Free for academic non-profit institutions. Other users need a Commercial license

Aliases for GARNL3 Gene

Aliases for GARNL3 Gene

  • GTPase Activating Rap/RanGAP Domain Like 3 2 3 5
  • GTPase Activating RANGAP Domain-Like 3 2 3
  • GTPase-Activating Rap/Ran-GAP Domain-Like Protein 3 3
  • GTPase Activating Rap/RanGAP Domain-Like 3 2
  • BA356B19.1 3

External Ids for GARNL3 Gene

Previous GeneCards Identifiers for GARNL3 Gene

  • GC09P125403
  • GC09P127106
  • GC09P129045
  • GC09P129987
  • GC09P099642

Summaries for GARNL3 Gene

GeneCards Summary for GARNL3 Gene

GARNL3 (GTPase Activating Rap/RanGAP Domain Like 3) is a Protein Coding gene. GO annotations related to this gene include GTPase activator activity. An important paralog of this gene is SIPA1L1.

Additional gene information for GARNL3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GARNL3 Gene

Genomics for GARNL3 Gene

Regulatory Elements for GARNL3 Gene

Enhancers for GARNL3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09H127335 1.2 Ensembl ENCODE 17.5 +112.7 112654 2.4 TBP FOXA2 INSM2 BRCA1 ZEB1 RFX5 ZNF366 SCRT2 RCOR1 ZNF391 GARNL3 ENSG00000228487 SLC2A8 ENSG00000271833 LOC100419923
GH09H127387 1.6 Ensembl ENCODE dbSUPER 11 +165.1 165053 4.4 PKNOX1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 FOS SP3 SP5 SNORA65 RPL12 ZNF79 SWI5 NAIF1 CDK9 ENSG00000228487 GARNL3 SLC2A8 GOLGA2
GH09H127864 1.5 Ensembl ENCODE dbSUPER 10 +641.2 641159 1.7 HDGF ZNF133 GLI4 ZNF48 ZNF2 ZNF121 ZNF766 GATA2 ZNF207 ZNF143 LOC102723566 FPGS NAIF1 ST6GALNAC6 RPL12 GOLGA2 ODF2 TTC16 PTRH1 URM1
GH09H127178 1.3 Ensembl ENCODE dbSUPER 11.2 -44.3 -44317 2.7 EBF1 CEBPG ZIC2 ZNF316 ATF7 RUNX3 MAFK IKZF2 EGR2 ZNF687 RALGPS1 GARNL3 ENSG00000228487 LOC105376278 ANGPTL2
GH09H127392 1.3 ENCODE dbSUPER 11.2 +171.5 171470 7.1 HDGF PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF79 SLC2A8 NAIF1 GARNL3 ENSG00000228487 SNORA65 CIZ1 RPL12 ENSG00000271833 TOR2A
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around GARNL3 on UCSC Golden Path with GeneCards custom track

Promoters for GARNL3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000241668 935 1601 HDGF PKNOX1 ARID4B SIN3A DMAP1 TCF12 GLIS2 ZNF143 SP3 MBD2

Genomic Locations for GARNL3 Gene

Genomic Locations for GARNL3 Gene
169,396 bases
Plus strand

Genomic View for GARNL3 Gene

Genes around GARNL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GARNL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GARNL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GARNL3 Gene

Proteins for GARNL3 Gene

  • Protein details for GARNL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    GTPase-activating Rap/Ran-GAP domain-like protein 3
    Protein Accession:
    Secondary Accessions:
    • B4DEP7
    • B7Z3Q6
    • Q8IYU1
    • Q8N951
    • Q8ND89
    • Q9BQH6

    Protein attributes for GARNL3 Gene

    1013 amino acids
    Molecular mass:
    112852 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH34983.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAB66508.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAH72927.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAI41459.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for GARNL3 Gene


neXtProt entry for GARNL3 Gene

Post-translational modifications for GARNL3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for GARNL3 Gene

Domains & Families for GARNL3 Gene

Gene Families for GARNL3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for GARNL3 Gene


Graphical View of Domain Structure for InterPro Entry



  • Belongs to the GARNL3 family.
  • Belongs to the GARNL3 family.
genes like me logo Genes that share domains with GARNL3: view

Function for GARNL3 Gene

Phenotypes From GWAS Catalog for GARNL3 Gene

Gene Ontology (GO) - Molecular Function for GARNL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005096 GTPase activator activity IEA --
genes like me logo Genes that share ontologies with GARNL3: view
genes like me logo Genes that share phenotypes with GARNL3: view

miRNA for GARNL3 Gene

miRTarBase miRNAs that target GARNL3

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for GARNL3 Gene

Localization for GARNL3 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for GARNL3 gene
Compartment Confidence
cytosol 3
mitochondrion 2
extracellular 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for GARNL3 Gene

Pathways & Interactions for GARNL3 Gene

SuperPathways for GARNL3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for GARNL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043547 positive regulation of GTPase activity IEA --
GO:0051056 regulation of small GTPase mediated signal transduction IEA --
genes like me logo Genes that share ontologies with GARNL3: view

