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

    Gene ID: 215632, updated on 27-Nov-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 junction. 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, Nov 2024]
    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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    See Psd4 in Genome Data Viewer
    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 (18) 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) 
    • Targeted (2) 

    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 junction 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
    		  
    located_in ruffle membrane ISS
    Inferred from Sequence or Structural Similarity
    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_001355231.2 → NP_001342160.1  PH and SEC7 domain-containing protein 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. All seven variants encode the same protein.
      Source sequence(s)
      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_001355232.2 → 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 seven variants encode the same protein.
      Source sequence(s)
      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_001434191.1 → NP_001421120.1  PH and SEC7 domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AL732528

    4. NM_001434192.1 → NP_001421121.1  PH and SEC7 domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AL732528

    5. NM_001434193.1 → NP_001421122.1  PH and SEC7 domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AL732528

    6. NM_001434194.1 → NP_001421123.1  PH and SEC7 domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      AL732528

    7. NM_177611.5 → 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 seven variants encode the same protein.
      Source sequence(s)
      AL732528
      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

      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

      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

    Gene LinkOut

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