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

Gene ID: 99326, updated on 2-Nov-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, Nov 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 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 IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
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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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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