U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ppfia4 protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 4 [ Mus musculus (house mouse) ]

    Gene ID: 68507, updated on 14-May-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ppfia4provided by MGI
    Official Full Name
    protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 4provided by MGI
    Primary source
    MGI:MGI:1915757
    See related
    Ensembl:ENSMUSG00000026458 AllianceGenome:MGI:1915757
    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
    Gm3812; 100042382; 1110008G13Rik
    Summary
    Predicted to be involved in synapse organization. Located in synapse. Is expressed in several structures, including central nervous system; diaphragm; limb segment; retina; and skeletal musculature. Orthologous to human PPFIA4 (PTPRF interacting protein alpha 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in cerebellum adult (RPKM 32.2), CNS E18 (RPKM 10.5) and 7 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Ppfia4 in Genome Data Viewer
    Location:
    1 E4; 1 58.18 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (134224521..134272493, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (134296783..134344756, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene myogenin promoter-associated myogenic regulatory antisense lncRNA Neighboring gene myogenin Neighboring gene predicted gene, 32267 Neighboring gene transmembrane protein 183A Neighboring gene STARR-seq mESC enhancer starr_02324 Neighboring gene predicted gene, 53477

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Differential expression of liprin-α family proteins in the brain suggests functional diversification. Spangler SA, et al. J Comp Neurol, 2011 Oct 15. PMID 21618222
    2. Creation of knock out and knock in mice by CRISPR/Cas9 to validate candidate genes for human male infertility, interest, difficulties and feasibility. Kherraf ZE, et al. Mol Cell Endocrinol, 2018 Jun 15. PMID 29522859
    3. The mouse and human Liprin-alpha family of scaffolding proteins: genomic organization, expression profiling and regulation by alternative splicing. Zürner M, et al. Genomics, 2009 Mar. PMID 19013515
    4. Analyses of the spatiotemporal expression and subcellular localization of liprin-α proteins. Zürner M, et al. J Comp Neurol, 2011 Oct 15. PMID 21618221
    5. Neurotransmitter release regulated by a MALS-liprin-alpha presynaptic complex. Olsen O, et al. J Cell Biol, 2005 Sep 26. PMID 16186258, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Transposon induced (1) 

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in synapse organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in parallel fiber to Purkinje cell synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in presynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in presynaptic active zone IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    liprin-alpha-4
    Names
    Liprin-alpha4

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001144855.1 → NP_001138327.1  liprin-alpha-4 isoform 1

      See identical proteins and their annotated locations for NP_001138327.1

      Status: VALIDATED

      Source sequence(s)
      EU568872
      Consensus CDS
      CCDS48369.1
      UniProtKB/TrEMBL
      B8QI36, Q69ZW5
      Related
      ENSMUSP00000128314.2, ENSMUST00000168515.8
      Conserved Domains (5) summary
      cd09562
      Location:826 → 896
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      cd09565
      Location:943 → 1008
      SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
      cd09568
      Location:1028 → 1099
      SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
      COG1196
      Location:241 → 470
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15921
      Location:21 → 639
      CCDC158; Coiled-coil domain-containing protein 158

    2. NM_001374777.1 → NP_001361706.1  liprin-alpha-4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC124110
      Consensus CDS
      CCDS87879.1
      UniProtKB/TrEMBL
      A0A087WPM2, Q69ZW5
      Related
      ENSMUSP00000139833.2, ENSMUST00000189361.2
      Conserved Domains (5) summary
      cd09562
      Location:826 → 896
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      cd09565
      Location:943 → 1008
      SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
      cd09568
      Location:1028 → 1099
      SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
      COG1196
      Location:241 → 470
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15921
      Location:21 → 639
      CCDC158; Coiled-coil domain-containing protein 158

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      134224521..134272493 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006529848.4 → XP_006529911.1  liprin-alpha-4 isoform X1

      UniProtKB/TrEMBL
      Q69ZW5
      Conserved Domains (5) summary
      cd09562
      Location:826 → 896
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      cd09565
      Location:934 → 999
      SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
      cd09568
      Location:1019 → 1090
      SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
      COG1196
      Location:241 → 470
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:19 → 460
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    2. XM_006529849.5 → XP_006529912.1  liprin-alpha-4 isoform X2

      Conserved Domains (3) summary
      cd09562
      Location:826 → 896
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      COG1196
      Location:241 → 470
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02169
      Location:36 → 418
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type

    RNA

    1. XR_001785571.3 RNA Sequence

    2. XR_004934162.1 RNA Sequence

    3. XR_387191.4 RNA Sequence

    4. XR_387189.4 RNA Sequence

    5. XR_387190.3 RNA Sequence

    6. XR_004934166.1 RNA Sequence

    7. XR_004934163.1 RNA Sequence

    8. XR_001785570.3 RNA Sequence

    9. XR_004934165.1 RNA Sequence

    10. XR_001785569.3 RNA Sequence

    11. XR_004934161.1 RNA Sequence

    12. XR_004934164.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous