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PGBD4 piggyBac transposable element derived 4 [ Homo sapiens (human) ]

Gene ID: 161779, updated on 5-Mar-2024

Summary

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Official Symbol
PGBD4provided by HGNC
Official Full Name
piggyBac transposable element derived 4provided by HGNC
Primary source
HGNC:HGNC:19401
See related
Ensembl:ENSG00000182405 AllianceGenome:HGNC:19401
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
The piggyBac family of proteins, found in diverse animals, are transposases related to the transposase of the canonical piggyBac transposon from the moth, Trichoplusia ni. This family also includes genes in several genomes, including human, that appear to have been derived from the piggyBac transposons. This gene belongs to the subfamily of piggyBac transposable element derived (PGBD) genes. The PGBD proteins appear to be novel, with no obvious relationship to other transposases, or other known protein families. [provided by RefSeq, Jul 2008]
Orthologs
all
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Genomic context

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Location:
15q14
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (34102083..34108686)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (31900289..31906910)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (34394284..34400887)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene apoptosis and caspase activation inhibitor Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:34277417-34277940 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:34280047-34280546 Neighboring gene cholinergic receptor muscarinic 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:34314668-34315168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:34315169-34315669 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6273 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6274 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6275 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6276 Neighboring gene MPRA-validated peak2290 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:34393207-34394064 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9174 Neighboring gene ribosomal protein L32 pseudogene 2 Neighboring gene ER membrane protein complex subunit 7 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr15:34446570-34447769 Neighboring gene katanin regulatory subunit B1 like 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6277 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:34506245-34506840 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9175 Neighboring gene solute carrier family 12 member 6 Neighboring gene ER membrane protein complex subunit 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Molecular evolutionary analysis of the widespread piggyBac transposon family and related "domesticated" sequences. Sarkar A, et al. Mol Genet Genomics, 2003 Nov. PMID 12955498
  2. STUB1 is targeted by the SUMO-interacting motif of EBNA1 to maintain Epstein-Barr Virus latency. Wang Y, et al. PLoS Pathog, 2020 Mar. PMID 32176739, Free PMC Article
  3. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. Fasci D, et al. Mol Cell Proteomics, 2018 Oct. PMID 30021884, Free PMC Article
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  5. 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

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ32638, FLJ37497

General protein information

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Preferred Names
piggyBac transposable element-derived protein 4

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_152595.5 → NP_689808.2  piggyBac transposable element-derived protein 4

    See identical proteins and their annotated locations for NP_689808.2

    Status: VALIDATED

    Source sequence(s)
    AC079203, AK057200, BC130441
    Consensus CDS
    CCDS10033.1
    UniProtKB/Swiss-Prot
    A1L487, A8K0C6, Q8N9E8, Q96DM1
    Related
    ENSP00000380872.2, ENST00000397766.4
    Conserved Domains (2) summary
    pfam13842
    Location:539 → 575
    Tnp_zf-ribbon_2; DDE_Tnp_1-like zinc-ribbon
    pfam13843
    Location:103 → 468
    DDE_Tnp_1_7; Transposase IS4

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    34102083..34108686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    31900289..31906910
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96DM1.3 GenPept UniProtKB/Swiss-Prot:Q96DM1

Gene LinkOut

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