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ARHGEF16 Rho guanine nucleotide exchange factor 16 [ Homo sapiens (human) ]

Gene ID: 27237, updated on 3-Apr-2024

Summary

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Official Symbol
ARHGEF16provided by HGNC
Official Full Name
Rho guanine nucleotide exchange factor 16provided by HGNC
Primary source
HGNC:HGNC:15515
See related
Ensembl:ENSG00000130762 MIM:618871; AllianceGenome:HGNC:15515
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
NBR; GEF16
Summary
Although the specific function of this protein is not known yet, it is thought to be involved in protein-protein and protein-lipid interactions. [provided by RefSeq, Jul 2008]
Expression
Broad expression in duodenum (RPKM 15.0), small intestine (RPKM 12.9) and 17 other tissues See more
Orthologs
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Genomic context

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Location:
1p36.32
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (3454665..3481113)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (2959327..2988135)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (3371229..3397677)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene PR/SET domain 16 Neighboring gene collagen alpha-5(IV) chain-like Neighboring gene VISTA enhancer hs705 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:3191818-3193017 Neighboring gene Sharpr-MPRA regulatory region 1987 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3212462-3212962 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:3215870-3217069 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6721 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3220731-3221288 Neighboring gene uncharacterized LOC105378604 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:3229262-3230461 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr1:3231799-3232358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3235695-3236196 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3236197-3236696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3237397-3238015 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3246879-3247556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3255514-3256329 Neighboring gene VISTA enhancer hs1912 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3268668-3269642 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3269643-3270616 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3272921-3273812 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3273813-3274702 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3277409-3277908 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:3285513-3286094 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3303704-3304204 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3304205-3304705 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3307961-3308462 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3311898-3312581 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3312582-3313264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3320127-3320627 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3325025-3325602 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3332377-3333072 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3331680-3332376 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3337228-3337728 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3350015-3350524 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3357159-3357921 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3369311-3370063 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3373825-3374576 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_7120 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3388131-3388756 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3399659-3400494 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3400495-3401329 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3408710-3409234 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3408184-3408709 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 119 Neighboring gene MEGF6 intron CAGE-defined mid-level expression enhancer Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_7326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3439723-3440262 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3445841-3446528 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3447217-3447902 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:3449965-3450651 Neighboring gene multiple EGF like domains 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3459643-3460294 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3460295-3460948 Neighboring gene MPRA-validated peak19 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:3463961-3464599 Neighboring gene uncharacterized LOC105378608 Neighboring gene microRNA 551a

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. Analogues of Y27632 increase gap junction communication and suppress the formation of transformed NIH3T3 colonies. Hampson L, et al. Br J Cancer, 2009 Sep 1. PMID 19707205, Free PMC Article
  2. FYN is required for ARHGEF16 to promote proliferation and migration in colon cancer cells. Yu B, et al. Cell Death Dis, 2020 Aug 7. PMID 32811808, Free PMC Article
  3. EphA2 phosphorylation at Ser897 by the Cdk1/MEK/ERK/RSK pathway regulates M-phase progression via maintenance of cortical rigidity. Kaibori Y, et al. FASEB J, 2019 Apr. PMID 30668924
  4. Arhgef16, a novel Elmo1 binding partner, promotes clearance of apoptotic cells via RhoG-dependent Rac1 activation. Lee J, et al. Biochim Biophys Acta, 2014 Nov. PMID 25063526
  5. GLI2 promotes cell proliferation and migration through transcriptional activation of ARHGEF16 in human glioma cells. Huang D, et al. J Exp Clin Cancer Res, 2018 Oct 11. PMID 30305138, Free PMC Article

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. FYN is required for ARHGEF16 to promote proliferation and migration in colon cancer cells.
    Title: FYN is required for ARHGEF16 to promote proliferation and migration in colon cancer cells.
  2. Authors found that ARHGEF16 mRNA level was upregulated in U87 cells overexpressing GLI2A relative to control cells. GLI2 binds to the ARHGEF16 promoter and activates gene transcription. Glioma cells U87 and U118 overexpressing ARHGEF16 showed enhanced migration and proliferation.
    Title: GLI2 promotes cell proliferation and migration through transcriptional activation of ARHGEF16 in human glioma cells.
  3. Sixty-four novel structural analogues of Y27632 were synthesized and tested for their ability to persistently inhibit the transformation of NIH3T3 cells by Rho guanidine exchange factor 16 (ARHGEF16) or Ras.
    Title: Analogues of Y27632 increase gap junction communication and suppress the formation of transformed NIH3T3 colonies.
  4. These data suggest that HPV16 E6, Tip-1 and ARHGEF16 may cooperate to activate Cdc42 and support a potential link between the expression of HPV16 E6 and Cdc42 activation
    Title: The HPV16 E6 binding protein Tip-1 interacts with ARHGEF16, which activates Cdc42.
  5. The ephexin4 protein mediates cell migration through a RhoG-dependent mechanism.
    Title: Ephexin4 and EphA2 mediate cell migration through a RhoG-dependent mechanism.
  6. Observational study of gene-disease association. (HuGE Navigator)
    Title: Mutation of ARHGAP9 in patients with coronary spastic angina.
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 of lipid-lowering response to statins in combined study populations.
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)

