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    Cc2d1b coiled-coil and C2 domain containing 1B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313478, updated on 27-Nov-2024

    Summary

    Official Symbol
    Cc2d1bprovided by RGD
    Official Full Name
    coiled-coil and C2 domain containing 1Bprovided by RGD
    Primary source
    RGD:1306630
    See related
    EnsemblRapid:ENSRNOG00000008634 AllianceGenome:RGD:1306630
    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
    RGD1306630
    Summary
    Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II. Located in nucleus. Orthologous to human CC2D1B (coiled-coil and C2 domain containing 1B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 137.5), Lung (RPKM 133.2) and 9 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Cc2d1b in Genome Data Viewer
    Location:
    5q34
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (128581962..128596045)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (123353289..123367343)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (128215711..128229762)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene pre-mRNA processing factor 38A Neighboring gene origin recognition complex, subunit 1 Neighboring gene zinc finger FYVE-type containing 9 Neighboring gene ribosomal protein L9, pseudogene 8 Neighboring gene basic transcription factor 3-like 4 Neighboring gene thioredoxin domain containing 12

    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

    Bibliography

    Pathways from PubChem

    General gene information

    Markers

    Clone Names

    • MGC109203

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endosome membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    coiled-coil and C2 domain-containing protein 1B
    Names
    FRE under dual repression-binding protein 2
    five prime repressor element under dual repression-binding protein 2
    freud-2

    NCBI Reference Sequences (RefSeq)

    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_001270984.1NP_001257913.1  coiled-coil and C2 domain-containing protein 1B

      See identical proteins and their annotated locations for NP_001257913.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      Q5FVK6
      UniProtKB/TrEMBL
      A0A8I6A5T1
      Related
      ENSRNOP00000011670.5, ENSRNOT00000011670.9
      Conserved Domains (2) summary
      smart00685
      Location:385439
      DM14; Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241
      cd08690
      Location:688845
      C2_Freud-1; C2 domain found in 5' repressor element under dual repression binding protein-1 (Freud-1)

    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
      128581962..128596045
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_005504443.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001014066.1: Suppressed sequence

      Description
      NM_001014066.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.