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26355 Neighboring gene STAG3 cohesin complex component like 5, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26358 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26356 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26357 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26359 Neighboring gene PVR related immunoglobulin domain containing 2, pseudogene Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99968027-99968778 Neighboring gene microRNA 6840 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26360 Neighboring gene paired immunoglobin like type 2 receptor beta Neighboring gene paired immunoglobin like type 2 receptor alpha Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26361 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99995395-99995894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26362 Neighboring gene zinc finger CW-type and PWWP domain containing 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18431 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26363

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Comparative analysis of the paired immunoglobulin-like receptor (PILR) locus in six mammalian genomes: duplication, conversion, and the birth of new genes. Wilson MD, et al. Physiol Genomics, 2006 Nov 27. PMID 16926269
  2. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  3. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. Comuzzie AG, et al. PLoS One, 2012. PMID 23251661, Free PMC Article
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Other Names

  • Activating receptor PILR-beta
  • Cell surface receptor FDFACT
  • LOC101735302-LOC101752334-PILRB readthrough
  • Paired immunoglobulin-like type 2 receptor beta

Clone Names

  • FLJ00091, FLJ17394, FLJ31850, FLJ56224, DKFZp434F086, DKFZp434O079

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.

RNA

  1. NR_036569.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AA908333, AK056412, BC050547, DB275512
    Related
    ENST00000310771.8

  2. NR_036570.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences and is shorter than variant 1.
    Source sequence(s)
    AA908333, AL834317, BC050547, DB275512
    Related
    ENST00000444874.5

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
    100336065..100367831
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    101576150..101607910
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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