Genotypes

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 GOA

Function Evidence Code Pubs
enables PDZ domain binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables cadherin binding HDA PubMed 
enables guanyl-nucleotide exchange factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables receptor tyrosine kinase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables small GTPase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in activation of GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in activation of GTPase activity IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in activation of GTPase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell chemotaxis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of protein localization to plasma membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
rho guanine nucleotide exchange factor 16
Names
Rho guanine exchange factor (GEF) 16
Rho guanine nucleotide exchange factor (GEF) 16
ephexin-4
ephexin4

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_014448.4 → NP_055263.2  rho guanine nucleotide exchange factor 16

    See identical proteins and their annotated locations for NP_055263.2

    Status: REVIEWED

    Source sequence(s)
    AL512413
    Consensus CDS
    CCDS46.2
    UniProtKB/Swiss-Prot
    Q5VV41, Q86TF0, Q99434
    UniProtKB/TrEMBL
    A0A2X0SFX5, B3KTS4
    Related
    ENSP00000367629.4, ENST00000378378.9
    Conserved Domains (4) summary
    cd11938
    Location:633 → 686
    SH3_ARHGEF16_26; Src homology 3 domain of the Rho guanine nucleotide exchange factors ARHGEF16 and ARHGEF26
    cd01221
    Location:489 → 622
    PH_ephexin; Ephexin Pleckstrin homology (PH) domain
    pfam00169
    Location:501 → 620
    PH; PH domain
    pfam00621
    Location:288 → 467
    RhoGEF; RhoGEF domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    3454665..3481113
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017001051.2 → XP_016856540.1  rho guanine nucleotide exchange factor 16 isoform X2

    UniProtKB/Swiss-Prot
    Q5VV41, Q86TF0, Q99434
    UniProtKB/TrEMBL
    A0A2X0SFX5, B3KTS4
    Conserved Domains (4) summary
    cd11938
    Location:633 → 686
    SH3_ARHGEF16_26; Src homology 3 domain of the Rho guanine nucleotide exchange factors ARHGEF16 and ARHGEF26
    cd01221
    Location:489 → 622
    PH_ephexin; Ephexin Pleckstrin homology (PH) domain
    pfam00169
    Location:501 → 620
    PH; PH domain
    pfam00621
    Location:288 → 467
    RhoGEF; RhoGEF domain

  2. XM_017001049.2 → XP_016856538.1  rho guanine nucleotide exchange factor 16 isoform X1

    UniProtKB/TrEMBL
    A0A2X0SFX5

  3. XM_047418009.1 → XP_047273965.1  rho guanine nucleotide exchange factor 16 isoform X4

  4. XM_024446454.2 → XP_024302222.1  rho guanine nucleotide exchange factor 16 isoform X3

    UniProtKB/TrEMBL
    B4DJM7
    Related
    ENSP00000367624.1, ENST00000378373.5
    Conserved Domains (3) summary
    cd11938
    Location:345 → 398
    SH3_ARHGEF16_26; Src homology 3 domain of the Rho guanine nucleotide exchange factors ARHGEF16 and ARHGEF26
    cd01221
    Location:201 → 334
    PH_ephexin; Ephexin Pleckstrin homology (PH) domain
    pfam00621
    Location:1 → 178
    RhoGEF; RhoGEF domain

  5. XM_024446455.2 → XP_024302223.1  rho guanine nucleotide exchange factor 16 isoform X3

    UniProtKB/TrEMBL
    B4DJM7
    Related
    ENSP00000367622.2, ENST00000378371.6
    Conserved Domains (3) summary
    cd11938
    Location:345 → 398
    SH3_ARHGEF16_26; Src homology 3 domain of the Rho guanine nucleotide exchange factors ARHGEF16 and ARHGEF26
    cd01221
    Location:201 → 334
    PH_ephexin; Ephexin Pleckstrin homology (PH) domain
    pfam00621
    Location:1 → 178
    RhoGEF; RhoGEF domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    2959327..2988135
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336013.1 → XP_054191988.1  rho guanine nucleotide exchange factor 16 isoform X2

  2. XM_054336012.1 → XP_054191987.1  rho guanine nucleotide exchange factor 16 isoform X1

  3. XM_054336016.1 → XP_054191991.1  rho guanine nucleotide exchange factor 16 isoform X5

  4. XM_054336014.1 → XP_054191989.1  rho guanine nucleotide exchange factor 16 isoform X3

  5. XM_054336015.1 → XP_054191990.1  rho guanine nucleotide exchange factor 16 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5VV41.1 GenPept UniProtKB/Swiss-Prot:Q5VV41

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