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    Prdm10 PR domain containing 10 [ Mus musculus (house mouse) ]

    Gene ID: 382066, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Prdm10provided by MGI
    Official Full Name
    PR domain containing 10provided by MGI
    Primary source
    MGI:MGI:2682952
    See related
    Ensembl:ENSMUSG00000042496 AllianceGenome:MGI:2682952
    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
    Gm1112; tristanin
    Summary
    Predicted to enable DNA binding activity; metal ion binding activity; and methyltransferase activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within methylation. Predicted to be located in chromatin. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Is expressed in several structures, including adrenal medulla; alimentary system; central nervous system; embryo mesenchyme; and genitourinary system. Orthologous to human PRDM10 (PR/SET domain 10). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 3.0), CNS E14 (RPKM 3.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    9 A4; 9 16.77 cM
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (31187406..31293027)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (31276110..31381731)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_23693 Neighboring gene predicted gene, 53544 Neighboring gene predicted gene 7244 Neighboring gene STARR-seq mESC enhancer starr_23695 Neighboring gene predicted gene, 51733 Neighboring gene predicted gene 10910 Neighboring gene STARR-seq mESC enhancer starr_23697 Neighboring gene STARR-seq mESC enhancer starr_23701 Neighboring gene RIKEN cDNA 1700023A20 gene Neighboring gene STARR-positive B cell enhancer ABC_E9326 Neighboring gene nuclear factor related to kappa B binding protein Neighboring gene STARR-positive B cell enhancer ABC_E8852

    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. Down-regulation of PR/SET domain 10 underlies natural killer cell dysfunction in hepatocellular carcinoma. Han J, et al. Clin Exp Immunol, 2021 Dec. PMID 34562314, Free PMC Article
    2. Expression patterns of PRDM10 during mouse embryonic development. Park JA, et al. BMB Rep, 2010 Jan. PMID 20132732
    3. Investigation of PRDM10 and PRDM13 Expression in Developing Mouse Embryos by an Optimized PACT-Based Embryo Clearing Method. Woo J, et al. Int J Mol Sci, 2021 Mar 12. PMID 33809237, Free PMC Article
    4. Global translation during early development depends on the essential transcription factor PRDM10. Han BY, et al. Nat Commun, 2020 Jul 17. PMID 32681107, Free PMC Article
    5. Prdm proto-oncogene transcription factor family expression and interaction with the Notch-Hes pathway in mouse neurogenesis. Kinameri E, et al. PLoS One, 2008. PMID 19050759, Free PMC Article

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Down-regulation of PR/SET domain 10 underlies natural killer cell dysfunction in hepatocellular carcinoma.
      Title: Down-regulation of PR/SET domain 10 underlies natural killer cell dysfunction in hepatocellular carcinoma.
    2. Investigation of PRDM10 and PRDM13 Expression in Developing Mouse Embryos by an Optimized PACT-Based Embryo Clearing Method.
      Title: Investigation of PRDM10 and PRDM13 Expression in Developing Mouse Embryos by an Optimized PACT-Based Embryo Clearing Method.
    3. Global translation during early development depends on the essential transcription factor PRDM10.
      Title: Global translation during early development depends on the essential transcription factor PRDM10.
    4. PRDM10 might be a transcriptional regulator for normal tissue differentiation during mouse embryonic development.
      Title: Expression patterns of PRDM10 during mouse embryonic development.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (4)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC73898

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription 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
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription repressor complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    PR domain zinc finger protein 10
    Names
    PR domain-containing protein 10
    NP_001355774.1
    NP_001355775.1
    NP_001398366.1
    NP_001398367.1
    NP_955019.1
    XP_006510528.1
    XP_006510529.1
    XP_006510531.1
    XP_006510532.1
    XP_006510533.1
    XP_006510534.1
    XP_011240870.1
    XP_030100292.1

    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_001368845.2 → NP_001355774.1  PR domain zinc finger protein 10 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC167244, CT025678
      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (7) summary
      PRK03427
      Location:909 → 1007
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:612 → 632
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:638 → 660
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:568 → 593
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    2. NM_001368846.2 → NP_001355775.1  PR domain zinc finger protein 10 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC167244, CT025678
      UniProtKB/TrEMBL
      A0A1L1SS03
      Related
      ENSMUSP00000149526.2, ENSMUST00000215499.2
      Conserved Domains (7) summary
      PRK03427
      Location:905 → 1003
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:608 → 628
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:634 → 656
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:564 → 589
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    3. NM_001411437.1 → NP_001398366.1  PR domain zinc finger protein 10 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC167244

