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Gm44504 predicted readthrough transcript (NMD candidate), 44504 [ Mus musculus (house mouse) ]

Gene ID: 100169864, updated on 8-Feb-2024

Summary

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Official Symbol
Gm44504provided by MGI
Official Full Name
predicted readthrough transcript (NMD candidate), 44504provided by MGI
Primary source
MGI:MGI:5621304
See related
Ensembl:ENSMUSG00000015290 AllianceGenome:MGI:5621304
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Tu11; Gm38419; SlcUbl4a; Slc10a3-ubl4
Summary
This locus represents naturally occurring readthrough transcription between the neighboring Slc10a3 (solute carrier family 10 (sodium/bile acid cotransporter family), member 3) and Ubl4 (ubiquitin-like 4) genes on chromosome X. While some readthrough transcripts encode a protein that is identical to the downstream gene product, at least one readthrough transcript appears to be a candidate for nonsense-mediated mRNA decay (NMD), and is unlikely to produce a protein product. [provided by RefSeq, May 2013]
Expression
Ubiquitous expression in adrenal adult (RPKM 44.9), ovary adult (RPKM 39.9) and 28 other tissues See more
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Genomic context

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Location:
X A7.3; X
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (73411053..73416955, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (74367447..74373349, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene plexin A3 Neighboring gene L antigen family, member 3 Neighboring gene ubiquitin-like 4A Neighboring gene solute carrier family 10 (sodium/bile acid cotransporter family), member 3 Neighboring gene FAM3 metabolism regulating signaling molecule A Neighboring gene STARR-seq mESC enhancer starr_47367 Neighboring gene inhibitor of kappaB kinase gamma Neighboring gene glucose-6-phosphate dehydrogenase X-linked Neighboring gene STARR-positive B cell enhancer ABC_E11050

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Linkage and sequence conservation of the X-linked genes DXS253E (P3) and DXS254E (GdX) in mouse and man. Filippi M, et al. Genomics, 1990 Jul. PMID 1973144
  2. Detailed characterization of the mouse embryonic stem cell transcriptome reveals novel genes and intergenic splicing associated with pluripotency. Kunarso G, et al. BMC Genomics, 2008 Apr 9. PMID 18400104, 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

GeneRIFs: Gene References Into Functions

General gene information

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Readthrough Gm44504

Included genes: Ubl4a, Slc10a3

General protein information

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Preferred Names
ubiquitin-like protein 4A
Names
Slc10a3-Ubl4 readthrough
Slc10a3-Ubl4a readthrough transcript (NMD candidate)
ubiquitin-like protein GDX

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.

mRNA and Protein(s)

  1. NM_001278271.1 → NP_001265200.1  ubiquitin-like protein 4A

    See identical proteins and their annotated locations for NP_001265200.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL807376
    UniProtKB/Swiss-Prot
    P21126
    UniProtKB/TrEMBL
    B2M0S0, Q3UK94
    Related
    ENSMUSP00000136070.2, ENSMUST00000178691.2
    Conserved Domains (2) summary
    cd01807
    Location:1 → 72
    Ubl_UBL4A_like; ubiquitin-like (Ubl) domain found in ubiquitin-like proteins UBL4A and similar proteins
    pfam17840
    Location:96 → 142
    Tugs; Tethering Ubl4a to BAGS domain

  2. NM_001278272.1 → NP_001265201.1  ubiquitin-like protein 4A

    See identical proteins and their annotated locations for NP_001265201.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL807376
    UniProtKB/Swiss-Prot
    P21126
    UniProtKB/TrEMBL
    B2M0S0, Q3UK94
    Conserved Domains (2) summary
    cd01807
    Location:1 → 72
    Ubl_UBL4A_like; ubiquitin-like (Ubl) domain found in ubiquitin-like proteins UBL4A and similar proteins
    pfam17840
    Location:96 → 142
    Tugs; Tethering Ubl4a to BAGS domain

RNA

  1. NR_103489.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal exon compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
    Source sequence(s)
    AL807376

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    73411053..73416955 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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