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

Gene ID: 68507, updated on 27-Nov-2024

Summary

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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. Is active in glutamatergic synapse; parallel fiber to Purkinje cell synapse; and presynapse. 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, Nov 2024]
Expression
Biased expression in cerebellum adult (RPKM 32.2), CNS E18 (RPKM 10.5) and 7 other tissues See more
Orthologs
human all
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Genomic context

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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

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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. 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. Distinct active zone protein machineries mediate Ca(2+) channel clustering and vesicle priming at hippocampal synapses. Emperador-Melero J, et al. Nat Neurosci, 2024 Sep. PMID 39160372

See all (27) 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 (4) 
  • Targeted (2)  1 citation
  • Transposon induced (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 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
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
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

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Preferred Names
liprin-alpha-4
Names
Liprin-alpha4

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_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

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