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    Pogk pogo transposable element with KRAB domain [ Mus musculus (house mouse) ]

    Gene ID: 71592, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Pogkprovided by MGI
    Official Full Name
    pogo transposable element with KRAB domainprovided by MGI
    Primary source
    MGI:MGI:1918842
    See related
    Ensembl:ENSMUSG00000040596 AllianceGenome:MGI:1918842
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    BASS2; mKIAA1513; 9130401E23Rik
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in regulation of transcription, DNA-templated. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human POGK (pogo transposable element derived with KRAB domain). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 2.2), CNS E14 (RPKM 2.1) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    1 H2.3; 1 73.75 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (166221179..166237402, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (166393610..166409853, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_02926 Neighboring gene maelstrom spermatogenic transposon silencer Neighboring gene immunoglobulin-like domain containing receptor 2 Neighboring gene STARR-positive B cell enhancer mm9_chr1:168290436-168290736 Neighboring gene STARR-seq mESC enhancer starr_02930 Neighboring gene STARR-positive B cell enhancer ABC_E11695 Neighboring gene transcriptional adaptor 1 Neighboring gene STARR-seq mESC enhancer starr_02931 Neighboring gene ubiquinol-cytochrome c reductase subunit pseudogene Neighboring gene predicted gene, 39694

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553
    2. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pogo transposable element with KRAB domain

    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_001142948.4 → NP_001136420.2  pogo transposable element with KRAB domain isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC161807
      Consensus CDS
      CCDS48432.1
      UniProtKB/Swiss-Prot
      Q80TC5, Q8BPJ3, Q8C887
      Related
      ENSMUSP00000127395.2, ENSMUST00000169324.8

    2. NM_001405162.3 → NP_001392091.2  pogo transposable element with KRAB domain isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC161807

    3. NM_001405163.3 → NP_001392092.2  pogo transposable element with KRAB domain isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC161807

    4. NM_001405164.1 → NP_001392093.1  pogo transposable element with KRAB domain isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC161807

    5. NM_001405165.1 → NP_001392094.1  pogo transposable element with KRAB domain isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC161807

    6. NM_175170.7 → NP_780379.3  pogo transposable element with KRAB domain isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC161807
      Consensus CDS
      CCDS35762.1
      UniProtKB/Swiss-Prot
      Q80TC5, Q8BPJ3, Q8C887
      Related
      ENSMUSP00000118270.3, ENSMUST00000128861.3

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      166221179..166237402 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80TC5.2 GenPept UniProtKB/Swiss-Prot:Q80TC5

    Gene LinkOut

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

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