U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Ccdc50 coiled-coil domain containing 50 [ Rattus norvegicus (Norway rat) ]

Gene ID: 288022, updated on 27-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Ccdc50provided by RGD
Official Full Name
coiled-coil domain containing 50provided by RGD
Primary source
RGD:727841
See related
EnsemblRapid:ENSRNOG00000001930 AllianceGenome:RGD:727841
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
c3orf6; C3orf6h
Summary
Predicted to enable ubiquitin protein ligase binding activity. Predicted to act upstream of or within sensory perception of sound. Predicted to be located in cytosol and microtubule cytoskeleton. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 44 and mantle cell lymphoma. Orthologous to human CCDC50 (coiled-coil domain containing 50). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 281.8), Lung (RPKM 277.2) 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 Ccdc50 in Genome Data Viewer
Location:
11q22
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (86837624..86900164, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (73332798..73395333, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (76742179..76804695, complement)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene fibroblast growth factor 12 Neighboring gene uncharacterized LOC134481099 Neighboring gene U2 spliceosomal RNA Neighboring gene uncharacterized LOC102548576 Neighboring gene uncharacterized LOC102557186

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. Gene knockdown studies revealed CCDC50 as a candidate gene in mantle cell lymphoma and chronic lymphocytic leukemia. Farfsing A, et al. Leukemia, 2009 Nov. PMID 19641524
  2. A mutation in CCDC50, a gene encoding an effector of epidermal growth factor-mediated cell signaling, causes progressive hearing loss. Modamio-Hoybjor S, et al. Am J Hum Genet, 2007 Jun. PMID 17503326, Free PMC Article
  3. Identification and characterization of C3orf6, a new conserved human gene mapping to chromosome 3q28. Vazza G, et al. Gene, 2003 Sep 18. PMID 14527723
  4. The E3 ubiquitin ligases RNF126 and Rabring7 regulate endosomal sorting of the epidermal growth factor receptor. Smith CJ, et al. J Cell Sci, 2013 Mar 15. PMID 23418353
  5. Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis. Na CH, et al. J Proteome Res, 2012 Sep 7. PMID 22871113, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in sensory perception of sound IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within sensory perception of sound ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in microtubule cytoskeleton ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
coiled-coil domain-containing protein 50
Names
protein Ymer
putative C3orf6 protein homolog

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_001401395.1 → NP_001388324.1  coiled-coil domain-containing protein 50 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000011
    UniProtKB/TrEMBL
    A0A8I6GF21
    Related
    ENSRNOP00000087350.1, ENSRNOT00000112380.2

  2. NM_182736.2 → NP_877400.1  coiled-coil domain-containing protein 50 isoform 2

    See identical proteins and their annotated locations for NP_877400.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000011
    UniProtKB/Swiss-Prot
    Q810U0
    UniProtKB/TrEMBL
    A0A8I6A494
    Related
    ENSRNOP00000111412.1, ENSRNOT00000167974.1
    Conserved Domains (1) summary
    pfam15295
    Location:7 → 126
    CCDC50_N; Coiled-coil domain-containing protein 50 N-terminus

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_086029.1 Reference GRCr8

    Range
    86837624..86900164 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039088104.2 → XP_038944032.1  coiled-coil domain-containing protein 50 isoform X1

    Conserved Domains (1) summary
    pfam15295
    Location:4 → 128
    CCDC50_N; Coiled-coil domain-containing protein 50 N-terminus

RNA

  1. XR_001840408.3 RNA Sequence

  2. XR_010055939.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q810U0.1 GenPept UniProtKB/Swiss-Prot:Q810U0

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools