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Sqstm1 sequestosome 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 113894, updated on 9-Sep-2018

Summary

Official Symbol
Sqstm1provided by RGD
Official Full Name
sequestosome 1provided by RGD
Primary source
RGD:69287
See related
Ensembl:ENSRNOG00000003147
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
Osi; ZIP; ZIP3
Summary
interacts with PKC-zeta and GABA(C) receptors to form ternary postsynaptic complex in the retina [RGD, Feb 2006]
Annotation information
Annotation category: suggests misassembly
Expression
Biased expression in Liver (RPKM 1406.7), Muscle (RPKM 1246.9) and 9 other tissues See more
Orthologs

Genomic context

See Sqstm1 in Genome Data Viewer
Location:
10q22
Exon count:
8
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (35704728..35716316, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 10 NC_005109.3 (35463172..35474754, complement)

Chromosome 10 - NC_005109.4Genomic Context describing neighboring genes Neighboring gene TBC1 domain family member 9B Neighboring gene MRN complex interacting protein Neighboring gene alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase B Neighboring gene leukotriene C4 synthase

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
K63-linked polyubiquitin modification-dependent protein binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
K63-linked polyubiquitin modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
 
K63-linked polyubiquitin modification-dependent protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
SH2 domain binding ISO
Inferred from Sequence Orthology
more info
 
SH2 domain binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enzyme binding ISO
Inferred from Sequence Orthology
more info
 
identical protein binding ISO
Inferred from Sequence Orthology
more info
 
ionotropic glutamate receptor binding IEA
Inferred from Electronic Annotation
more info
 
ionotropic glutamate receptor binding ISO
Inferred from Sequence Orthology
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase C binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein kinase C binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase C binding ISO
Inferred from Sequence Orthology
more info
 
protein kinase C binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein kinase binding ISO
Inferred from Sequence Orthology
more info
 
ubiquitin binding ISO
Inferred from Sequence Orthology
more info
 
ubiquitin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
aggrephagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
aggrephagy ISO
Inferred from Sequence Orthology
more info
 
aggrephagy ISS
Inferred from Sequence or Structural Similarity
more info
 
apoptotic process IEA
Inferred from Electronic Annotation
more info
 
autophagy ISO
Inferred from Sequence Orthology
more info
 
autophagy ISS
Inferred from Sequence or Structural Similarity
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
endosome organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endosome organization ISO
Inferred from Sequence Orthology
more info
 
endosome organization ISS
Inferred from Sequence or Structural Similarity
more info
 
immune system process IEA
Inferred from Electronic Annotation
more info
 
macroautophagy ISO
Inferred from Sequence Orthology
more info
 
macroautophagy ISS
Inferred from Sequence or Structural Similarity
more info
 
mitochondrion organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitophagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitophagy IEA
Inferred from Electronic Annotation
more info
 
mitophagy ISO
Inferred from Sequence Orthology
more info
 
negative regulation of growth of symbiont in host IEA
Inferred from Electronic Annotation
more info
 
negative regulation of growth of symbiont in host ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
positive regulation of long-term synaptic potentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of long-term synaptic potentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of protein localization to plasma membrane IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein localization to plasma membrane ISO
Inferred from Sequence Orthology
more info
 
positive regulation of protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein heterooligomerization IPI
Inferred from Physical Interaction
more info
PubMed 
protein localization to perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
protein localization to perinuclear region of cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of I-kappaB kinase/NF-kappaB signaling ISO
Inferred from Sequence Orthology
more info
 
regulation of I-kappaB kinase/NF-kappaB signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of protein complex stability IEA
Inferred from Electronic Annotation
more info
 
regulation of protein complex stability ISO
Inferred from Sequence Orthology
more info
 
response to ischemia IEP
Inferred from Expression Pattern
more info
PubMed 
response to mitochondrial depolarisation IEA
Inferred from Electronic Annotation
more info
 
response to mitochondrial depolarisation ISO
Inferred from Sequence Orthology
more info
 
selective autophagy ISO
Inferred from Sequence Orthology
more info
 
selective autophagy ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
Lewy body IDA
Inferred from Direct Assay
more info
PubMed 
P-body ISO
Inferred from Sequence Orthology
more info
 
