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SMG1P3 SMG1 pseudogene 3 [ Homo sapiens (human) ]

Gene ID: 100271836, updated on 17-Sep-2024

Summary

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Official Symbol
SMG1P3provided by HGNC
Official Full Name
SMG1 pseudogene 3provided by HGNC
Primary source
HGNC:HGNC:49860
See related
Ensembl:ENSG00000180747 AllianceGenome:HGNC:49860
Gene type
pseudo
RefSeq status
PROVISIONAL
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in bone marrow (RPKM 29.2), lymph node (RPKM 14.7) and 24 other tissues See more
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Genomic context

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See SMG1P3 in Genome Data Viewer
Location:
16p12.2
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (21446683..21502281, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (21381723..21437007, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (21458004..21513602, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene nuclear pore complex interacting protein family member B3 Neighboring gene uncharacterized LOC100190986 Neighboring gene small nucleolar RNA U13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:21503231-21503732 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:21512787-21513303 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21513304-21513819 Neighboring gene uncharacterized LOC124903662 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21513820-21514336 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43023 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21520603-21521153 Neighboring gene microRNA 3680-1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21522758-21523594 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21523595-21524430 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:21526656-21527164 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:21529065-21529231 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21531393-21532126 Neighboring gene solute carrier family 7 member 5 pseudogene 2

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 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. Up-regulated expression of a novel gene in activated human peripheral blood mononuclear cells that is a truncated paralog of the human system L-amino acid transporter 1. Ito M, et al. Int J Biochem Cell Biol, 2002 Sep. PMID 12009310
  2. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. Choudhury NR, et al. BMC Biol, 2017 Nov 8. PMID 29117863, Free PMC Article
  3. VIRMA mediates preferential m(6)A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. Yue Y, et al. Cell Discov, 2018. PMID 29507755, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Other Names

  • SMG1P3, nonsense mediated mRNA decay associated PI3K related kinase pseudogene 3
  • smg-1 homolog, phosphatidylinositol 3-kinase-related kinase pseudogene

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_027155.2 RNA Sequence

    Status: PROVISIONAL

    Source sequence(s)
    AC005632, AC008740
    Related
    ENST00000522480.5

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    21446683..21502281 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_017852933.1 Reference GRCh38.p14 PATCHES

    Range
    269443..324743 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    21381723..21437007 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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