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Arhgef40 Rho guanine nucleotide exchange factor 40 [ Mus musculus (house mouse) ]

Gene ID: 268739, updated on 2-Nov-2024

Summary

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Official Symbol
Arhgef40provided by MGI
Official Full Name
Rho guanine nucleotide exchange factor 40provided by MGI
Primary source
MGI:MGI:2685515
See related
Ensembl:ENSMUSG00000004562 AllianceGenome:MGI:2685515
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
Also known as
Solo; Gm669; E130112L23Rik
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be located in cytosol and plasma membrane. Is expressed in cerebral cortex ventricular layer and retina. Orthologous to human ARHGEF40 (Rho guanine nucleotide exchange factor 40). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in limb E14.5 (RPKM 18.9), genital fat pad adult (RPKM 11.5) and 27 other tissues See more
Orthologs
human all
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Genomic context

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See Arhgef40 in Genome Data Viewer
Location:
14 C2; 14 26.75 cM
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (52222158..52243704)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (51984428..52006247)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene ribonuclease, RNase A family, 13 (non-active) Neighboring gene chaperonin containing Tcp1, subunit 6a (zeta) pseudogene Neighboring gene predicted gene, 16617 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:52628339-52628522 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:52628697-52628806 Neighboring gene zinc finger protein 219 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:52639962-52640145 Neighboring gene STARR-seq mESC enhancer starr_36687 Neighboring gene transmembrane protein 253 Neighboring gene olfactory receptor family 5 subfamily AU member 1

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. Identification, expression analysis, genomic organization and cellular location of a novel protein with a RhoGEF domain. Tse SW, et al. Gene, 2005 Oct 10. PMID 16143467
  2. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545
  3. Inactivation of the microRNA-183/96/182 cluster results in syndromic retinal degeneration. Lumayag S, et al. Proc Natl Acad Sci U S A, 2013 Feb 5. PMID 23341629, Free PMC Article
  4. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article
  5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

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 (1) 

General gene information

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Markers

Homology

Clone Names

  • FLJ10357

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables guanyl-nucleotide exchange factor activity IEA
Inferred from Electronic Annotation
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
rho guanine nucleotide exchange factor 40
Names
Rho guanine nucleotide exchange factor (GEF) 40
protein SOLO

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_001145921.1 → NP_001139393.1  rho guanine nucleotide exchange factor 40 isoform 2

    See identical proteins and their annotated locations for NP_001139393.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences in the 3' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter when compared to isoform 1.
    Source sequence(s)
    AK131136, AK143527, AK163945
    Consensus CDS
    CCDS49489.1
    UniProtKB/TrEMBL
    S4R189
    Related
    ENSMUSP00000098204.4, ENSMUST00000100639.11
    Conserved Domains (3) summary
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02488
    Location:784 → 891
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  2. NM_001145922.1 → NP_001139394.1  rho guanine nucleotide exchange factor 40 isoform 3

    See identical proteins and their annotated locations for NP_001139394.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The resulting protein (isoform 3) is shorter when compared to isoform 1.
    Source sequence(s)
    AK143527, AK163945, BC059018
    Consensus CDS
    CCDS59616.1
    UniProtKB/TrEMBL
    S4R189
    Related
    ENSMUSP00000138128.2, ENSMUST00000182061.8
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  3. NM_198249.4 → NP_937892.2  rho guanine nucleotide exchange factor 40 isoform 1

    See identical proteins and their annotated locations for NP_937892.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
    Source sequence(s)
    AK143527, AK163945
    Consensus CDS
    CCDS49488.1
    UniProtKB/Swiss-Prot
    Q3U1X1, Q3UGT7, Q3UPH7, Q3UYX3, Q6KAS1, Q6PD04, Q6PDY3
    UniProtKB/TrEMBL
    S4R189
    Related
    ENSMUSP00000091331.5, ENSMUST00000093813.12
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

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_000080.7 Reference GRCm39 C57BL/6J

    Range
    52222158..52243704
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006519041.5 → XP_006519104.1  rho guanine nucleotide exchange factor 40 isoform X1

    See identical proteins and their annotated locations for XP_006519104.1

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  2. XM_006519042.5 → XP_006519105.1  rho guanine nucleotide exchange factor 40 isoform X1

    See identical proteins and their annotated locations for XP_006519105.1

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  3. XM_006519044.5 → XP_006519107.1  rho guanine nucleotide exchange factor 40 isoform X3

    See identical proteins and their annotated locations for XP_006519107.1

    UniProtKB/Swiss-Prot
    Q3U1X1, Q3UGT7, Q3UPH7, Q3UYX3, Q6KAS1, Q6PD04, Q6PDY3
    UniProtKB/TrEMBL
    S4R189
    Related
    ENSMUSP00000138635.2, ENSMUST00000182909.8
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  4. XM_036158605.1 → XP_036014498.1  rho guanine nucleotide exchange factor 40 isoform X4

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02488
    Location:784 → 891
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  5. XM_030247828.2 → XP_030103688.1  rho guanine nucleotide exchange factor 40 isoform X5

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  6. XM_011245076.4 → XP_011243378.1  rho guanine nucleotide exchange factor 40 isoform X6

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  7. XM_030247829.2 → XP_030103689.1  rho guanine nucleotide exchange factor 40 isoform X7

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02488
    Location:784 → 891
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  8. XM_036158606.1 → XP_036014499.1  rho guanine nucleotide exchange factor 40 isoform X7

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02488
    Location:784 → 891
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

  9. XM_017316026.3 → XP_017171515.1  rho guanine nucleotide exchange factor 40 isoform X2

    UniProtKB/TrEMBL
    S4R189
    Conserved Domains (3) summary
    COG0497
    Location:755 → 874
    RecN; DNA repair ATPase RecN [Replication, recombination and repair]
    cd13242
    Location:1242 → 1377
    PH_puratrophin-1; Puratrophin-1 pleckstrin homology (PH) domain
    cl02571
    Location:1084 → 1243
    RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

RNA

  1. XR_001781123.3 RNA Sequence

  2. XR_004938402.1 RNA Sequence

    Related
    ENSMUST00000182905.8

  3. XR_003950857.2 RNA Sequence

    Related
    ENSMUST00000183208.8

  4. XR_003950858.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3UPH7.1 GenPept UniProtKB/Swiss-Prot:Q3UPH7

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