U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rnf170 ring finger protein 170 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364654, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Symbol
    Rnf170provided by RGD
    Full Name
    ring finger protein 170provided by RGD
    Primary source
    RGD:1590842
    See related
    EnsemblRapid:ENSRNOG00000069749 AllianceGenome:RGD:1590842
    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
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to act upstream of or within several processes, including adult walking behavior; protein K48-linked ubiquitination; and toll-like receptor 3 signaling pathway. Human ortholog(s) of this gene implicated in autosomal dominant sensory ataxia 1 and hereditary spastic paraplegia 85. Orthologous to human RNF170 (ring finger protein 170). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Muscle (RPKM 146.6), Adrenal (RPKM 118.8) 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 Rnf170 in Genome Data Viewer
    Location:
    16q12.4
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (72631638..72656893, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (65928886..65954092, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (70684886..70710147, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S28, pseudogene 3 Neighboring gene uncharacterized LOC134482515 Neighboring gene THAP domain containing 1 Neighboring gene hook microtubule-tethering protein 3 Neighboring gene farnesyltransferase, CAAX box, subunit alpha

    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. RNF170 protein, an endoplasmic reticulum membrane ubiquitin ligase, mediates inositol 1,4,5-trisphosphate receptor ubiquitination and degradation. Lu JP, et al. J Biol Chem, 2011 Jul 8. PMID 21610068, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RNF170 plays an essential role in IP(3) receptor processing via the ubiquitin-proteasome pathway.
      Title: RNF170 protein, an endoplasmic reticulum membrane ubiquitin ligase, mediates inositol 1,4,5-trisphosphate receptor ubiquitination and degradation.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within adult walking behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within proteasomal protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to temperature stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within walking behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    E3 ubiquitin-protein ligase RNF170
    NP_001386189.1
    XP_006253391.1
    XP_006253392.1
    XP_006253393.1
    XP_006253394.1
    XP_038951121.2
    XP_063131693.1
    XP_063131694.1

    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_001399260.1 → NP_001386189.1  E3 ubiquitin-protein ligase RNF170

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      A0A8I5Y6F4
      Conserved Domains (2) summary
      pfam06803
      Location:203 → 238
      DUF1232; Protein of unknown function (DUF1232)
      cd16553
      Location:84 → 139
      RING-HC_RNF170; RING finger, HC subclass, found in RING finger protein 170 (RNF170) and similar proteins

    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_086034.1 Reference GRCr8

      Range
      72631638..72656893 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006253330.5 → XP_006253392.1  E3 ubiquitin-protein ligase RNF170 isoform X1

      See identical proteins and their annotated locations for XP_006253392.1

      UniProtKB/TrEMBL
      A0A8I5Y6F4, A0A8I5ZKY1, A6IVZ0
      Related
      ENSRNOP00000077528.1, ENSRNOT00000107367.2
      Conserved Domains (2) summary
      cd16553
      Location:115 → 158
      RING-HC_RNF170; RING finger, HC subclass, found in RING finger protein 170 (RNF170) and similar proteins
      pfam06803
      Location:232 → 267
      DUF1232; Protein of unknown function (DUF1232)

    2. XM_006253331.5 → XP_006253393.1  E3 ubiquitin-protein ligase RNF170 isoform X1

      See identical proteins and their annotated locations for XP_006253393.1

      UniProtKB/TrEMBL
      A0A8I5Y6F4, A0A8I5ZKY1, A6IVZ0
      Conserved Domains (2) summary
      cd16553
      Location:115 → 158
      RING-HC_RNF170; RING finger, HC subclass, found in RING finger protein 170 (RNF170) and similar proteins
      pfam06803
      Location:232 → 267
      DUF1232; Protein of unknown function (DUF1232)

    3. XM_006253329.5 → XP_006253391.1  E3 ubiquitin-protein ligase RNF170 isoform X1

      See identical proteins and their annotated locations for XP_006253391.1

      UniProtKB/TrEMBL
      A0A8I5Y6F4, A0A8I5ZKY1, A6IVZ0
      Related
      ENSRNOP00000078493.1, ENSRNOT00000110314.2
      Conserved Domains (2) summary
      cd16553
      Location:115 → 158
      RING-HC_RNF170; RING finger, HC subclass, found in RING finger protein 170 (RNF170) and similar proteins
      pfam06803
      Location:232 → 267
      DUF1232; Protein of unknown function (DUF1232)

    4. XM_063275623.1 → XP_063131693.1  E3 ubiquitin-protein ligase RNF170 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y6F4, A0A8I5ZKY1, A6IVZ0

    5. XM_006253332.5 → XP_006253394.1  E3 ubiquitin-protein ligase RNF170 isoform X1

      See identical proteins and their annotated locations for XP_006253394.1

      UniProtKB/TrEMBL
      A0A8I5Y6F4, A0A8I5ZKY1, A6IVZ0
      Conserved Domains (2) summary
      cd16553
      Location:115 → 158
      RING-HC_RNF170; RING finger, HC subclass, found in RING finger protein 170 (RNF170) and similar proteins
      pfam06803
      Location:232 → 267
      DUF1232; Protein of unknown function (DUF1232)

    6. XM_063275624.1 → XP_063131694.1  E3 ubiquitin-protein ligase RNF170 isoform X2

      UniProtKB/TrEMBL
      A6IVZ3

    7. XM_039095193.2 → XP_038951121.2  E3 ubiquitin-protein ligase RNF170 isoform X2

      UniProtKB/TrEMBL
      A6IVZ3

    RNA

    1. XR_360569.5 RNA Sequence

    2. XR_010058305.1 RNA Sequence

    3. XR_010058304.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.