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    Garnl3 GTPase activating RANGAP domain-like 3 [ Mus musculus (house mouse) ]

    Gene ID: 99326, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Garnl3provided by MGI
    Official Full Name
    GTPase activating RANGAP domain-like 3provided by MGI
    Primary source
    MGI:MGI:2139309
    See related
    Ensembl:ENSMUSG00000038860 AllianceGenome:MGI:2139309
    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
    Summary
    Predicted to enable GTPase activator activity. Predicted to be involved in regulation of small GTPase mediated signal transduction. Predicted to be active in cytoplasm. Is expressed in nervous system. Orthologous to human GARNL3 (GTPase activating Rap/RanGAP domain like 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 19.0), cortex adult (RPKM 14.3) and 13 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Garnl3 in Genome Data Viewer
    Location:
    2 B; 2 22.09 cM
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (32876237..33021871, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (32986225..33131859, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32822577-32822686 Neighboring gene STARR-positive B cell enhancer ABC_E1586 Neighboring gene small nucleolar RNA, H/ACA box 65 Neighboring gene ribosomal protein L12 Neighboring gene solute carrier family 2, (facilitated glucose transporter), member 8 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32888039-32888233 Neighboring gene STARR-seq mESC enhancer starr_04227 Neighboring gene STARR-seq mESC enhancer starr_04229 Neighboring gene STARR-positive B cell enhancer ABC_E2614 Neighboring gene STARR-positive B cell enhancer ABC_E2615 Neighboring gene Ral GEF with PH domain and SH3 binding motif 1 Neighboring gene predicted gene 13528 Neighboring gene predicted gene, 23546

    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. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    2. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    3. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    4. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (16) 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) 
    • Targeted (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    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 regulation of small GTPase mediated signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    GTPase-activating Rap/Ran-GAP domain-like protein 3

    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_001355200.1 → NP_001342129.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AL731852, AL929197
      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:556 → 861
      CNH; CNH domain
      pfam02145
      Location:284 → 462
      Rap_GAP; Rap/ran-GAP

    2. NM_001355201.1 → NP_001342130.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AK133163, AL929197, BY652242
      Consensus CDS
      CCDS89476.1
      UniProtKB/Swiss-Prot
      Q3V0G7, Q8BNH8, Q8CC22
      UniProtKB/TrEMBL
      A2AHW8
      Related
      ENSMUSP00000122576.3, ENSMUST00000137381.8
      Conserved Domains (2) summary
      pfam00780
      Location:516 → 821
      CNH; CNH domain
      pfam02145
      Location:244 → 422
      Rap_GAP; Rap/ran-GAP

    3. NM_001355202.1 → NP_001342131.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (4) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AL731852
      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    4. NM_178888.5 → NP_849219.2  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform 3

      See identical proteins and their annotated locations for NP_849219.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (3) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AK034068, BY269411, BY652242
      Consensus CDS
      CCDS15938.1
      UniProtKB/TrEMBL
      A2AHW8
      Related
      ENSMUSP00000099874.4, ENSMUST00000102810.10
      Conserved Domains (2) summary
      pfam00780
      Location:471 → 776
      CNH; CNH domain
      pfam02145
      Location:199 → 377
      Rap_GAP; Rap/ran-GAP

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      32876237..33021871 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006498482.5 → XP_006498545.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:552 → 857
      CNH; CNH domain
      pfam02145
      Location:280 → 458
      Rap_GAP; Rap/ran-GAP

    2. XM_036162762.1 → XP_036018655.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    3. XM_006498485.5 → XP_006498548.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006498548.1

      UniProtKB/Swiss-Prot
      Q3V0G7, Q8BNH8, Q8CC22
      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:516 → 821
      CNH; CNH domain
      pfam02145
      Location:244 → 422
      Rap_GAP; Rap/ran-GAP

    4. XM_030252273.2 → XP_030108133.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q3V0G7, Q8BNH8, Q8CC22
      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:516 → 821
      CNH; CNH domain
      pfam02145
      Location:244 → 422
      Rap_GAP; Rap/ran-GAP

    5. XM_006498488.5 → XP_006498551.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006498551.1

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    6. XM_030252276.2 → XP_030108136.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    7. XM_006498483.5 → XP_006498546.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006498546.1

      UniProtKB/Swiss-Prot
      Q3V0G7, Q8BNH8, Q8CC22
      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:516 → 821
      CNH; CNH domain
      pfam02145
      Location:244 → 422
      Rap_GAP; Rap/ran-GAP

    8. XM_011239223.4 → XP_011237525.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      See identical proteins and their annotated locations for XP_011237525.1

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    9. XM_006498486.5 → XP_006498549.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X3

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:499 → 804
      CNH; CNH domain
      pfam02145
      Location:227 → 405
      Rap_GAP; Rap/ran-GAP

    10. XM_006498487.4 → XP_006498550.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006498550.1

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    11. XM_017319358.2 → XP_017174847.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    12. XM_030252275.1 → XP_030108135.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    13. XM_030252274.1 → XP_030108134.1  GTPase-activating Rap/Ran-GAP domain-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A2AHW8
      Conserved Domains (2) summary
      pfam00780
      Location:324 → 629
      CNH; CNH domain
      pfam02145
      Location:52 → 230
      Rap_GAP; Rap/ran-GAP

    RNA

    1. XR_004940792.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3V0G7.1 GenPept UniProtKB/Swiss-Prot:Q3V0G7

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