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

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: human mouse all
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Genomic context

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_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

demonstrate a previously unreported role for Alix as a potential modulator of NMDAR function
Title: Overexpression of the dopamine receptor-interacting protein Alix/AIP1 modulates NMDA receptor-triggered cell death.
We propose a model whereby Src antagonizes the effects of Alix by phosphorylation of its C terminus, leading to the disruption of interactions with target proteins.
Title: Src phosphorylation of Alix/AIP1 modulates its interaction with binding partners and antagonizes its activities.
adaptor protein SETA (CIN85) and its binding partner AIP1 are involved with the cytoskeleton and in the regulation of cell adhesion
Title: SETA/CIN85/Ruk and its binding partner AIP1 associate with diverse cytoskeletal elements, including FAKs, and modulate cell adhesion.
coimmunoprecipitation of Alix with the exosomal TfR; suggestion that Alix contributes to exosomal TfR sorting
Title: Degradation of AP2 during reticulocyte maturation enhances binding of hsc70 and Alix to a common site on TFR for sorting into exosomes.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH127559 (e-PCR)
- UniSTS:210869

C76364 (e-PCR)
- UniSTS:159926

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

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Preferred Names: programmed cell death 6-interacting protein

Names: ALG-2 interacting protein 1; ALG-2 interacting protein X

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)

NM_001029910.3 → NP_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:360 → 698

V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules

cd09240
Location:2 → 345

BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains

pfam12273
Location:815 → 868

RCR; Chitin synthesis regulation, resistance to Congo red

pfam13949
Location:412 → 701

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

NC_086026.1 Reference GRCr8

Range

122469223..122524993 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006243997.4 → XP_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:365 → 703

V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules

cd09240
Location:2 → 350

BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains

smart00818
Location:819 → 873

Amelogenin; Amelogenins, cell adhesion proteins, play a role in the biomineralisation of teeth