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PGBD2 piggyBac transposable element derived 2 [ Homo sapiens (human) ]

Gene ID: 267002, updated on 25-Jan-2022

Summary

Official Symbol
PGBD2provided by HGNC
Official Full Name
piggyBac transposable element derived 2provided by HGNC
Primary source
HGNC:HGNC:19399
See related
Ensembl:ENSG00000185220 AllianceGenome:HGNC:19399
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. The exact function of this gene is not known. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 3.5), thyroid (RPKM 2.7) and 25 other tissues See more
Orthologs
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Genomic context

See PGBD2 in Genome Data Viewer
Location:
1q44
Exon count:
6
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (248873827..248919146)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (249200434..249213345)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene zinc finger protein 672 Neighboring gene zinc finger protein 692 Neighboring gene tRNA-Leu (anticodon CAA) 4-1 Neighboring gene tRNA-Glu (anticodon CTC) 2-1 Neighboring gene CRISPRi-validated cis-regulatory element chr1.12988 Neighboring gene CRISPRi-validated cis-regulatory element chr1.12989 Neighboring gene Sharpr-MPRA regulatory region 4184 Neighboring gene RNA, U6 small nuclear 1205, pseudogene Neighboring gene ribosomal protein L23a pseudogene 25

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
piggyBac transposable element-derived protein 2

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_001017434.2NP_001017434.1  piggyBac transposable element-derived protein 2 isoform b

    See identical proteins and their annotated locations for NP_001017434.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    AI038307, AK123219, AL672183
    Consensus CDS
    CCDS31129.1
    UniProtKB/Swiss-Prot
    Q6P3X8
    UniProtKB/TrEMBL
    A0A024R0S7
    Related
    ENSP00000355424.3, ENST00000355360.8
    Conserved Domains (1) summary
    pfam13843
    Location:1248
    DDE_Tnp_1_7; Transposase IS4
  2. NM_170725.3NP_733843.1  piggyBac transposable element-derived protein 2 isoform a

    See identical proteins and their annotated locations for NP_733843.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AI038307, AK123219, AL672183, BC063785
    Consensus CDS
    CCDS31128.1
    UniProtKB/Swiss-Prot
    Q6P3X8
    Related
    ENSP00000331643.5, ENST00000329291.6
    Conserved Domains (1) summary
    pfam13843
    Location:140499
    DDE_Tnp_1_7; Transposase IS4

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    248873827..248919146
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011544161.3XP_011542463.1  piggyBac transposable element-derived protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011542463.1

    UniProtKB/Swiss-Prot
    Q6P3X8
    Conserved Domains (1) summary
    pfam13843
    Location:140499
    DDE_Tnp_1_7; Transposase IS4
  2. XM_005270333.1XP_005270390.1  piggyBac transposable element-derived protein 2 isoform X2

    Conserved Domains (1) summary
    pfam13843
    Location:137496
    DDE_Tnp_1_7; Transposase IS4
  3. XM_011544159.2XP_011542461.1  piggyBac transposable element-derived protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011542461.1

    UniProtKB/Swiss-Prot
    Q6P3X8
    Conserved Domains (1) summary
    pfam13843
    Location:140499
    DDE_Tnp_1_7; Transposase IS4
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