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RAP1GAP2 RAP1 GTPase activating protein 2 [ Homo sapiens (human) ]

Gene ID: 23108, updated on 27-Nov-2024

Summary

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Official Symbol
RAP1GAP2provided by HGNC
Official Full Name
RAP1 GTPase activating protein 2provided by HGNC
Primary source
HGNC:HGNC:29176
See related
Ensembl:ENSG00000132359 MIM:618714; AllianceGenome:HGNC:29176
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GARNL4; RAP1GA3
Summary
This gene encodes a GTPase-activating protein that activates the small guanine-nucleotide-binding protein Rap1 in platelets. The protein interacts with synaptotagmin-like protein 1 and Rab27 and regulates secretion of dense granules from platelets at sites of endothelial damage. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]
Expression
Ubiquitous expression in brain (RPKM 11.5), bone marrow (RPKM 10.7) and 24 other tissues See more
Orthologs
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Genomic context

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See RAP1GAP2 in Genome Data Viewer
Location:
17p13.3
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (2755645..3037741)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (2644826..2926040)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (2658939..2941035)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371592 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2615428-2616323 Neighboring gene coiled-coil domain containing 92B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8011 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:2658382-2658591 Neighboring gene microRNA 1253 Neighboring gene MPRA-validated peak2687 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11499 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:2710701-2711302 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11500 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2735911-2736411 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2745057-2745556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2751037-2751628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2752811-2753401 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2759426-2759948 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2775362-2776117 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2776873-2777628 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2779141-2779895 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2782927-2783844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2786639-2787300 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2788221-2788974 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:2795785-2796984 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:2802958-2803170 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2805995-2806657 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2806658-2807320 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2815301-2815822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2818323-2819076 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2824404-2824976 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2824977-2825547 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2828640-2829358 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2829359-2830075 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2834060-2834806 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2834807-2835551 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2835552-2836297 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2842489-2843006 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2843524-2844040 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2850356-2850876 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2850877-2851397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2851398-2851918 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2860389-2861018 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2859760-2860388 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:2863407-2863948 Neighboring gene uncharacterized LOC101927911 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2868522-2869022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2869023-2869523 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:2898072-2898248 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2898498-2898998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11501 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11503 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:2914073-2914574 Neighboring gene olfactory receptor family 1 subfamily D member 5 Neighboring gene olfactory receptor family 1 subfamily D member 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Expression, activation, and subcellular localization of the Rap1 GTPase in cord blood-derived human megakaryocytes. Balduini A, et al. Exp Cell Res, 2004 Oct 15. PMID 15383317
  2. Cyclic nucleotide-dependent protein kinases inhibit binding of 14-3-3 to the GTPase-activating protein Rap1GAP2 in platelets. Hoffmeister M, et al. J Biol Chem, 2008 Jan 25. PMID 18039662
  3. Synaptotagmin-like protein 1 interacts with the GTPase-activating protein Rap1GAP2 and regulates dense granule secretion in platelets. Neumüller O, et al. Blood, 2009 Aug 13. PMID 19528539
  4. Rap1GAP2 is a new GTPase-activating protein of Rap1 expressed in human platelets. Schultess J, et al. Blood, 2005 Apr 15. PMID 15632203
  5. Genome-wide interaction studies reveal sex-specific asthma risk alleles. Myers RA, et al. Hum Mol Genet, 2014 Oct 1. PMID 24824216, Free PMC Article

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  2. Slp1 inhibits dense granule secretion in platelets and that Rap1GAP2 modulates secretion by binding to Slp1.
    Title: Synaptotagmin-like protein 1 interacts with the GTPase-activating protein Rap1GAP2 and regulates dense granule secretion in platelets.
  3. Platelet activation by ADP and thrombin enhances serine 9 phosphorylation and increases 14-3-3 binding to endogenous Rap1GAP2.
    Title: Cyclic nucleotide-dependent protein kinases inhibit binding of 14-3-3 to the GTPase-activating protein Rap1GAP2 in platelets.
  4. Rap1GAP2 is the first GTPase-activating protein of Rap1 found in platelets and is likely to have an important regulatory role in platelet aggregation
    Title: Rap1GAP2 is a new GTPase-activating protein of Rap1 expressed in human platelets.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
EBI GWAS Catalog
Genome-wide interaction studies reveal sex-specific asthma risk alleles.
EBI GWAS Catalog
GWAS for discovery and replication of genetic loci associated with sudden cardiac arrest in patients with coronary artery disease.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

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

Clone Names

  • KIAA1039, DKFZp686O238

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activator activity EXP
Inferred from Experiment
more info
 PubMed 
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in adaptive immune response TAS
Traceable Author Statement
more info
  
involved_in regulation of cell size IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of cell size IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of small GTPase mediated signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in centrosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nuclear membrane IDA
Inferred from Direct Assay
more info
  
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IGI
Inferred from Genetic Interaction
more info
 PubMed 

General protein information

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Preferred Names
rap1 GTPase-activating protein 2
Names
GTPase activating RANGAP domain-like 4
GTPase activating Rap/RanGAP domain-like 4
GTPase-activating Rap/Ran-GAP domain-like protein 4

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.

