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

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

Summary

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
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Genomic context

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

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

General gene information

Markers

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

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_138853.2NP_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:229299
    SEP; SEP domain
    cl00155
    Location:389466
    UBQ; Ubiquitin-like proteins
    cl02488
    Location:68143
    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_039109246.2XP_038965174.1  UBX domain-containing protein 11 isoform X7

    Conserved Domains (2) summary
    cd17077
    Location:307382
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:147218
    SEP; SEP domain
  2. XM_063287149.1XP_063143219.1  UBX domain-containing protein 11 isoform X11

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

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

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

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

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

    Conserved Domains (2) summary
    cd17077
    Location:306381
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:146217
    SEP; SEP domain
  8. XM_039109250.2XP_038965178.1  UBX domain-containing protein 11 isoform X10

    UniProtKB/TrEMBL
    A0A8I6AJ03
    Conserved Domains (2) summary
    cd17077
    Location:276351
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:116187
    SEP; SEP domain
  9. XM_039109245.2XP_038965173.1  UBX domain-containing protein 11 isoform X4

    UniProtKB/TrEMBL
    A0A8I5Y1D9
    Conserved Domains (3) summary
    COG4372
    Location:38106
    COG4372; Uncharacterized conserved protein, contains DUF3084 domain [Function unknown]
    cd17077
    Location:351426
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:191262
    SEP; SEP domain
  10. XM_063287144.1XP_063143214.1  UBX domain-containing protein 11 isoform X1

    Related
    ENSRNOP00000077920.2, ENSRNOT00000114327.2
  11. XM_039109248.2XP_038965176.1  UBX domain-containing protein 11 isoform X8

    Conserved Domains (2) summary
    cd17077
    Location:306381
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:146217
    SEP; SEP domain
  12. XM_006239005.5XP_006239067.1  UBX domain-containing protein 11 isoform X5

    UniProtKB/TrEMBL
    A0A8I5Y1D9
    Conserved Domains (3) summary
    pfam08059
    Location:165235
    SEP; SEP domain
    cl00155
    Location:325402
    UBQ; Ubiquitin-like proteins
    cl02488
    Location:479
    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_039109249.2XP_038965177.1  UBX domain-containing protein 11 isoform X9

    UniProtKB/TrEMBL
    A0A8I6AJ03
    Conserved Domains (2) summary
    cd17077
    Location:283358
    UBX_UBXN11; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 11 (UBXN11) and similar proteins
    pfam08059
    Location:123194
    SEP; SEP domain

RNA

  1. XR_010066341.1 RNA Sequence