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SMG1P6 SMG1 pseudogene 6 [ Homo sapiens (human) ]

Gene ID: 100422558, updated on 17-Sep-2024

Summary

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Official Symbol
SMG1P6provided by HGNC
Official Full Name
SMG1 pseudogene 6provided by HGNC
Primary source
HGNC:HGNC:49863
See related
Ensembl:ENSG00000254634 AllianceGenome:HGNC:49863
Gene type
pseudo
RefSeq status
VALIDATED
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 13.4), lymph node (RPKM 8.9) and 25 other tissues See more
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Genomic context

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See SMG1P6 in Genome Data Viewer
Location:
16p11.2
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (29425411..29447026, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (29707203..29728818, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (29436732..29458347, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene sorting nexin 29 pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29324515-29325223 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29330917-29331417 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29339867-29340728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29340729-29341590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10656 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29393253-29393874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29393875-29394494 Neighboring gene nuclear pore complex interacting protein family member B11 Neighboring gene small nucleolar RNA U13 Neighboring gene BOLA2-SMG1P6 readthrough Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr16:29465349-29466088 Neighboring gene coronin 1A pseudogene Neighboring gene bolA family member 2 Neighboring gene SLX1 homolog B, structure-specific endonuclease subunit

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. 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. 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

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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Other Names

  • SMG1P6, nonsense mediated mRNA decay associated PI3K related kinasepseudogene 6
  • 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_135312.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC025279, AC133555
    Related
    ENST00000532337.1

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
    29425411..29447026 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_017852933.1 Reference GRCh38.p14 PATCHES

    Range
    1637483..1658094
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    29707203..29728818 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_026356.1: Suppressed sequence

    Description
    NG_026356.1: This RefSeq was removed because it is now thought that this pseudogene is transcribed.
Nucleotide Protein
Heading Accession and Version

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