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

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

Summary

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
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Genomic context

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

Expression

  • 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

Variation

Alleles

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

General gene information

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

Preferred Names
DEP domain-containing protein 1A

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_001172092.1NP_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:182309
    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:15106
    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:576684
    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_001172093.1NP_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:182407
    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:15106
    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_029523.3NP_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:182309
    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:15106
    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:576684
    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