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

    Gene ID: 287936, updated on 9-Dec-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, Dec 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

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

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