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Psd4 pleckstrin and Sec7 domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 215632, updated on 5-Mar-2024

Summary

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Official Symbol
Psd4provided by MGI
Official Full Name
pleckstrin and Sec7 domain containing 4provided by MGI
Primary source
MGI:MGI:2674093
See related
Ensembl:ENSMUSG00000026979 AllianceGenome:MGI:2674093
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
EFA6B
Summary
Predicted to enable guanyl-nucleotide exchange factor activity and lipid binding activity. Predicted to be involved in regulation of ARF protein signal transduction. Predicted to be located in cell projection and plasma membrane. Predicted to be active in ruffle membrane. Is expressed in several structures, including central nervous system; eye; gonad; hemolymphoid system gland; and liver. Orthologous to human PSD4 (pleckstrin and Sec7 domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in thymus adult (RPKM 18.9), spleen adult (RPKM 12.4) and 15 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 A3; 2 16.38 cM
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (24257571..24299882)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (24367558..24409870)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7798 Neighboring gene interleukin 1 family, member 10 Neighboring gene interleukin 1 receptor antagonist Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:24238515-24238668 Neighboring gene STARR-positive B cell enhancer ABC_E11125 Neighboring gene paired box 8 Neighboring gene predicted gene 13415 Neighboring gene Pax8 promoter region Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene

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
  • 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. Distinct spatiotemporal expression of EFA6D, a guanine nucleotide exchange factor for ARF6, among the EFA6 family in mouse brain. Sakagami H, et al. Brain Res, 2006 Jun 6. PMID 16707115
  2. A crucial role for Arf6 in the response of commissural axons to Slit. Kinoshita-Kawada M, et al. Development, 2019 Feb 4. PMID 30674481, Free PMC Article
  3. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
  4. The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Koscielny G, et al. Nucleic Acids Res, 2014 Jan. PMID 24194600, Free PMC Article
  5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

See all (17) 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)
  • Targeted (2) 
  • Endonuclease-mediated (1) 

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 MGI

Function Evidence Code Pubs
enables guanyl-nucleotide exchange factor activity IEA
Inferred from Electronic Annotation
more info
  
enables lipid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of ARF protein signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cell projection IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in ruffle membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in ruffle membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
PH and SEC7 domain-containing protein 4
Names
SEC7 homolog
exchange factor for ADP-ribosylation factor guanine nucleotide factor 6 B
exchange factor for ARF6 B
pleckstrin homology and SEC7 domain-containing 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.

mRNA and Protein(s)

  1. NM_001355231.1 → NP_001342160.1  PH and SEC7 domain-containing protein 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. All three variants encode the same protein.
    Source sequence(s)
    AK043669, AL732528
    Consensus CDS
    CCDS15737.1
    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Related
    ENSMUSP00000100006.2, ENSMUST00000102942.8
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  2. NM_001355232.1 → NP_001342161.1  PH and SEC7 domain-containing protein 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AK150238, AL732528
    Consensus CDS
    CCDS15737.1
    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Related
    ENSMUSP00000132395.2, ENSMUST00000166388.2
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  3. NM_177611.4 → NP_808279.1  PH and SEC7 domain-containing protein 4

    See identical proteins and their annotated locations for NP_808279.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AL732528, BC068231
    Consensus CDS
    CCDS15737.1
    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Related
    ENSMUSP00000062415.9, ENSMUST00000056641.15
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    24257571..24299882
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006497835.5 → XP_006497898.1  PH and SEC7 domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006497898.1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  2. XM_030249382.2 → XP_030105242.1  PH and SEC7 domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  3. XM_006497834.5 → XP_006497897.1  PH and SEC7 domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006497897.1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  4. XM_006497836.5 → XP_006497899.1  PH and SEC7 domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006497899.1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  5. XM_006497832.5 → XP_006497895.1  PH and SEC7 domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006497895.1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  6. XM_017317067.3 → XP_017172556.1  PH and SEC7 domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A2AIU4, Q3TE33, Q3TQF5, Q3UD59, Q3UFH9, Q80V44, Q8BLR5
    Conserved Domains (2) summary
    cd00171
    Location:510 → 688
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:722 → 849
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

RNA

  1. XR_004939479.1 RNA Sequence

  2. XR_003951949.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BLR5.1 GenPept UniProtKB/Swiss-Prot:Q8BLR5

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