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

Gene ID: 71592, updated on 2-Nov-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 DNA-templated transcription. 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, Nov 2024]
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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See Pogk in Genome Data Viewer
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 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 DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
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
  

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
    ENSMUSP00000120352.4, ENSMUST00000135673.9

  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
    ENSMUSP00000118270.4, ENSMUST00000128861.4

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

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