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    Pogz pogo transposable element with ZNF domain [ Mus musculus (house mouse) ]

    Gene ID: 229584, updated on 23-Jun-2021

    Summary

    Official Symbol
    Pogzprovided by MGI
    Official Full Name
    pogo transposable element with ZNF domainprovided by MGI
    Primary source
    MGI:MGI:2442117
    See related
    Ensembl:ENSMUSG00000038902
    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
    9530006B08Rik
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 13.7), CNS E14 (RPKM 13.7) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Pogz in Genome Data Viewer
    Location:
    3; 3 F2.1
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (94730289..94790888)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (94822989..94883577)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 3 NC_000069.5 (94641489..94687491)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 52626 Neighboring gene cingulin Neighboring gene predicted gene, 40094 Neighboring gene special AT-rich sequence binding protein 1 pseudogene Neighboring gene proteasome (prosome, macropain) subunit, beta type 4 Neighboring gene predicted gene, 36237 Neighboring gene predicted gene, 26279

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in kinetochore assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitotic sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    pogo transposable element with ZNF domain

    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_001165948.2NP_001159420.1  pogo transposable element with ZNF domain isoform 2

      See identical proteins and their annotated locations for NP_001159420.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
      Source sequence(s)
      AC087062, AC087903
      Consensus CDS
      CCDS50985.1
      UniProtKB/TrEMBL
      Q0VGT3
      Related
      ENSMUSP00000037523.6, ENSMUST00000042402.12
      Conserved Domains (4) summary
      smart00674
      Location:10081069
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      sd00017
      Location:520541
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:484517
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:11431267
      rve; Integrase core domain
    2. NM_001368811.1NP_001355740.1  pogo transposable element with ZNF domain isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC087062, AC087903
      Conserved Domains (5) summary
      smart00674
      Location:911972
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:737848
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:423444
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:387420
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:10461170
      rve; Integrase core domain
    3. NM_001368812.1NP_001355741.1  pogo transposable element with ZNF domain isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC087062, AC087903
      Conserved Domains (5) summary
      smart00674
      Location:858919
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:684795
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:370391
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:334367
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:9931117
      rve; Integrase core domain
    4. NM_172683.4NP_766271.2  pogo transposable element with ZNF domain isoform 1

      See identical proteins and their annotated locations for NP_766271.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC087062, AC087903
      Consensus CDS
      CCDS17596.1
      UniProtKB/Swiss-Prot
      Q8BZH4
      UniProtKB/TrEMBL
      B9EIG6
      Related
      ENSMUSP00000102891.3, ENSMUST00000107270.9
      Conserved Domains (5) summary
      smart00674
      Location:10171078
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:843954
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:529550
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:493526
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:11581269
      rve; Integrase core domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      94730289..94790888
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011240090.4XP_011238392.1  pogo transposable element with ZNF domain isoform X1

      See identical proteins and their annotated locations for XP_011238392.1

      UniProtKB/Swiss-Prot
      Q8BZH4
      UniProtKB/TrEMBL
      B9EIG6
      Related
      ENSMUSP00000102890.2, ENSMUST00000107269.2
      Conserved Domains (5) summary
      smart00674
      Location:10171078
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:843954
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:529550
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:493526
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:11581269
      rve; Integrase core domain
    2. XM_006501362.2XP_006501425.1  pogo transposable element with ZNF domain isoform X2

      UniProtKB/TrEMBL
      D3YUX1
      Related
      ENSMUSP00000102887.2, ENSMUST00000107266.8
      Conserved Domains (5) summary
      smart00674
      Location:9641025
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:790901
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:476497
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:440473
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:11051216
      rve; Integrase core domain
    3. XM_006501363.2XP_006501426.1  pogo transposable element with ZNF domain isoform X3

      Conserved Domains (5) summary
      smart00674
      Location:9551016
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      PHA03247
      Location:781892
      PHA03247; large tegument protein UL36; Provisional
      sd00017
      Location:467488
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:431464
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:10961207
      rve; Integrase core domain
    4. XM_036163056.1XP_036018949.1  pogo transposable element with ZNF domain isoform X4

      Conserved Domains (4) summary
      PLN03209
      Location:322425
      PLN03209; translocon at the inner envelope of chloroplast subunit 62; Provisional
      smart00674
      Location:467528
      CENPB; Putative DNA-binding domain in centromere protein B, mouse jerky and transposases
      sd00017
      Location:930
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl21549
      Location:608719
      rve; Integrase core domain
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