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

Gene ID: 319207, updated on 5-Mar-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, Apr 2022]
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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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
  • 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. 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
  4. 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
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (13) 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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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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