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    Rundc3b RUN domain containing 3B [ Mus musculus (house mouse) ]

    Gene ID: 242819, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rundc3bprovided by MGI
    Official Full Name
    RUN domain containing 3Bprovided by MGI
    Primary source
    MGI:MGI:2685286
    See related
    Ensembl:ENSMUSG00000040570 AllianceGenome:MGI:2685286
    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
    Gm440
    Summary
    Orthologous to human RUNDC3B (RUN domain containing 3B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in CNS E18 (RPKM 12.7), whole brain E14.5 (RPKM 8.8) and 9 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rundc3b in Genome Data Viewer
    Location:
    5 A1; 5 3.43 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (8540336..8673079, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (8490336..8623084, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene a disintegrin and metallopeptidase domain 22 Neighboring gene STARR-seq mESC enhancer starr_12384 Neighboring gene ribosomal protein L19 pseudogene Neighboring gene STARR-seq mESC enhancer starr_12387 Neighboring gene solute carrier family 25, member 40 Neighboring gene DBF4 zinc finger Neighboring gene STARR-positive B cell enhancer mm9_chr5:8489752-8490052 Neighboring gene STARR-seq mESC enhancer starr_12390 Neighboring gene ATP-binding cassette, sub-family B member 1A Neighboring gene STARR-seq mESC enhancer starr_12393 Neighboring gene predicted gene, 31157 Neighboring gene predicted gene 5106 Neighboring gene ATP-binding cassette, sub-family B member 1B

    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. Epilepsy- and intellectual disability-associated CYFIP2 interacts with both actin regulators and RNA-binding proteins in the neonatal mouse forebrain. Lee Y, et al. Biochem Biophys Res Commun, 2020 Aug 13. PMID 32560809
    2. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    3. 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
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC68340

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    RUN domain-containing protein 3B

    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_001347311.1 → NP_001334240.1  RUN domain-containing protein 3B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC107733, AC121955, AC152165
      Consensus CDS
      CCDS84841.1
      UniProtKB/TrEMBL
      D3YUQ5
      Related
      ENSMUSP00000111036.2, ENSMUST00000115378.2

    2. NM_001359961.1 → NP_001346890.1  RUN domain-containing protein 3B isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two alternate exons in the 3' coding region, that causes a frameshift. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC107733, AC121955, AC152165
      Conserved Domains (1) summary
      pfam02759
      Location:66 → 187
      RUN; RUN domain

    3. NM_198620.1 → NP_941022.1  RUN domain-containing protein 3B isoform 2

      See identical proteins and their annotated locations for NP_941022.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C- termini but is shorter compared to isoform 1.
      Source sequence(s)
      BC058808
      Consensus CDS
      CCDS19083.1
      UniProtKB/Swiss-Prot
      Q6PDC0, Q6PFX5
      Related
      ENSMUSP00000040108.9, ENSMUST00000047485.15
      Conserved Domains (1) summary
      pfam02759
      Location:66 → 189
      RUN; RUN domain

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      8540336..8673079 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503578.4 → XP_006503641.1  RUN domain-containing protein 3B isoform X1

      Conserved Domains (1) summary
      pfam02759
      Location:66 → 187
      RUN; RUN domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PDC0.1 GenPept UniProtKB/Swiss-Prot:Q6PDC0

    Gene LinkOut

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

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