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

Gene ID: 501083, updated on 18-Apr-2019

Summary

Official Symbol
Pdcd6ipprovided by RGD
Official Full Name
programmed cell death 6 interacting proteinprovided by RGD
Primary source
RGD:68357
See related
Ensembl:ENSRNOG00000008981
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
forms a complex with SH3 domain containing expressed in tumorigenic astrocytes (SETA) and apoptosis-linked gene 2 protein; may play a role in astrocyte apoptosis [RGD, Feb 2006]
Expression
Biased expression in Kidney (RPKM 366.5), Adrenal (RPKM 271.9) and 9 other tissues See more
Orthologs

Genomic context

See Pdcd6ip in Genome Data Viewer
Location:
8q32
Exon count:
18
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (121916233..121973145, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 8 NC_005107.3 (121231793..121287105, complement)

Chromosome 8 - NC_005107.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102554279 Neighboring gene uncharacterized LOC102546514 Neighboring gene uncharacterized LOC100910424 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 FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Endocytosis, organism-specific biosystem (from KEGG)
    Endocytosis, organism-specific biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Endocytosis, conserved biosystem (from KEGG)
    Endocytosis, conserved biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

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

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)
    AABR07071563, AABR07071564
    UniProtKB/TrEMBL
    A0A140TAA4
    Related
    ENSRNOP00000012114.7, ENSRNOT00000012114.7
    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: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005107.4 Reference Rnor_6.0 Primary Assembly

    Range
    121916233..121973145 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006243997.2XP_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
    Conserved Domains (4) 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
    pfam12273
    Location:820873
    RCR; Chitin synthesis regulation, resistance to Congo red
    pfam13949
    Location:417706
    ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV

Alternate Rn_Celera

Genomic

  1. AC_000076.1 Alternate Rn_Celera

    Range
    112840809..112895775 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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