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    Pdcd6ip programmed cell death 6 interacting protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 501083, updated on 27-Nov-2024

    Summary

    Official Symbol
    Pdcd6ipprovided by RGD
    Official Full Name
    programmed cell death 6 interacting proteinprovided by RGD
    Primary source
    RGD:68357
    See related
    EnsemblRapid:ENSRNOG00000008981 AllianceGenome:RGD:68357
    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
    Also known as
    AIP1; Alix; RGD1561176
    Summary
    Enables SH3 domain binding activity. Predicted to be involved in several processes, including bicellular tight junction assembly; cytokinetic process; and positive regulation of cellular component biogenesis. Predicted to be located in several cellular components, including Flemming body; endoplasmic reticulum exit site; and immunological synapse. Predicted to be active in endosome. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly. Orthologous to human PDCD6IP (programmed cell death 6 interacting protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 366.5), Adrenal (RPKM 271.9) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Pdcd6ip in Genome Data Viewer
    Location:
    8q32
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (122469223..122524993, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (113590998..113646795, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (121916233..121973145, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094273 Neighboring gene uncharacterized LOC120094274 Neighboring gene uncharacterized LOC100910424 Neighboring gene uncharacterized LOC134480240 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene cytoplasmic linker associated protein 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SH3 domain binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables calcium-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein dimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables proteinase activated receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in actomyosin contractile ring assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in actomyosin contractile ring assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in actomyosin contractile ring assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in bicellular tight junction assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in bicellular tight junction assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in bicellular tight junction assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in extracellular exosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in extracellular exosome biogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in extracellular exosome biogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in macroautophagy IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in macroautophagy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in macroautophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in maintenance of epithelial cell apical/basal polarity IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in maintenance of epithelial cell apical/basal polarity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in maintenance of epithelial cell apical/basal polarity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in midbody abscission ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitotic cytokinesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mitotic cytokinesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitotic cytokinesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT involved_in mitotic metaphase chromosome alignment ISO
    Inferred from Sequence Orthology
    more info
     
    NOT involved_in nucleus organization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of exosomal secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of extracellular exosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein homooligomerization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of centrosome duplication ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of extracellular exosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of membrane permeability IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of membrane permeability ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of membrane permeability ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT involved_in regulation of mitotic spindle assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in viral budding ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in viral budding via host ESCRT complex ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in Flemming body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in Flemming body ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in actomyosin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in actomyosin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in actomyosin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in bicellular tight junction IEA
    Inferred from Electronic Annotation
    more info
     
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum exit site ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular exosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular exosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in immunological synapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in melanosome IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    programmed cell death 6-interacting protein
    Names
    ALG-2 interacting protein 1
    ALG-2 interacting protein X

    NCBI Reference Sequences (RefSeq)

    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_001029910.3NP_001025081.2  programmed cell death 6-interacting protein

      See identical proteins and their annotated locations for NP_001025081.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A140TAA4, A6I3M1
      Conserved Domains (4) summary
      cd09235
      Location:360698
      V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules
      cd09240
      Location:2345
      BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains
      pfam12273
      Location:815868
      RCR; Chitin synthesis regulation, resistance to Congo red
      pfam13949
      Location:412701
      ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV

    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_086026.1 Reference GRCr8

      Range
      122469223..122524993 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006243997.4XP_006244059.1  programmed cell death 6-interacting protein isoform X1

      See identical proteins and their annotated locations for XP_006244059.1

      UniProtKB/Swiss-Prot
      Q9QZA2
      Related
      ENSRNOP00000012114.8, ENSRNOT00000012114.9
      Conserved Domains (3) summary
      cd09235
      Location:365703
      V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules
      cd09240
      Location:2350
      BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains
      smart00818
      Location:819873
      Amelogenin; Amelogenins, cell adhesion proteins, play a role in the biomineralisation of teeth