Genomic

  1. NG_013030.2 RefSeqGene

    Range
    45741..287044
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001100398.2 → NP_001093868.1  rap1 GTPase-activating protein 2 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The resulting isoform (2) lacks an internal segment, compared to isoform 1. This variant is also known as variant a, as described in PMID: 15632203.
    Source sequence(s)
    AC015921, AC097370, AJ628447, BE208439, BU629928, CR627427, DN831680
    Consensus CDS
    CCDS45574.1
    UniProtKB/Swiss-Prot
    Q684P5
    Related
    ENSP00000389824.2, ENST00000366401.8
    Conserved Domains (1) summary
    pfam02145
    Location:263 → 442
    Rap_GAP; Rap/ran-GAP

  2. NM_001330058.2 → NP_001316987.1  rap1 GTPase-activating protein 2 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start site compared to variant 1. The encoded isoform (3) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AC005696, AC015921, AC097370, BU629928
    Consensus CDS
    CCDS82035.1
    UniProtKB/Swiss-Prot
    Q684P5

  3. NM_001411048.1 → NP_001397977.1  rap1 GTPase-activating protein 2 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) encodes the longest isoform (4).
    Source sequence(s)
    AC005696, AC015921, AC097370
    Consensus CDS
    CCDS92223.1
    UniProtKB/TrEMBL
    A0A1B0GV05
    Related
    ENSP00000490321.1, ENST00000637138.1

  4. NM_001411049.1 → NP_001397978.1  rap1 GTPase-activating protein 2 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC002316, AC015921, AC097370
    Consensus CDS
    CCDS92224.1
    UniProtKB/TrEMBL
    A0A8V8TKZ8
    Related
    ENSP00000513294.1, ENST00000697391.1

  5. NM_015085.5 → NP_055900.4  rap1 GTPase-activating protein 2 isoform 1

    See identical proteins and their annotated locations for NP_055900.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1. This variant is also known as variant b, as described in PMID: 15632203.
    Source sequence(s)
    AC015921, AC097370, AJ628446, BE208439, BU629928, CR627427, DN831680
    Consensus CDS
    CCDS45573.1
    UniProtKB/Swiss-Prot
    B2RTY5, Q684P4, Q684P5, Q6AI00, Q6ZVF0, Q9UPW2
    Related
    ENSP00000254695.8, ENST00000254695.13
    Conserved Domains (1) summary
    pfam02145
    Location:278 → 457
    Rap_GAP; Rap/ran-GAP

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    2755645..3037741
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047435668.1 → XP_047291624.1  rap1 GTPase-activating protein 2 isoform X3

  2. XM_011523739.3 → XP_011522041.1  rap1 GTPase-activating protein 2 isoform X1

    Conserved Domains (1) summary
    pfam02145
    Location:304 → 483
    Rap_GAP; Rap/ran-GAP

  3. XM_024450659.2 → XP_024306427.1  rap1 GTPase-activating protein 2 isoform X9

    Conserved Domains (1) summary
    pfam02145
    Location:319 → 441
    Rap_GAP; Rap/ran-GAP

  4. XM_047435669.1 → XP_047291625.1  rap1 GTPase-activating protein 2 isoform X5

  5. XM_011523741.3 → XP_011522043.1  rap1 GTPase-activating protein 2 isoform X3

    See identical proteins and their annotated locations for XP_011522043.1

    UniProtKB/Swiss-Prot
    Q684P5
    Related
    ENSP00000439688.2, ENST00000540393.6
    Conserved Domains (1) summary
    pfam02145
    Location:259 → 438
    Rap_GAP; Rap/ran-GAP

  6. XM_017024371.2 → XP_016879860.1  rap1 GTPase-activating protein 2 isoform X4

  7. XM_047435667.1 → XP_047291623.1  rap1 GTPase-activating protein 2 isoform X2

  8. XM_011523742.3 → XP_011522044.1  rap1 GTPase-activating protein 2 isoform X6

    Conserved Domains (1) summary
    pfam02145
    Location:216 → 395
    Rap_GAP; Rap/ran-GAP

  9. XM_011523743.2 → XP_011522045.1  rap1 GTPase-activating protein 2 isoform X7

    UniProtKB/TrEMBL
    A0A8V8TL16
    Related
    ENSP00000513295.1, ENST00000697392.1
    Conserved Domains (1) summary
    pfam02145
    Location:231 → 410
    Rap_GAP; Rap/ran-GAP

  10. XM_011523744.3 → XP_011522046.1  rap1 GTPase-activating protein 2 isoform X8

    See identical proteins and their annotated locations for XP_011522046.1

    Conserved Domains (1) summary
    pfam02145
    Location:32 → 211
    Rap_GAP; Rap/ran-GAP

  11. XM_011523745.3 → XP_011522047.1  rap1 GTPase-activating protein 2 isoform X10

    Conserved Domains (1) summary
    pfam02145
    Location:62 → 119
    Rap_GAP; Rap/ran-GAP

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    2644826..2926040
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054315545.1 → XP_054171520.1  rap1 GTPase-activating protein 2 isoform X1

  2. XM_054315554.1 → XP_054171529.1  rap1 GTPase-activating protein 2 isoform X9

  3. XM_054315549.1 → XP_054171524.1  rap1 GTPase-activating protein 2 isoform X5

  4. XM_054315547.1 → XP_054171522.1  rap1 GTPase-activating protein 2 isoform X3

  5. XM_054315548.1 → XP_054171523.1  rap1 GTPase-activating protein 2 isoform X4

  6. XM_054315546.1 → XP_054171521.1  rap1 GTPase-activating protein 2 isoform X2

  7. XM_054315550.1 → XP_054171525.1  rap1 GTPase-activating protein 2 isoform X6

  8. XM_054315553.1 → XP_054171528.1  rap1 GTPase-activating protein 2 isoform X7

  9. XM_054315551.1 → XP_054171526.1  rap1 GTPase-activating protein 2 isoform X11

  10. XM_054315552.1 → XP_054171527.1  rap1 GTPase-activating protein 2 isoform X11

  11. XM_054315555.1 → XP_054171530.1  rap1 GTPase-activating protein 2 isoform X10

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q684P5.2 GenPept UniProtKB/Swiss-Prot:Q684P5

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