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    POGK pogo transposable element derived with KRAB domain [ Homo sapiens (human) ]

    Gene ID: 57645, updated on 10-Dec-2024

    Summary

    Official Symbol
    POGKprovided by HGNC
    Official Full Name
    pogo transposable element derived with KRAB domainprovided by HGNC
    Primary source
    HGNC:HGNC:18800
    See related
    Ensembl:ENSG00000143157 MIM:620039; AllianceGenome:HGNC:18800
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BASS2; KRBOX2; LST003
    Summary
    The exact function of the protein encoded by this gene is not known. However, this gene product contains a KRAB domain (which is involved in protein-protein interactions) at the N-terminus, and a transposase domain at the C-terminus, suggesting that it may belong to the family of DNA-mediated transposons in human. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in brain (RPKM 8.9), lung (RPKM 8.9) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See POGK in Genome Data Viewer
    Location:
    1q24.1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (166839475..166856359)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (166185193..166202191)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (166808712..166825596)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene flavin containing dimethylaniline monoxygenase 11, pseudogene Neighboring gene MPRA-validated peak440 silencer Neighboring gene calponin 2 pseudogene 10 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1511 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1512 Neighboring gene transcriptional adaptor 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1513 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1514 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2027 Neighboring gene deoxyuridine triphosphatase pseudogene 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:166852951-166853452 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:166853453-166853952 Neighboring gene uncharacterized LOC124904450

    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

    Phenotypes

    EBI GWAS Catalog

    Description
    Genomic predictors of combat stress vulnerability and resilience in U.S. Marines: A genome-wide association study across multiple ancestries implicates PRTFDC1 as a potential PTSD gene.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA1513, KIAA15131

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    pogo transposable element with KRAB domain
    Names
    KRAB box domain containing 2

    NCBI Reference Sequences (RefSeq)

    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_001314014.2NP_001300943.1  pogo transposable element with KRAB domain isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lacks two consecutive exons in the coding region which results in the use of an alternate start codon compared to variant 1. The encoded isoform (2) is shorter and has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AK293946, AL008639, DB049597
      UniProtKB/TrEMBL
      B4DF62
      Conserved Domains (3) summary
      smart00674
      Location:138205
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      pfam03184
      Location:277449
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:77129
      BrkDBD; Brinker DNA-binding domain
    2. NM_017542.5NP_060012.3  pogo transposable element with KRAB domain isoform 1

      See identical proteins and their annotated locations for NP_060012.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AB040946, AL008639, DB049597
      Consensus CDS
      CCDS1254.1
      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
      Related
      ENSP00000356850.4, ENST00000367876.9
      Conserved Domains (5) summary
      cd07765
      Location:4986
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00674
      Location:256323
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      smart00349
      Location:49107
      KRAB; krueppel associated box
      pfam03184
      Location:395567
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:195247
      BrkDBD; Brinker DNA-binding domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      166839475..166856359
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005245370.5XP_005245427.1  pogo transposable element with KRAB domain isoform X1

      See identical proteins and their annotated locations for XP_005245427.1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
      Conserved Domains (5) summary
      cd07765
      Location:4986
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00674
      Location:256323
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      smart00349
      Location:49107
      KRAB; krueppel associated box
      pfam03184
      Location:395567
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:195247
      BrkDBD; Brinker DNA-binding domain
    2. XM_017001915.2XP_016857404.1  pogo transposable element with KRAB domain isoform X3

      UniProtKB/TrEMBL
      B4DF62
      Conserved Domains (3) summary
      smart00674
      Location:138205
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      pfam03184
      Location:277449
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:77129
      BrkDBD; Brinker DNA-binding domain
    3. XM_011509815.3XP_011508117.1  pogo transposable element with KRAB domain isoform X2

      UniProtKB/TrEMBL
      B4DS22
      Conserved Domains (5) summary
      cd07765
      Location:4986
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00674
      Location:256323
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      smart00349
      Location:49107
      KRAB; krueppel associated box
      pfam03184
      Location:386549
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:195247
      BrkDBD; Brinker DNA-binding domain
    4. XM_047426196.1XP_047282152.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
    5. XM_017001914.3XP_016857403.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
      Related
      ENSP00000356849.1, ENST00000367875.1
      Conserved Domains (5) summary
      cd07765
      Location:4986
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00674
      Location:256323
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      smart00349
      Location:49107
      KRAB; krueppel associated box
      pfam03184
      Location:395567
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:195247
      BrkDBD; Brinker DNA-binding domain
    6. XM_011509814.3XP_011508116.1  pogo transposable element with KRAB domain isoform X1

      See identical proteins and their annotated locations for XP_011508116.1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
      Conserved Domains (5) summary
      cd07765
      Location:4986
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00674
      Location:256323
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      smart00349
      Location:49107
      KRAB; krueppel associated box
      pfam03184
      Location:395567
      DDE_1; DDE superfamily endonuclease
      pfam09607
      Location:195247
      BrkDBD; Brinker DNA-binding domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      166185193..166202191
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054337893.1XP_054193868.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
    2. XM_054337895.1XP_054193870.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
    3. XM_054337898.1XP_054193873.1  pogo transposable element with KRAB domain isoform X3

      UniProtKB/TrEMBL
      B4DF62
    4. XM_054337897.1XP_054193872.1  pogo transposable element with KRAB domain isoform X2

      UniProtKB/TrEMBL
      B4DS22
    5. XM_054337896.1XP_054193871.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22
    6. XM_054337894.1XP_054193869.1  pogo transposable element with KRAB domain isoform X1

      UniProtKB/Swiss-Prot
      Q5TIJ1, Q8TE07, Q9P215
      UniProtKB/TrEMBL
      B4DS22