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Gm20517 predicted gene 20517 [ Mus musculus (house mouse) ]

Gene ID: 112694759, updated on 8-Feb-2024

Summary

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Official Symbol
Gm20517provided by MGI
Official Full Name
predicted gene 20517provided by MGI
Primary source
MGI:MGI:5141982
See related
Ensembl:ENSMUSG00000023984 AllianceGenome:MGI:5141982
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
Trfp; Med20
Summary
This locus represents naturally-occurring readthrough transcription between the neighboring mediator complex subunit 20 (Med20) and ubiquitin specific peptidase 49 (Usp49) genes. Readthrough transcripts may be candidates for nonsense mediated decay (NMD) or encode proteins with similarity to the Med20 gene. [provided by RefSeq, Jul 2018]
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Genomic context

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See Gm20517 in Genome Data Viewer
Location:
17 C; 17 23.66 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (47922510..47997664)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (47611585..47686739)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene cyclin D3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:47679075-47679320 Neighboring gene predicted gene, 41590 Neighboring gene STARR-seq mESC enhancer starr_42717 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:47732923-47733032 Neighboring gene STARR-positive B cell enhancer ABC_E9169 Neighboring gene bystin-like Neighboring gene STARR-positive B cell enhancer ABC_E10959 Neighboring gene mediator complex subunit 20 Neighboring gene Kpna2 retrotransposed pseudogene Neighboring gene ubiquitin specific peptidase 49 Neighboring gene STARR-positive B cell enhancer ABC_E4218 Neighboring gene prickle planar cell polarity protein 4 Neighboring gene translocase of outer mitochondrial membrane 6, opposite strand Neighboring gene translocase of outer mitochondrial membrane 6 Neighboring gene fibroblast growth factor receptor substrate 3 Neighboring gene fibroblast growth factor receptor substrate 3, opposite strand

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  2. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
  3. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article
  4. Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes. Carninci P, et al. Genome Res, 2000 Oct. PMID 11042159, Free PMC Article
  5. Functional annotation of a full-length mouse cDNA collection. Kawai J, et al. Nature, 2001 Feb 8. PMID 11217851

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Readthrough Gm20517

Included genes: Med20, Usp49

General protein information

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Preferred Names
uncharacterized protein LOC112694759
Names
Med20-Usp49 readthrough
Mediator complex subunit 20
Mediator of RNA polymerase II transcription subunit 20
TRF-proximal protein homolog

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_001364933.1 → NP_001351862.1  uncharacterized protein LOC112694759

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) includes sequence from both Med20 and the 5' UTR of Usp49 and encodes a protein with similarity to mediator complex subunit 20.
    Source sequence(s)
    AC139214, AK031504
    UniProtKB/TrEMBL
    G3UVU6
    Related
    ENSMUSP00000117658.2, ENSMUST00000132397.2
    Conserved Domains (1) summary
    pfam08612
    Location:1 → 149
    Med20; TATA-binding related factor (TRF) of subunit 20 of Mediator complex

RNA

  1. NR_157366.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) includes exons of both the Med20 and Usp49 gene and is predicted to be a candidate for nonsense mediated decay (NMD).
    Source sequence(s)
    AC139214, AK141369

  2. NR_157367.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) includes sequence from both Med20 and the 5' UTR of Usp49. It is represented as non-coding because the predicted ORF is much shorter than the ORF represented in variant 1.
    Source sequence(s)
    AC139214, AK019130
    Related
    ENSMUST00000146105.8

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_000083.7 Reference GRCm39 C57BL/6J

    Range
    47922510..47997664
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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