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Ppfia4 PTPRF interacting protein alpha 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 140592, updated on 17-Aug-2024

Summary

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Official Symbol
Ppfia4provided by RGD
Official Full Name
PTPRF interacting protein alpha 4provided by RGD
Primary source
RGD:620055
See related
EnsemblRapid:ENSRNOG00000003494 AllianceGenome:RGD:620055
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to be involved in synapse organization. Predicted to be located in synapse. Predicted to be active in presynaptic active zone. Orthologous to human PPFIA4 (PTPRF interacting protein alpha 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 70.0), Heart (RPKM 19.5) and 6 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ppfia4 in Genome Data Viewer
Location:
13q13
Exon count:
31
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (48305844..48354329, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (45753827..45802305, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (51134831..51183321, complement)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene myosin binding protein H Neighboring gene adenosine A1 receptor Neighboring gene uncharacterized LOC120096189 Neighboring gene myogenin Neighboring gene transmembrane protein 183A Neighboring gene Mgat4 family, member E-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

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. Identification and characterization of human PPFIA4 gene in silico. Katoh M, et al. Int J Mol Med, 2003 Dec. PMID 14612982
  3. Association of the kinesin motor KIF1A with the multimodular protein liprin-alpha. Shin H, et al. J Biol Chem, 2003 Mar 28. PMID 12522103
  4. RIM1alpha forms a protein scaffold for regulating neurotransmitter release at the active zone. Schoch S, et al. Nature, 2002 Jan 17. PMID 11797009
  5. Analyses of the spatiotemporal expression and subcellular localization of liprin-α proteins. Zürner M, et al. J Comp Neurol, 2011 Oct 15. PMID 21618221

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

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 RGD

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 cell surface IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in parallel fiber to Purkinje cell synapse IEA
Inferred from Electronic Annotation
more info
  
is_active_in parallel fiber to Purkinje cell synapse ISO
Inferred from Sequence Orthology
more info
  
located_in presynapse IEA
Inferred from Electronic Annotation
more info
  
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in presynaptic active zone IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
  
located_in synapse ISO
Inferred from Sequence Orthology
more info
  
located_in synapse ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
liprin-alpha-4
Names
protein tyrosine phosphatase receptor type f polypeptide-interacting protein alpha-4
protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 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_080409.1 → NP_536334.1  liprin-alpha-4

    Status: VALIDATED

    Source sequence(s)
    AY057064, BF285985, CB584337, JAXUCZ010000013
    UniProtKB/TrEMBL
    A0A8I6AIZ8
    Related
    ENSRNOP00000033209.6, ENSRNOT00000039540.8
    Conserved Domains (7) summary
    cd09562
    Location:827 → 897
    SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
    cd09565
    Location:944 → 1009
    SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
    cd09568
    Location:1029 → 1100
    SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
    smart00454
    Location:827 → 893
    SAM; Sterile alpha motif
    pfam15619
    Location:174 → 355
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
    cd16269
    Location:437 → 449
    GBP_C; coiled coil [structural motif]
    cl20817
    Location:258 → 470
    GBP_C; Guanylate-binding protein, C-terminal domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086031.1 Reference GRCr8

    Range
    48305844..48354329 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063271978.1 → XP_063128048.1  liprin-alpha-4 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AIZ8
    Related
    ENSRNOP00000081918.2, ENSRNOT00000108350.2

  2. XM_063271976.1 → XP_063128046.1  liprin-alpha-4 isoform X2

    UniProtKB/TrEMBL
    A0A8I6AIZ8, A6ICB3, F1M863

  3. XM_063271975.1 → XP_063128045.1  liprin-alpha-4 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZQL8, A0A8I6AIZ8
    Related
    ENSRNOP00000080414.1, ENSRNOT00000115473.2

  4. XM_063271977.1 → XP_063128047.1  liprin-alpha-4 isoform X3

    UniProtKB/TrEMBL
    A0A8I6AIZ8

  5. XM_039090290.2 → XP_038946218.1  liprin-alpha-4 isoform X6

    Conserved Domains (2) summary
    COG1196
    Location:241 → 470
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:37 → 409
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type

  6. XM_039090289.2 → XP_038946217.1  liprin-alpha-4 isoform X5

    Conserved Domains (2) summary
    COG1196
    Location:241 → 470
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:37 → 409
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type

RNA

  1. XR_005492195.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q91Z80.1 GenPept UniProtKB/Swiss-Prot:Q91Z80

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