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ARHGAP42 Rho GTPase activating protein 42 [ Homo sapiens (human) ]

Gene ID: 143872, updated on 14-Nov-2024

Summary

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Official Symbol
ARHGAP42provided by HGNC
Official Full Name
Rho GTPase activating protein 42provided by HGNC
Primary source
HGNC:HGNC:26545
See related
Ensembl:ENSG00000165895 MIM:615936; AllianceGenome:HGNC:26545
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
AD031; GRAF3; TMEM133
Summary
This gene encodes a Rho GTPase-activating protein (RhoGAP), and member of the GRAF or BAR-PH family of proteins. Expression of this gene is enriched in vascular smooth muscle cells and the encoded protein inhibits RhoA activity to regulate vascular tone and control blood pressure. A mutation in the first intron of this gene modulates its expression and is associated with reduced blood pressure in human patients with borderline hypertension. [provided by RefSeq, Jul 2017]
Expression
Ubiquitous expression in placenta (RPKM 4.3), thyroid (RPKM 3.5) and 24 other tissues See more
Orthologs
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Genomic context

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See ARHGAP42 in Genome Data Viewer
Location:
11q22.1
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (100687288..100993941)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (100696486..101003484)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (100558019..100864672)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:100540441-100540942 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:100540943-100541442 Neighboring gene uncharacterized LOC124902736 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:100549285-100549786 Neighboring gene ARHGAP42 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 11910 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5428 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:100569215-100569715 Neighboring gene peptidylprolyl isomerase A pseudogene 43 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:100596358-100597237 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5429 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:100618800-100619666 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:100620727-100621926 Neighboring gene Sharpr-MPRA regulatory region 13184 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:100699775-100700498 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:100698323-100699048 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:100699049-100699774 Neighboring gene Sharpr-MPRA regulatory region 13718 Neighboring gene RN7SK pseudogene 115 Neighboring gene uncharacterized LOC105369457 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5430 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5431 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_18463 Neighboring gene Sharpr-MPRA regulatory region 5256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5432 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_18498 Neighboring gene small nucleolar RNA, C/D box 13I Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:100848900-100849468 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:100849469-100850035 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:100953401-100953965 Neighboring gene progesterone receptor Neighboring gene MPRA-validated peak1438 silencer Neighboring gene PGR antisense RNA 1 Neighboring gene MTMR12 pseudogene 1

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 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A homozygous stop-gain variant in ARHGAP42 is associated with childhood interstitial lung disease, systemic hypertension, and immunological findings.
    Title: A homozygous stop-gain variant in ARHGAP42 is associated with childhood interstitial lung disease, systemic hypertension, and immunological findings.
  2. Maternal Hypertension-Related Genotypes and Congenital Heart Defects.
    Title: Maternal Hypertension-Related Genotypes and Congenital Heart Defects.
  3. GRAF3 serves as a blood volume-sensitive rheostat to control smooth muscle contractility and blood pressure.
    Title: GRAF3 serves as a blood volume-sensitive rheostat to control smooth muscle contractility and blood pressure.
  4. A decreased expression level of Rho GTPase-activating protein 42 gene (ARHGAP42) mRNA in the blood was found in the translocation carriers relative to controls.
    Title: Haploinsufficiency of ARHGAP42 is associated with hypertension.
  5. ARHGAP42 expression was inhibited by micro-RNA 505 (miR505) which interacted with the ARHGAP42 3'-untranslated region (UTR) to facilitate its degradation and by AK124326, a long noncoding RNA that overlaps with the ARHGAP42 transcription start site on the opposite DNA strand
    Title: Transcriptional and posttranscriptional regulation of the SMC-selective blood pressure-associated gene, ARHGAP42.
  6. Blood pressure-associated polymorphism controls ARHGAP42 expression via serum response factor DNA binding
    Title: Blood pressure-associated polymorphism controls ARHGAP42 expression via serum response factor DNA binding.
  7. The smooth muscle-selective GRAF3 is a critical regulator of vascular tone and hypertension.
    Title: The smooth muscle-selective RhoGAP GRAF3 is a critical regulator of vascular tone and hypertension.
  8. 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.
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
Genetic variants in novel pathways influence blood pressure and cardiovascular disease risk.
EBI GWAS Catalog
Genome wide association study of age at menarche in the Japanese population.
EBI GWAS Catalog
Genome-wide association study identifies six new loci influencing pulse pressure and mean arterial pressure.
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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ32810, FLJ94892, KIAA0621, MGC120878, MGC138255

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables GTPase activator activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in activation of GTPase activity IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of Rho protein signal transduction IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of systemic arterial blood pressure IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of vascular associated smooth muscle contraction IEA
Inferred from Electronic Annotation
more info
  