    4. NM_001411438.1 → NP_001398367.1  PR domain zinc finger protein 10 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC167244, CT025678

    5. NM_199315.2 → NP_955019.1  PR domain zinc finger protein 10 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC167244, CT025678
      Consensus CDS
      CCDS90529.1
      Related
      ENSMUSP00000112588.2, ENSMUST00000117389.8
      Conserved Domains (2) summary
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 317
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      31187406..31293027
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006510471.4 → XP_006510534.1  PR domain zinc finger protein 10 isoform X6

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (8) summary
      PRK03427
      Location:789 → 887
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:520 → 540
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:518 → 540
      zf-C2H2; Zinc finger, C2H2 type
      pfam12171
      Location:351 → 370
      zf-C2H2_jaz; Zinc-finger double-stranded RNA-binding
      pfam13465
      Location:504 → 527
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    2. XM_006510468.4 → XP_006510531.1  PR domain zinc finger protein 10 isoform X3

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (7) summary
      PRK03427
      Location:901 → 999
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:604 → 624
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:630 → 652
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:560 → 585
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 496
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    3. XM_030244432.1 → XP_030100292.1  PR domain zinc finger protein 10 isoform X7

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (8) summary
      PRK03427
      Location:781 → 879
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:512 → 532
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:510 → 532
      zf-C2H2; Zinc finger, C2H2 type
      pfam12171
      Location:351 → 370
      zf-C2H2_jaz; Zinc-finger double-stranded RNA-binding
      pfam13465
      Location:496 → 519
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 496
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    4. XM_006510470.4 → XP_006510533.1  PR domain zinc finger protein 10 isoform X5

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (8) summary
      PRK03427
      Location:841 → 939
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:544 → 564
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:570 → 592
      zf-C2H2; Zinc finger, C2H2 type
      pfam12171
      Location:283 → 302
      zf-C2H2_jaz; Zinc-finger double-stranded RNA-binding
      pfam13465
      Location:500 → 525
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:331 → 436
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cl40432
      Location:197 → 260
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    5. XM_006510469.4 → XP_006510532.1  PR domain zinc finger protein 10 isoform X4

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (7) summary
      PRK03427
      Location:884 → 982
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:587 → 607
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:613 → 635
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:543 → 568
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:374 → 479
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:142 → 169
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:172 → 303
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    6. XM_011242568.3 → XP_011240870.1  PR domain zinc finger protein 10 isoform X8

      Conserved Domains (7) summary
      COG5048
      Location:553 → 629
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:526 → 546
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam12171
      Location:351 → 370
      zf-C2H2_jaz; Zinc-finger double-stranded RNA-binding
      pfam13465
      Location:568 → 593
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    7. XM_006510466.4 → XP_006510529.1  PR domain zinc finger protein 10 isoform X1

      See identical proteins and their annotated locations for XP_006510529.1

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (7) summary
      PRK03427
      Location:909 → 1007
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:612 → 632
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:638 → 660
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:568 → 593
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    8. XM_006510465.4 → XP_006510528.1  PR domain zinc finger protein 10 isoform X1

      See identical proteins and their annotated locations for XP_006510528.1

      UniProtKB/TrEMBL
      A0A1L1SS03
      Conserved Domains (7) summary
      PRK03427
      Location:909 → 1007
      PRK03427; cell division protein ZipA; Provisional
      sd00017
      Location:612 → 632
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:638 → 660
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:568 → 593
      zf-H2C2_2; Zinc-finger double domain
      pfam16638
      Location:399 → 504
      Tristanin_u2; Unstructured region on methyltransferase between zinc-fingers
      pfam18445
      Location:167 → 194
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19194
      Location:197 → 328
      PR-SET_PRDM10; PR-SET domain found in PR domain zinc finger protein 10 (PRDM10) and similar proteins

    RNA

    1. XR_004935468.1 RNA Sequence

    2. XR_870532.3 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001080817.1: Suppressed sequence

      Description
      NM_001080817.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3UTQ7.2 GenPept UniProtKB/Swiss-Prot:Q3UTQ7

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