P-body ISS
Inferred from Sequence or Structural Similarity
more info
 
PML body IEA
Inferred from Electronic Annotation
more info
 
PML body ISO
Inferred from Sequence Orthology
more info
 
aggresome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
aggresome ISO
Inferred from Sequence Orthology
more info
 
amphisome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
amphisome IEA
Inferred from Electronic Annotation
more info
 
amphisome ISO
Inferred from Sequence Orthology
more info
 
autolysosome IEA
Inferred from Electronic Annotation
more info
 
autolysosome ISO
Inferred from Sequence Orthology
more info
 
autophagosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome ISO
Inferred from Sequence Orthology
more info
 
autophagosome ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytosol IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
inclusion body ISO
Inferred from Sequence Orthology
more info
 
intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
late endosome IEA
Inferred from Electronic Annotation
more info
 
mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
phagophore assembly site IEA
Inferred from Electronic Annotation
more info
 
phagophore assembly site ISO
Inferred from Sequence Orthology
more info
 
sarcomere IEA
Inferred from Electronic Annotation
more info
 
sperm midpiece IEA
Inferred from Electronic Annotation
more info
 
sperm midpiece ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
sequestosome-1
Names
PKC-zeta-interacting protein
oxidative stress induced
protein kinase C-zeta-interacting protein
ubiquitin-binding protein p62

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_175843.4NP_787037.2  sequestosome-1 isoform 1

    See identical proteins and their annotated locations for NP_787037.2

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    BC061575
    UniProtKB/Swiss-Prot
    O08623
    Related
    ENSRNOP00000056021.3, ENSRNOT00000059255.5
    Conserved Domains (3) summary
    cd06402
    Location:4100
    PB1_p62; The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which ...
    cd02340
    Location:123163
    ZZ_NBR1_like; Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears ...
    cl21463
    Location:378438
    UBA_like_SF; UBA domain-like superfamily
  2. NM_181550.1NP_853528.1  sequestosome-1 isoform 2

    See identical proteins and their annotated locations for NP_853528.1

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (2) lacks several exons and its transcription extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AF439403
    UniProtKB/Swiss-Prot
    O08623
    Related
    ENSRNOP00000004308.6, ENSRNOT00000004308.6
    Conserved Domains (2) summary
    cd06402
    Location:4100
    PB1_p62; The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which ...
    cd02340
    Location:123163
    ZZ_NBR1_like; Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears ...

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_005109.4 Reference Rnor_6.0 Primary Assembly

    Range
    35704728..35716316 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006246215.2XP_006246277.1  sequestosome-1 isoform X3

    Conserved Domains (3) summary
    cd06402
    Location:4100
    PB1_p62; The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which ...
    cd02340
    Location:123163
    ZZ_NBR1_like; Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears ...
    cl21463
    Location:323373
    UBA_like_SF; UBA domain-like superfamily
  2. XM_006246213.2XP_006246275.1  sequestosome-1 isoform X1

    UniProtKB/Swiss-Prot
    O08623
    Conserved Domains (3) summary
    cd06402
    Location:4100
    PB1_p62; The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which ...
    cd02340
    Location:123163
    ZZ_NBR1_like; Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears ...
    cl21463
    Location:351411
    UBA_like_SF; UBA domain-like superfamily
  3. XM_006246214.2XP_006246276.1  sequestosome-1 isoform X2

    Conserved Domains (3) summary
    cd06402
    Location:4100
    PB1_p62; The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which ...
    cd02340
    Location:123163
    ZZ_NBR1_like; Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears ...
    cl21463
    Location:350400
    UBA_like_SF; UBA domain-like superfamily

Alternate Rn_Celera

Genomic

  1. AC_000078.1 Alternate Rn_Celera

    Range
    33874680..33885832 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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