U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Pip4p1 phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364298, updated on 5-Mar-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Pip4p1provided by RGD
    Official Full Name
    phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1provided by RGD
    Primary source
    RGD:1307475
    See related
    Ensembl:ENSRNOG00000009948 AllianceGenome:RGD:1307475
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Tmem55b; RGD1307475
    Summary
    Predicted to enable phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity. Predicted to be involved in several processes, including phosphatidylinositol dephosphorylation; positive regulation of TORC1 signaling; and proton-transporting V-type ATPase complex assembly. Predicted to be integral component of membrane. Predicted to be active in bounding membrane of organelle and plasma membrane. Orthologous to human PIP4P1 (phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 97.8), Brain (RPKM 84.9) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Pip4p1 in Genome Data Viewer
    Location:
    15p14
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (26620399..26624369, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (24146854..24150739, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (27852152..27855999, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene O-sialoglycoprotein endopeptidase Neighboring gene apurinic/apyrimidinic endodeoxyribonuclease 1 Neighboring gene purine nucleoside phosphorylase Neighboring gene ribosomal protein L23a, pseudogene 12

    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: 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Transmembrane protein 55B is a novel regulator of cellular cholesterol metabolism. Medina MW, et al. Arterioscler Thromb Vasc Biol, 2014 Sep. PMID 25035345, Free PMC Article
    2. TMEM55a localizes to macrophage phagosomes to downregulate phagocytosis. Morioka S, et al. J Cell Sci, 2018 Mar 6. PMID 29378918
    3. The identification and characterization of two phosphatidylinositol-4,5-bisphosphate 4-phosphatases. Ungewickell A, et al. Proc Natl Acad Sci U S A, 2005 Dec 27. PMID 16365287, Free PMC Article
    4. TMEM55B contributes to lysosomal homeostasis and amino acid-induced mTORC1 activation. Hashimoto Y, et al. Genes Cells, 2018 Jun. PMID 29644770
    5. TFEB regulates lysosomal positioning by modulating TMEM55B expression and JIP4 recruitment to lysosomes. Willett R, et al. Nat Commun, 2017 Nov 17. PMID 29146937, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cholesterol metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cholesterol metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in lysosome localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lysosome localization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in phosphatidylinositol dephosphorylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in phosphatidylinositol dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in phosphatidylinositol dephosphorylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of TORC1 signaling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of TORC1 signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in proton-transporting V-type ATPase complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proton-transporting V-type ATPase complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in response to sterol depletion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to sterol depletion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in late endosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in late endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in lysosomal membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lysosomal membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lysosomal membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lysosomal membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in phagocytic vesicle membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in phagocytic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in phagocytic vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in phagocytic vesicle membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase
    Names
    PtdIns-4,5-P(2) 4-phosphatase type I
    ptdIns-4,5-P2 4-Ptase I
    transmembrane protein 55B
    transmembrane protein 55B-like
    type 1 PtdIns-4,5-P2 4-Ptase
    type I phosphatidylinositol 4,5-bisphosphate 4-phosphatase
    NP_001014255.1
    XP_006251950.1
    XP_006251951.1
    XP_017455249.1

    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_001014233.2 → NP_001014255.1  type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase

      See identical proteins and their annotated locations for NP_001014255.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087604
      UniProtKB/Swiss-Prot
      Q5PPM8
      UniProtKB/TrEMBL
      A6KEC3
      Related
      ENSRNOP00000013225.5, ENSRNOT00000013225.7
      Conserved Domains (1) summary
      pfam09788
      Location:4 → 277
      Tmemb_55A; Transmembrane protein 55A

    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_086033.1 Reference GRCr8

      Range
      26620399..26624369 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006251888.4 → XP_006251950.1  type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase isoform X1

      Conserved Domains (1) summary
      pfam09788
      Location:4 → 270
      Tmemb_55A; Transmembrane protein 55A

    2. XM_017599760.3 → XP_017455249.1  type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase isoform X3

    3. XM_006251889.5 → XP_006251951.1  type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase isoform X2

      UniProtKB/TrEMBL
      A0A8I6GLH6
      Related
      ENSRNOP00000096185.1
      Conserved Domains (1) summary
      pfam09788
      Location:4 → 154
      Tmemb_55A; Transmembrane protein 55A
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5PPM8.1 GenPept UniProtKB/Swiss-Prot:Q5PPM8

    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