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    Pgbd1 piggyBac transposable element derived 1 [ Mus musculus (house mouse) ]

    Gene ID: 319207, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Pgbd1provided by MGI
    Official Full Name
    piggyBac transposable element derived 1provided by MGI
    Primary source
    MGI:MGI:2441675
    See related
    Ensembl:ENSMUSG00000055313 AllianceGenome:MGI:2441675
    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
    4921509E05Rik
    Summary
    Predicted to enable identical protein binding activity and sequence-specific DNA binding activity. Orthologous to human PGBD1 (piggyBac transposable element derived 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 1.7), testis adult (RPKM 1.5) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pgbd1 in Genome Data Viewer
    Location:
    13 A3.1; 13 7.79 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (21605445..21625255, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (21421275..21441081, complement)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene zinc finger and SCAN domain containing 12 Neighboring gene zinc finger with KRAB and SCAN domains 3 Neighboring gene STARR-seq mESC enhancer starr_33849 Neighboring gene STARR-positive B cell enhancer ABC_E10783 Neighboring gene microRNA 6942 Neighboring gene RIKEN cDNA 4930470G03 gene Neighboring gene zinc finger and SCAN domain containing 26 Neighboring gene microRNA 1896 Neighboring gene STARR-positive B cell enhancer ABC_E11532 Neighboring gene NFKB activating protein-like

    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. Non-viral reprogramming of fibroblasts into induced pluripotent stem cells by Sleeping Beauty and piggyBac transposons. Talluri TR, et al. Biochem Biophys Res Commun, 2014 Jul 18. PMID 24928388
    2. Molecular evolutionary analysis of the widespread piggyBac transposon family and related "domesticated" sequences. Sarkar A, et al. Mol Genet Genomics, 2003 Nov. PMID 12955498
    3. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    5. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Thus SB and PB transposons represent a promising non-viral approach for iPS cell derivation.
      Title: Non-viral reprogramming of fibroblasts into induced pluripotent stem cells by Sleeping Beauty and piggyBac transposons.
    Submit: New GeneRIF Correction

    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

    Clone Names

    • MGC102225

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    piggyBac transposable element-derived protein 1

    NCBI Reference Sequences (RefSeq)

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    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_001012311.2 → NP_001012311.2  piggyBac transposable element-derived protein 1 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and lacks an alternate in-frame exon in the central coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
      Source sequence(s)
      BC089360, BY706951
      Consensus CDS
      CCDS49209.1
      UniProtKB/TrEMBL
      E9Q2C6, Q5FWH8
      Related
      ENSMUSP00000120175.2, ENSMUST00000122872.9
      Conserved Domains (1) summary
      pfam13843
      Location:213 → 369
      DDE_Tnp_1_7; Transposase IS4

    2. NM_001162919.1 → NP_001156391.1  piggyBac transposable element-derived protein 1 isoform a

      See identical proteins and their annotated locations for NP_001156391.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 2 encode the same isoform (a), which is longer than isoform b.
      Source sequence(s)
      AK132880, BC089360
      Consensus CDS
      CCDS49210.1
      UniProtKB/TrEMBL
      E9Q492, Q5FWH8
      Related
      ENSMUSP00000097307.4, ENSMUST00000099719.10
      Conserved Domains (1) summary
      pfam13843
      Location:250 → 406
      DDE_Tnp_1_7; Transposase IS4

    3. NM_001162920.1 → NP_001156392.1  piggyBac transposable element-derived protein 1 isoform a

      See identical proteins and their annotated locations for NP_001156392.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (a), which is longer than isoform b.
      Source sequence(s)
      BC059882, BC089360, BY706648
      Consensus CDS
      CCDS49210.1
      UniProtKB/TrEMBL
      E9Q492, Q5FWH8
      Related
      ENSMUSP00000117669.2, ENSMUST00000151743.9
      Conserved Domains (1) summary
      pfam13843
      Location:250 → 406
      DDE_Tnp_1_7; Transposase IS4

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      21605445..21625255 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030247293.2 → XP_030103153.1  piggyBac transposable element-derived protein 1 isoform X1

      UniProtKB/TrEMBL
      E9Q492, Q5FWH8
      Related
      ENSMUST00000148071.8
      Conserved Domains (1) summary
      pfam13843
      Location:250 → 406
      DDE_Tnp_1_7; Transposase IS4

    2. XM_036158067.1 → XP_036013960.1  piggyBac transposable element-derived protein 1 isoform X2

      UniProtKB/TrEMBL
      E9Q2C6, Q5FWH8
      Conserved Domains (1) summary
      pfam13843
      Location:213 → 369
      DDE_Tnp_1_7; Transposase IS4
    Nucleotide Protein Strain
    Heading Accession and Version

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