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    Ppfibp1 PPFIA binding protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312855, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ppfibp1provided by RGD
    Official Full Name
    PPFIA binding protein 1provided by RGD
    Primary source
    RGD:1310010
    See related
    EnsemblRapid:ENSRNOG00000031709 AllianceGenome:RGD:1310010
    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 cortical microtubule organization and neuromuscular junction development. Predicted to be located in cell cortex and plasma membrane. Predicted to be active in presynaptic active zone. Orthologous to human PPFIBP1 (PPFIA binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 358.7), Kidney (RPKM 263.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ppfibp1 in Genome Data Viewer
    Location:
    4q44
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (181538249..181682079)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (179807579..179951428)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (181285179..181428157)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene basic helix-loop-helix ARNT like 2 Neighboring gene single-pass membrane protein with coiled-coil domains 2 Neighboring gene similar to human chromosome 12 open reading frame 71 Neighboring gene high mobility group protein B1-like Neighboring gene RAB15 effector protein Neighboring gene mitochondrial ribosomal protein S35

    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
    • 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. Analysis of the myosin-II-responsive focal adhesion proteome reveals a role for β-Pix in negative regulation of focal adhesion maturation. Kuo JC, et al. Nat Cell Biol, 2011 Apr. PMID 21423176, Free PMC Article
    2. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cortical microtubule organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuromuscular junction development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cell cortex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in presynaptic active zone IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    liprin-beta-1
    Names
    PTPRF interacting protein, binding protein 1 (liprin beta 1)

    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_001395638.1 → NP_001382567.1  liprin-beta-1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (4) summary
      cd09563
      Location:613 → 676
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:687 → 749
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:772 → 843
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:47 → 310
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    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_086022.1 Reference GRCr8

      Range
      181538249..181682079
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008763382.3 → XP_008761604.1  liprin-beta-1 isoform X1

      See identical proteins and their annotated locations for XP_008761604.1

      UniProtKB/TrEMBL
      A0A0G2K781, A0A8I6ANB2
      Conserved Domains (5) summary
      cd09563
      Location:666 → 729
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:740 → 802
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:825 → 896
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:383 → 648
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:100 → 352
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    2. XM_063286177.1 → XP_063142247.1  liprin-beta-1 isoform X6

      UniProtKB/TrEMBL
      A0A8I6ATF2

    3. XM_063286181.1 → XP_063142251.1  liprin-beta-1 isoform X9

      Related
      ENSRNOP00000097266.2, ENSRNOT00000115987.2

    4. XM_063286179.1 → XP_063142249.1  liprin-beta-1 isoform X8

    5. XM_063286183.1 → XP_063142253.1  liprin-beta-1 isoform X10

      Related
      ENSRNOP00000093133.2, ENSRNOT00000094198.2

    6. XM_063286186.1 → XP_063142256.1  liprin-beta-1 isoform X13

      UniProtKB/TrEMBL
      A0A8I6AGP2

    7. XM_063286188.1 → XP_063142258.1  liprin-beta-1 isoform X14

    8. XM_063286189.1 → XP_063142259.1  liprin-beta-1 isoform X16

      Related
      ENSRNOP00000039655.4, ENSRNOT00000044147.5

    9. XM_039107707.2 → XP_038963635.1  liprin-beta-1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K781, A0A8I6ANB2
      Conserved Domains (5) summary
      cd09563
      Location:666 → 729
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:740 → 802
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:825 → 896
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:383 → 648
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:100 → 352
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    10. XM_039107711.2 → XP_038963639.1  liprin-beta-1 isoform X5

      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (4) summary
      cd09563
      Location:655 → 718
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:729 → 791
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:814 → 885
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:100 → 352
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    11. XM_039107710.2 → XP_038963638.1  liprin-beta-1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2K781
      Related
      ENSRNOP00000096890.2, ENSRNOT00000098646.2
      Conserved Domains (5) summary
      cd09563
      Location:656 → 719
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:730 → 792
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:815 → 886
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:383 → 638
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:100 → 352
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    12. XM_039107713.2 → XP_038963641.1  liprin-beta-1 isoform X6

      UniProtKB/TrEMBL
      A0A0G2K781, A0A8I6ATF2
      Conserved Domains (4) summary
      cd09563
      Location:645 → 708
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:719 → 781
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:804 → 875
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:100 → 352
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    13. XM_039107712.2 → XP_038963640.1  liprin-beta-1 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (5) summary
      cd09563
      Location:655 → 718
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:729 → 791
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:814 → 885
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:372 → 637
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:47 → 341
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    14. XM_039107719.2 → XP_038963647.1  liprin-beta-1 isoform X17

      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (4) summary
      cd09563
      Location:644 → 707
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:718 → 780
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:803 → 874
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:47 → 341
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    15. XM_063286178.1 → XP_063142248.1  liprin-beta-1 isoform X7

      Related
      ENSRNOP00000074098.2, ENSRNOT00000083633.3

    16. XM_063286180.1 → XP_063142250.1  liprin-beta-1 isoform X9

    17. XM_039107714.2 → XP_038963642.1  liprin-beta-1 isoform X8

      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (5) summary
      cd09563
      Location:635 → 698
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:709 → 771
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:794 → 865
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:352 → 617
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:47 → 321
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    18. XM_063286184.1 → XP_063142254.1  liprin-beta-1 isoform X11

    19. XM_063286182.1 → XP_063142252.1  liprin-beta-1 isoform X10

    20. XM_039107716.2 → XP_038963644.1  liprin-beta-1 isoform X13

      UniProtKB/TrEMBL
      A0A0G2K781, A0A8I6AGP2
      Conserved Domains (4) summary
      cd09563
      Location:614 → 677
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:688 → 750
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:773 → 844
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:47 → 321
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    21. XM_039107715.2 → XP_038963643.1  liprin-beta-1 isoform X12

      UniProtKB/TrEMBL
      A0A0G2K781
      Related
      ENSRNOP00000110979.1, ENSRNOT00000170543.1
      Conserved Domains (5) summary
      cd09563
      Location:624 → 687
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:698 → 760
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:783 → 854
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      PHA03307
      Location:341 → 606
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:47 → 310
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    22. XM_039107717.2 → XP_038963645.1  liprin-beta-1 isoform X15

      UniProtKB/TrEMBL
      A0A0G2K781
      Conserved Domains (4) summary
      cd09563
      Location:613 → 676
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:687 → 749
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:772 → 843
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:47 → 310
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    23. XM_063286187.1 → XP_063142257.1  liprin-beta-1 isoform X14

    24. XM_039107718.2 → XP_038963646.1  liprin-beta-1 isoform X16

      UniProtKB/TrEMBL
      A6IN37
      Conserved Domains (4) summary
      cd09563
      Location:603 → 666
      SAM_liprin-beta1,2_repeat1; SAM domain of liprin-beta1,2 proteins repeat 1
      cd09566
      Location:677 → 739
      SAM_liprin-beta1,2_repeat2; SAM domain of liprin-beta1,2 proteins repeat 2
      cd09569
      Location:762 → 833
      SAM_liprin-beta1,2_repeat3; SAM domain of liprin-beta proteins repeat 3
      COG1196
      Location:47 → 310
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    25. XM_063286176.1 → XP_063142246.1  liprin-beta-1 isoform X2

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107896.1: Suppressed sequence

      Description
      NM_001107896.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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