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    Dgcr2 DiGeorge syndrome critical region gene 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360742, updated on 9-Dec-2024

    Summary

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    Symbol
    Dgcr2provided by RGD
    Full Name
    DiGeorge syndrome critical region gene 2provided by RGD
    Primary source
    RGD:1310567
    See related
    EnsemblRapid:ENSRNOG00000061814 AllianceGenome:RGD:1310567
    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
    Summary
    Predicted to be involved in cognition. Predicted to act upstream of or within response to xenobiotic stimulus. Predicted to be located in membrane. Orthologous to human DGCR2 (DiGeorge syndrome critical region gene 2). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Note: GeneIDs: 360742 and 103693608 are annotated independently on Rnor_6.0 but may be redundant loci. [12 Feb 2015]
    Expression
    Biased expression in Thymus (RPKM 197.9), Kidney (RPKM 192.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dgcr2 in Genome Data Viewer
    Location:
    11q23
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (96598247..96648791)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (83093961..83144507)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (87242441..87290806)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene ess-2 splicing factor homolog Neighboring gene testis-specific serine kinase 2 Neighboring gene testis-specific serine kinase 1B Neighboring gene protein FAM246A-like Neighboring gene carbonic anhydrase 15

    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. Cloning of SEZ-12 encoding seizure-related and membrane-bound adhesion protein. Kajiwara K, et al. Biochem Biophys Res Commun, 1996 May 6. PMID 8630060
    2. Analysis of copy number variation in Alzheimer's disease in a cohort of clinically characterized and neuropathologically verified individuals. Swaminathan S, et al. PLoS One, 2012. PMID 23227193, Free PMC Article
    3. 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
    4. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to xenobiotic stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    integral membrane protein DGCR2/IDD
    Names
    integral membrane protein DGCR2/IDD-like

    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_001012146.1 → NP_001012146.1  integral membrane protein DGCR2/IDD precursor

      See identical proteins and their annotated locations for NP_001012146.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081905
      UniProtKB/TrEMBL
      A0A0G2JUR3, A0A8I5ZQN6, A6JSJ9, E9PTM9, Q66HD9
      Conserved Domains (3) summary
      cd03599
      Location:111 → 263
      CLECT_DGCR2_like; C-type lectin-like domain (CTLD) of the type found in DGCR2, an integral membrane protein deleted in DiGeorge Syndrome (DGS)
      smart00214
      Location:267 → 325
      VWC; von Willebrand factor (vWF) type C domain
      cd00112
      Location:30 → 66
      LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...

    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
      96598247..96648791
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039088526.2 → XP_038944454.1  integral membrane protein DGCR2/IDD isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZQN6
      Related
      ENSRNOP00000069196.2, ENSRNOT00000083415.3
      Conserved Domains (3) summary
      cd03599
      Location:114 → 266
      CLECT_DGCR2_like; C-type lectin-like domain (CTLD) of the type found in DGCR2, an integral membrane protein deleted in DiGeorge Syndrome (DGS)
      smart00214
      Location:270 → 328
      VWC; von Willebrand factor (vWF) type C domain
      cd00112
      Location:30 → 66
      LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...

    2. XM_039088528.2 → XP_038944456.1  integral membrane protein DGCR2/IDD isoform X2

      Conserved Domains (3) summary
      cd03599
      Location:114 → 266
      CLECT_DGCR2_like; C-type lectin-like domain (CTLD) of the type found in DGCR2, an integral membrane protein deleted in DiGeorge Syndrome (DGS)
      smart00214
      Location:270 → 328
      VWC; von Willebrand factor (vWF) type C domain
      cd00112
      Location:30 → 66
      LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...

    3. XM_063270658.1 → XP_063126728.1  integral membrane protein DGCR2/IDD isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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