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SMG1P1 SMG1 pseudogene 1 [ Homo sapiens (human) ]

Gene ID: 641298, updated on 17-Sep-2024

Summary

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Official Symbol
SMG1P1provided by HGNC
Official Full Name
SMG1 pseudogene 1provided by HGNC
Primary source
HGNC:HGNC:44186
See related
Ensembl:ENSG00000237296 AllianceGenome:HGNC:44186
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 28.8), lymph node (RPKM 14.7) and 24 other tissues See more
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Genomic context

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See SMG1P1 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 (22437008..22492220)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (22714642..22770227)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (22448329..22503541)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10572 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10573 Neighboring gene CDR2 divergent transcript Neighboring gene major facilitator superfamily domain containing 13B (pseudogene) Neighboring gene RRN3 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7270 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:22458379-22458880 Neighboring gene small nucleolar RNA U13 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:22510885-22511742 Neighboring gene uncharacterized LOC105371131 Neighboring gene nuclear pore complex interacting protein family member B5 Neighboring gene OTOA pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:22585646-22585849

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. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. Nagase T, et al. DNA Res, 1996 Oct 31. PMID 9039502
  2. 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
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, 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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Other Names

  • PI-3-kinase-related kinase SMG-1
  • SMG1P1, nonsense mediated mRNA decay associated PI3K related kinase pseudogene 1
  • smg-1 homolog, phosphatidylinositol 3-kinase-related kinase pseudogene 1

Clone Names

  • KIAA0220, DKFZp547E087

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_027154.1 RNA Sequence

    Status: PROVISIONAL

    Source sequence(s)
    AC106788
    Related
    ENST00000309865.11

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
    22437008..22492220
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_017852933.1 Reference GRCh38.p14 PATCHES

    Range
    612822..668031 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    22714642..22770227
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_199284.2: Suppressed sequence

    Description
    NM_199284.2: This RefSeq was permanently suppressed because it is now thought that this gene is a pseudogene.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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