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    Lrrc39 leucine rich repeat containing 39 [ Mus musculus (house mouse) ]

    Gene ID: 109245, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Lrrc39provided by MGI
    Official Full Name
    leucine rich repeat containing 39provided by MGI
    Primary source
    MGI:MGI:1924557
    See related
    Ensembl:ENSMUSG00000027961 AllianceGenome:MGI:1924557
    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
    Myomasp; 2010005E21Rik; 9430028I06Rik
    Summary
    Predicted to enable protein serine/threonine phosphatase activity. Predicted to be involved in signal transduction. Predicted to be active in cytoplasm and intracellular membrane-bounded organelle. Orthologous to human LRRC39 (leucine rich repeat containing 39). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in heart adult (RPKM 10.7), mammary gland adult (RPKM 2.1) and 15 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    3 G1; 3 50.39 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (116356610..116376793)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (116562954..116583144)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast) pseudogene Neighboring gene splicing factor, arginine/serine-rich pseudogene Neighboring gene STARR-seq mESC enhancer starr_08780 Neighboring gene tRNA methyltransferase 13 Neighboring gene STARR-positive B cell enhancer ABC_E1630 Neighboring gene SAS-6 centriolar assembly protein Neighboring gene STARR-seq mESC enhancer starr_08781 Neighboring gene STARR-seq mESC enhancer starr_08784 Neighboring gene major facilitator superfamily domain containing 14A Neighboring gene STARR-seq mESC enhancer starr_08785 Neighboring gene STARR-positive B cell enhancer ABC_E3464 Neighboring gene STARR-seq mESC enhancer starr_08789 Neighboring gene microRNA 3473h

    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. Myomasp/LRRC39, a heart- and muscle-specific protein, is a novel component of the sarcomeric M-band and is involved in stretch sensing. Will RD, et al. Circ Res, 2010 Nov 12. PMID 20847312
    2. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    3. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Reveal myomasp/LRRC39 as a previously unrecognized component of an M-band-associated signaling pathway that regulates cardiomyocyte gene expression in response to biomechanical stress.
      Title: Myomasp/LRRC39, a heart- and muscle-specific protein, is a novel component of the sarcomeric M-band and is involved in stretch sensing.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 39
    Names
    myosin-interacting M-band-associated stress-responsive protein

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001379629.1 → NP_001366558.1  leucine-rich repeat-containing protein 39 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) encodes the longest isoform (3).
      Source sequence(s)
      AC025622, AC131038
      Conserved Domains (2) summary
      COG4886
      Location:19 → 286
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:85 → 107
      LRR_RI; leucine-rich repeat [structural motif]

    2. NM_001379630.1 → NP_001366559.1  leucine-rich repeat-containing protein 39 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC025622, AC131038
      Conserved Domains (2) summary
      COG4886
      Location:90 → 275
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:74 → 96
      LRR_RI; leucine-rich repeat [structural motif]

    3. NM_027321.4 → NP_081597.1  leucine-rich repeat-containing protein 39 isoform 1

      See identical proteins and their annotated locations for NP_081597.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 3' UTR and coding sequence compared to variant 2. The resulting isoform (1) has a shorter and distinct C-terminus compared to isoform 2.
      Source sequence(s)
      AC025622
      UniProtKB/TrEMBL
      Q9D8D7
      Related
      ENSMUST00000203327.2
      Conserved Domains (3) summary
      sd00031
      Location:108 → 130
      LRR_1; leucine-rich repeat [structural motif]
      pfam12799
      Location:129 → 170
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:84 → 141
      LRR_8; Leucine rich repeat

    4. NM_175413.4 → NP_780622.1  leucine-rich repeat-containing protein 39 isoform 2

      See identical proteins and their annotated locations for NP_780622.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes isoform 2.
      Source sequence(s)
      AC025622, AC131038
      Consensus CDS
      CCDS17788.1
      UniProtKB/Swiss-Prot
      Q8BGI7
      UniProtKB/TrEMBL
      Q0VDT4
      Related
      ENSMUSP00000029573.6, ENSMUST00000029573.8
      Conserved Domains (3) summary
      cd00116
      Location:72 → 257
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:85 → 107
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:222 → 280
      LRR_8; Leucine rich repeat

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      116356610..116376793
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006500862.5 → XP_006500925.1  leucine-rich repeat-containing protein 39 isoform X1

      Conserved Domains (2) summary
      COG4886
      Location:37 → 275
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:85 → 107
      LRR_RI; leucine-rich repeat [structural motif]

    RNA

    1. XR_003954272.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BGI7.1 GenPept UniProtKB/Swiss-Prot:Q8BGI7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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