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    Ubxn11 UBX domain protein 11 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 192207, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ubxn11provided by RGD
    Official Full Name
    UBX domain protein 11provided by RGD
    Primary source
    RGD:620769
    See related
    EnsemblRapid:ENSRNOG00000015476 AllianceGenome:RGD:620769
    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
    Soc; Ubxd5
    Summary
    Predicted to enable ubiquitin binding activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to be located in cytoplasm and cytoskeleton. Orthologous to human UBXN11 (UBX domain protein 11). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 138.2), Brain (RPKM 22.2) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ubxn11 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (151613411..151637274)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (146329666..146353529)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (152332993..152356647)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene ferritin light chain 1-like Neighboring gene CD52 molecule Neighboring gene SH3 domain binding glutamate-rich protein like 3 Neighboring gene centrosomal protein 85 Neighboring gene uncharacterized LOC134487003

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Socius is a novel Rnd GTPase-interacting protein involved in disassembly of actin stress fibers. Katoh H, et al. Mol Cell Biol, 2002 May. PMID 11940653, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Socius is a novel Rnd GTPase-interacting protein involved in disassembly of actin stress fibers
      Title: Socius is a novel Rnd GTPase-interacting protein involved in disassembly of actin stress fibers.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ubiquitin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    UBX domain-containing protein 11
    Names
    UBX domain containing 5
    UBX domain-containing protein 5
    socius

    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)

    1. NM_138853.2 → NP_620208.1  UBX domain-containing protein 11

      See identical proteins and their annotated locations for NP_620208.1

      Status: PROVISIONAL

      Source sequence(s)
      BC078730
      UniProtKB/Swiss-Prot
      Q8R512
      UniProtKB/TrEMBL
      A0A8I5Y1D9, A6IT02
      Related
      ENSRNOP00000077621.2, ENSRNOT00000100142.2
      Conserved Domains (3) summary
      pfam08059
      Location:229 → 299
      SEP; SEP domain
      cl00155
      Location:389 → 466
      UBQ; Ubiquitin-like proteins
      cl02488
      Location:68 → 143
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

    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_086023.1 Reference GRCr8

      Range
      151613411..151637274
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109246.2 → XP_038965174.1  UBX domain-containing protein 11 isoform X7

      Conserved Domains (2) summary
      cd17077
      Location:307 → 382
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:147 → 218
      SEP; SEP domain

    2. XM_063287149.1 → XP_063143219.1  UBX domain-containing protein 11 isoform X11

    3. XM_063287148.1 → XP_063143218.1  UBX domain-containing protein 11 isoform X11

    4. XM_063287146.1 → XP_063143216.1  UBX domain-containing protein 11 isoform X3

    5. XM_063287145.1 → XP_063143215.1  UBX domain-containing protein 11 isoform X2

    6. XM_063287147.1 → XP_063143217.1  UBX domain-containing protein 11 isoform X6

    7. XM_039109247.2 → XP_038965175.1  UBX domain-containing protein 11 isoform X8

      Conserved Domains (2) summary
      cd17077
      Location:306 → 381
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:146 → 217
      SEP; SEP domain

    8. XM_039109250.2 → XP_038965178.1  UBX domain-containing protein 11 isoform X10

      UniProtKB/TrEMBL
      A0A8I6AJ03
      Conserved Domains (2) summary
      cd17077
      Location:276 → 351
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:116 → 187
      SEP; SEP domain

    9. XM_039109245.2 → XP_038965173.1  UBX domain-containing protein 11 isoform X4

      UniProtKB/TrEMBL
      A0A8I5Y1D9
      Conserved Domains (3) summary
      COG4372
      Location:38 → 106
      COG4372; Uncharacterized conserved protein, contains DUF3084 domain [Function unknown]
      cd17077
      Location:351 → 426
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:191 → 262
      SEP; SEP domain

    10. XM_063287144.1 → XP_063143214.1  UBX domain-containing protein 11 isoform X1

      Related
      ENSRNOP00000077920.2, ENSRNOT00000114327.2

    11. XM_039109248.2 → XP_038965176.1  UBX domain-containing protein 11 isoform X8

      Conserved Domains (2) summary
      cd17077
      Location:306 → 381
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:146 → 217
      SEP; SEP domain

    12. XM_006239005.5 → XP_006239067.1  UBX domain-containing protein 11 isoform X5

      UniProtKB/TrEMBL
      A0A8I5Y1D9
      Conserved Domains (3) summary
      pfam08059
      Location:165 → 235
      SEP; SEP domain
      cl00155
      Location:325 → 402
      UBQ; Ubiquitin-like proteins
      cl02488
      Location:4 → 79
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

    13. XM_039109249.2 → XP_038965177.1  UBX domain-containing protein 11 isoform X9

      UniProtKB/TrEMBL
      A0A8I6AJ03
      Conserved Domains (2) summary
      cd17077
      Location:283 → 358
      UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
      pfam08059
      Location:123 → 194
      SEP; SEP domain

    RNA

    1. XR_010066341.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8R512.1 GenPept UniProtKB/Swiss-Prot:Q8R512

    Gene LinkOut

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