No data available for Pathways by source and SIGNOR curated interactions for GARNL3 Gene

Drugs & Compounds for GARNL3 Gene

No Compound Related Data Available

Transcripts for GARNL3 Gene

Unigene Clusters for GARNL3 Gene

GTPase activating Rap/RanGAP domain-like 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for GARNL3 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18 ^ 19a · 19b ^
SP1: - - -
SP2: - - - -

ExUns: 20 ^ 21a · 21b · 21c ^ 22 ^ 23 ^ 24 ^ 25 ^ 26a · 26b ^ 27 ^ 28 ^ 29a · 29b ^ 30a · 30b · 30c ^ 31 ^ 32a · 32b
SP1: - - - - - -
SP3: - - -
SP4: - -
SP8: -

Relevant External Links for GARNL3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for GARNL3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GARNL3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for GARNL3 Gene

This gene is overexpressed in Brain - Cerebellum (x4.6) and Brain - Cerebellar Hemisphere (x4.3).

Protein differential expression in normal tissues from HIPED for GARNL3 Gene

This gene is overexpressed in Pancreatic juice (47.3), Peripheral blood mononuclear cells (13.4), and Fetal Brain (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for GARNL3 Gene

Protein tissue co-expression partners for GARNL3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of GARNL3 Gene:


SOURCE GeneReport for Unigene cluster for GARNL3 Gene:


Evidence on tissue expression from TISSUES for GARNL3 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with GARNL3: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GARNL3 Gene

Orthologs for GARNL3 Gene

This gene was present in the common ancestor of animals.

Orthologs for GARNL3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia GARNL3 33 34
  • 99.61 (n)
(Bos Taurus)
Mammalia GARNL3 33 34
  • 92.05 (n)
(Canis familiaris)
Mammalia GARNL3 33 34
  • 91.51 (n)
(Mus musculus)
Mammalia Garnl3 33 16 34
  • 88.97 (n)
(Monodelphis domestica)
Mammalia GARNL3 34
  • 86 (a)
(Rattus norvegicus)
Mammalia Garnl3 33
  • 85.18 (n)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 84 (a)
-- 34
  • 81 (a)
(Gallus gallus)
Aves GARNL3 33 34
  • 76.8 (n)
(Anolis carolinensis)
Reptilia GARNL3 34
  • 80 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia garnl3 33
  • 73.09 (n)
(Danio rerio)
Actinopterygii GARNL3 34
  • 79 (a)
garnl3 33
  • 68.9 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002573 33
  • 56.52 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG42629 34
  • 18 (a)
(Caenorhabditis elegans)
Secernentea sipa-1 34
  • 17 (a)
Species where no ortholog for GARNL3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for GARNL3 Gene

Gene Tree for GARNL3 (if available)
Gene Tree for GARNL3 (if available)

Paralogs for GARNL3 Gene

genes like me logo Genes that share paralogs with GARNL3: view

Variants for GARNL3 Gene

Sequence variations from dbSNP and Humsavar for GARNL3 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000035887 -- 127,266,308(+) GGGAT(A/G)TGGAT intron-variant
rs1000060850 -- 127,266,585(+) GATCT(C/T)GGACT intron-variant
rs1000069838 -- 127,381,120(+) GATCC(A/G/T)CCCAC intron-variant
rs1000074438 -- 127,328,212(+) ATTTT(A/G)TTTCC intron-variant
rs1000101317 -- 127,316,874(+) TGGAC(A/G)GATGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for GARNL3 Gene

Variant ID Type Subtype PubMed ID
nsv527127 CNV gain 19592680
nsv525053 CNV loss 19592680
nsv523364 CNV loss 19592680
nsv521594 CNV loss 19592680
nsv516966 CNV gain+loss 19592680
nsv1042177 CNV loss 25217958
esv3621780 CNV loss 21293372
esv3621778 CNV loss 21293372
esv3621777 CNV loss 21293372
esv3446884 CNV insertion 20981092
esv3303990 CNV mobile element insertion 20981092
esv2739049 CNV deletion 23290073
esv2676607 CNV deletion 23128226
esv2492436 CNV deletion 19546169
esv24866 CNV loss 19812545

Variation tolerance for GARNL3 Gene

Residual Variation Intolerance Score: 9.03% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.77; 33.47% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for GARNL3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GARNL3 Gene

Disorders for GARNL3 Gene

Relevant External Links for GARNL3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for GARNL3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GARNL3 Gene

Publications for GARNL3 Gene

  1. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 2 3 4 60
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 45 60
  3. Collaborative genome-wide association analysis supports a role for ANK3 and CACNA1C in bipolar disorder. (PMID: 18711365) Ferreira MA … Wellcome Trust Case Control Consortium (Nature genetics 2008) 3 45 60
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  5. F-box only protein 9 is an E3 ubiquitin ligase of PPARγ. (PMID: 27197753) Lee KW … Park KS (Experimental & molecular medicine 2016) 3 60

Products for GARNL3 Gene

Sources for GARNL3 Gene

Loading form....