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
rho GTPase-activating protein 42
Names
rho-type GTPase-activating protein 42
transmembrane protein 133

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_001367945.1 → NP_001354874.1  rho GTPase-activating protein 42 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC015600, AP000872, AP001351
    UniProtKB/TrEMBL
    A0A2X0SYU7

  2. NM_152432.4 → NP_689645.2  rho GTPase-activating protein 42 isoform 1

    See identical proteins and their annotated locations for NP_689645.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AI672473, AI677857, AK057372, AP000872, AP001351, AV690946, BM014001, BU146672, CK824101, DA800121, EG328683, HY036401
    UniProtKB/Swiss-Prot
    A6NI28, Q96M56
    UniProtKB/TrEMBL
    A0A2X0SYU7
    Related
    ENSP00000298815.7, ENST00000298815.13
    Conserved Domains (4) summary
    cd07634
    Location:19 → 225
    BAR_GAP10-like; The Bin/Amphiphysin/Rvs (BAR) domain of Rho GTPase activating protein 10-like
    cd12066
    Location:820 → 874
    SH3_GRAF3; Src Homology 3 domain of GTPase Regulator Associated with Focal adhesion kinase 3
    cd04374
    Location:369 → 567
    RhoGAP_Graf; GTPase-activator protein (GAP) domain for Rho-like GTPases found in GRAF (GTPase regulator associated with focal adhesion kinase); Graf is a multi-domain protein, containing SH3 and PH domains, that binds focal adhesion kinase and influences cytoskeletal ...
    cd01249
    Location:267 → 376
    BAR-PH_GRAF_family; GTPase Regulator Associated with Focal adhesion and related proteins Pleckstrin homology (PH) domain

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    100687288..100993941
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542616.3 → XP_011540918.1  rho GTPase-activating protein 42 isoform X1

    See identical proteins and their annotated locations for XP_011540918.1

    UniProtKB/TrEMBL
    A0A2X0SYU7
    Conserved Domains (5) summary
    cd12066
    Location:766 → 820
    SH3_GRAF3; Src Homology 3 domain of GTPase Regulator Associated with Focal adhesion kinase 3
    cd04374
    Location:315 → 513
    RhoGAP_Graf; RhoGAP_Graf: GTPase-activator protein (GAP) domain for Rho-like GTPases found in GRAF (GTPase regulator associated with focal adhesion kinase); Graf is a multi-domain protein, containing SH3 and PH domains, that binds focal adhesion kinase and influences ...
    cd01249
    Location:213 → 322
    BAR-PH_GRAF_family; GTPase Regulator Associated with Focal adhesion and related proteins Pleckstrin homology (PH) domain
    pfam00169
    Location:213 → 315
    PH; PH domain
    cl12013
    Location:1 → 171
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

  2. XM_011542615.3 → XP_011540917.1  rho GTPase-activating protein 42 isoform X1

    See identical proteins and their annotated locations for XP_011540917.1

    UniProtKB/TrEMBL
    A0A2X0SYU7
    Conserved Domains (5) summary
    cd12066
    Location:766 → 820
    SH3_GRAF3; Src Homology 3 domain of GTPase Regulator Associated with Focal adhesion kinase 3
    cd04374
    Location:315 → 513
    RhoGAP_Graf; RhoGAP_Graf: GTPase-activator protein (GAP) domain for Rho-like GTPases found in GRAF (GTPase regulator associated with focal adhesion kinase); Graf is a multi-domain protein, containing SH3 and PH domains, that binds focal adhesion kinase and influences ...
    cd01249
    Location:213 → 322
    BAR-PH_GRAF_family; GTPase Regulator Associated with Focal adhesion and related proteins Pleckstrin homology (PH) domain
    pfam00169
    Location:213 → 315
    PH; PH domain
    cl12013
    Location:1 → 171
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

  3. XM_047426418.1 → XP_047282374.1  rho GTPase-activating protein 42 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    100696486..101003484
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367759.1 → XP_054223734.1  rho GTPase-activating protein 42 isoform X1

  2. XM_054367757.1 → XP_054223732.1  rho GTPase-activating protein 42 isoform X1

  3. XM_054367758.1 → XP_054223733.1  rho GTPase-activating protein 42 isoform X1

  4. XM_054367760.1 → XP_054223735.1  rho GTPase-activating protein 42 isoform X2

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032021.2: Suppressed sequence

    Description
    NM_032021.2: This RefSeq was removed because it is primarily UTR sequence.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A6NI28.3 GenPept UniProtKB/Swiss-Prot:A6NI28

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