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Ccdc116 coiled-coil domain containing 116 [ Rattus norvegicus (Norway rat) ]

Gene ID: 287936, updated on 2-Nov-2024

Summary

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Official Symbol
Ccdc116provided by RGD
Official Full Name
coiled-coil domain containing 116provided by RGD
Primary source
RGD:1310080
See related
EnsemblRapid:ENSRNOG00000001860 AllianceGenome:RGD:1310080
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
Sdf2l1
Summary
Predicted to be located in cytoplasm. Predicted to be active in centrosome. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human CCDC116 (coiled-coil domain containing 116). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Restricted expression toward (RPKM 81.7) See more
Orthologs
human mouse all
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Genomic context

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See Ccdc116 in Genome Data Viewer
Location:
11q23
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (97346927..97354827)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (83842707..83850607)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (88092794..88100220)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene HIC ZBTB transcriptional repressor 2 Neighboring gene RIMS binding protein 3 Neighboring gene small nucleolar RNA SNORA51 Neighboring gene ubiquitin-conjugating enzyme E2L 3 Neighboring gene YdjC chitooligosaccharide deacetylase homolog Neighboring gene RIKEN cDNA 2610318N02 gene like Neighboring gene stromal cell-derived factor 2-like 1 Neighboring gene microRNA 301b

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. Integrating expression-related SNPs into genome-wide gene- and pathway-based analyses identified novel lung cancer susceptibility genes. Wang Y, et al. Int J Cancer, 2018 Apr 15. PMID 29193083
  2. Proteomic analysis of mammalian sperm cells identifies new components of the centrosome. Firat-Karalar EN, et al. J Cell Sci, 2014 Oct 1. PMID 25074808, Free PMC Article
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  4. 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
  5. 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

General gene information

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Homology

Gene Ontology Provided by RGD

Component Evidence Code Pubs
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in centrosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
coiled-coil domain-containing protein 116
Names
stromal cell-derived factor 2-like 1

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_001024740.1 → NP_001019911.1  coiled-coil domain-containing protein 116

    See identical proteins and their annotated locations for NP_001019911.1

    Status: PROVISIONAL

    Source sequence(s)
    BC097459
    UniProtKB/Swiss-Prot
    Q4V8B5
    Related
    ENSRNOP00000102138.1, ENSRNOT00000125813.1
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

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
    97346927..97354827
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039088066.2 → XP_038943994.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Related
    ENSRNOP00000040746.3, ENSRNOT00000041557.4
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  2. XM_017597904.2 → XP_017453393.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  3. XM_063270321.1 → XP_063126391.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9

  4. XM_017597905.3 → XP_017453394.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  5. XM_017597903.3 → XP_017453392.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  6. XM_017597902.3 → XP_017453391.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  7. XM_017597901.3 → XP_017453390.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
    Conserved Domains (1) summary
    pfam15774
    Location:18 → 407
    DUF4702; Domain of unknown function (DUF4702)

  8. XM_063270322.1 → XP_063126392.1  coiled-coil domain-containing protein 116 isoform X1

    UniProtKB/TrEMBL
    A0A8L2QMP9
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4V8B5.1 GenPept UniProtKB/Swiss-Prot:Q4V8B5

Gene LinkOut

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