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    Depdc1a DEP domain containing 1a [ Mus musculus (house mouse) ]

    Gene ID: 76131, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Depdc1aprovided by MGI
    Official Full Name
    DEP domain containing 1aprovided by MGI
    Primary source
    MGI:MGI:1923381
    See related
    Ensembl:ENSMUSG00000028175 AllianceGenome:MGI:1923381
    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
    Depdc1; 5830484J08Rik
    Summary
    Predicted to enable GTPase activator activity. Predicted to be involved in negative regulation of transcription, DNA-templated. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Orthologous to human DEPDC1 (DEP domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in liver E14 (RPKM 10.2), liver E14.5 (RPKM 7.6) and 8 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Depdc1a in Genome Data Viewer
    Location:
    3 H4; 3 82.47 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (159201042..159235690)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (159495414..159529955)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 20752 Neighboring gene STARR-seq mESC enhancer starr_09396 Neighboring gene STARR-seq mESC enhancer starr_09397 Neighboring gene STARR-positive B cell enhancer mm9_chr3:159158158-159158459 Neighboring gene predicted gene 9424 Neighboring gene STARR-seq mESC enhancer starr_09398 Neighboring gene retinal pigment epithelium 65 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:159503248-159503357 Neighboring gene succinate dehydrogenase complex, subunit B, iron sulfur (Ip) pseudogene Neighboring gene wntless WNT ligand secretion mediator

    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. The Interleukin-2-mTORc1 Kinase Axis Defines the Signaling, Differentiation, and Metabolism of T Helper 1 and Follicular B Helper T Cells. Ray JP, et al. Immunity, 2015 Oct 20. PMID 26410627, Free PMC Article
    2. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
    3. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    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

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables GTPase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in intracellular signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription repressor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription repressor complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DEP domain-containing protein 1A

    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_001172092.1 → NP_001165563.1  DEP domain-containing protein 1A isoform 1

      See identical proteins and their annotated locations for NP_001165563.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK050456, AK146458, BB857645, CK340717
      Consensus CDS
      CCDS51105.1
      UniProtKB/TrEMBL
      A0A2X0SSJ1, D3Z6J1
      Related
      ENSMUSP00000113216.2, ENSMUST00000120272.8
      Conserved Domains (3) summary
      cd04405
      Location:182 → 309
      RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...
      cl02442
      Location:15 → 106
      DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...
      cl02570
      Location:576 → 684
      RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

    2. NM_001172093.1 → NP_001165564.1  DEP domain-containing protein 1A isoform 3

      See identical proteins and their annotated locations for NP_001165564.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region, compared to variant 1. The resulting isoform (3) lacks an internal segment, compared to isoform 1.
      Source sequence(s)
      AK050456, AK146458, BB857645, CK340717
      Consensus CDS
      CCDS51106.1
      UniProtKB/Swiss-Prot
      Q8CIG0
      Related
      ENSMUSP00000101656.3, ENSMUST00000106041.3
      Conserved Domains (2) summary
      cd04405
      Location:182 → 407
      RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...
      cl02442
      Location:15 → 106
      DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...

    3. NM_029523.3 → NP_083799.2  DEP domain-containing protein 1A isoform 2

      See identical proteins and their annotated locations for NP_083799.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The resulting isoform (2) lacks a two amino acid segment near the C-terminus, compared to isoform 1.
      Source sequence(s)
      AK050456, AK146458, BB857645, CK340717
      Consensus CDS
      CCDS17936.1
      UniProtKB/Swiss-Prot
      Q8BHF1, Q8CIG0, Q99JN3
      UniProtKB/TrEMBL
      A0A2X0SSJ1
      Related
      ENSMUSP00000029825.8, ENSMUST00000029825.14
      Conserved Domains (3) summary
      cd04405
      Location:182 → 309
      RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...
      cl02442
      Location:15 → 106
      DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...
      cl02570
      Location:576 → 684
      RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

    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
      159201042..159235690
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_004941412.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CIG0.1 GenPept UniProtKB/Swiss-Prot:Q8CIG0

    Gene LinkOut

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

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