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Prdm15 PR domain containing 15 [ Mus musculus (house mouse) ]

Gene ID: 114604, updated on 21-Apr-2024

Summary

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Official Symbol
Prdm15provided by MGI
Official Full Name
PR domain containing 15provided by MGI
Primary source
MGI:MGI:1930121
See related
Ensembl:ENSMUSG00000014039 AllianceGenome:MGI:1930121
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
ORF62; Zfp298; C21orf83; E130018M06Rik
Summary
Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and promoter-specific chromatin binding activity. Involved in positive regulation of transcription by RNA polymerase II; regulation of signal transduction; and regulation of stem cell division. Located in nucleus. Is expressed in several structures, including central nervous system; genitourinary system; incisor; sensory organ; and skin. Orthologous to human PRDM15 (PR/SET domain 15). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 6.0), whole brain E14.5 (RPKM 4.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
16 C4; 16 57.66 cM
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (97592720..97653076, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (97791467..97851875, complement)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41513 Neighboring gene receptor-interacting serine-threonine kinase 4 Neighboring gene STARR-seq mESC enhancer starr_41639 Neighboring gene C2 calcium-dependent domain containing 2 Neighboring gene STARR-seq mESC enhancer starr_41640 Neighboring gene microRNA 6964 Neighboring gene zinc finger and BTB domain containing 21 Neighboring gene predicted gene, 53924

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. PRDM15 is a key regulator of metabolism critical to sustain B-cell lymphomagenesis. Mzoughi S, et al. Nat Commun, 2020 Jul 14. PMID 32665551, Free PMC Article
  2. PRDM15 safeguards naive pluripotency by transcriptionally regulating WNT and MAPK-ERK signaling. Mzoughi S, et al. Nat Genet, 2017 Sep. PMID 28740264
  3. Ts65Dn -- localization of the translocation breakpoint and trisomic gene content in a mouse model for Down syndrome. Akeson EC, et al. Cytogenet Cell Genet, 2001. PMID 11528125
  4. PRDM15 loss of function links NOTCH and WNT/PCP signaling to patterning defects in holoprosencephaly. Mzoughi S, et al. Sci Adv, 2020 Jan. PMID 31950080, Free PMC Article
  5. Evolutionary breakpoints on human chromosome 21. Davisson MT, et al. Genomics, 2001 Nov. PMID 11707078

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. PRDM15 loss of function links NOTCH and WNT/PCP signaling to patterning defects in holoprosencephaly.
    Title: PRDM15 loss of function links NOTCH and WNT/PCP signaling to patterning defects in holoprosencephaly.
  2. Findings indicate that PR domain containing 15 protein (PRDM15) is important in both mouse and human induced pluripotent stem cells (iPSCs) reprogramming.
    Title: PRDM15 safeguards naive pluripotency by transcriptionally regulating WNT and MAPK-ERK signaling.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (4) 

General gene information

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Markers

Homology

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 IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables promoter-specific chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell fate commitment IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of MAPK cascade IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of stem cell division IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nuclear body 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
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
PR domain zinc finger protein 15
Names
PR domain-containing protein 15
zinc finger protein 298

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_001359077.2 → NP_001346006.1  PR domain zinc finger protein 15 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC121560
    Consensus CDS
    CCDS88979.1
    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Related
    ENSMUSP00000113791.2, ENSMUST00000121584.8
    Conserved Domains (4) summary
    COG5048
    Location:665 → 834
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:701 → 721
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18445
    Location:12 → 37
    zf_PR_Knuckle; PR zinc knuckle motif
    cd19199
    Location:41 → 166
    PR-SET_PRDM15; PR-SET domain found in PR domain zinc finger protein 15 (PRDM15) and similar proteins

  2. NM_001359078.2 → NP_001346007.1  PR domain zinc finger protein 15 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC121560
    Conserved Domains (2) summary
    COG5048
    Location:162 → 331
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:198 → 218
    ZF_C2H2; C2H2 Zn finger [structural motif]

  3. NM_001403426.1 → NP_001390355.1  PR domain zinc finger protein 15 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC121560

  4. NM_001403427.1 → NP_001390356.1  PR domain zinc finger protein 15 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC121560

  5. NM_001403428.1 → NP_001390357.1  PR domain zinc finger protein 15 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC121560

  6. NM_001403429.1 → NP_001390358.1  PR domain zinc finger protein 15 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC121560

  7. NM_001403430.1 → NP_001390359.1  PR domain zinc finger protein 15 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC121560

  8. NM_001403431.1 → NP_001390360.1  PR domain zinc finger protein 15 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC121560

  9. NM_001403432.1 → NP_001390361.1  PR domain zinc finger protein 15 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC121560

  10. NM_001403437.2 → NP_001390366.2  PR domain zinc finger protein 15 isoform 9

    Status: VALIDATED

    Source sequence(s)
    AC121560

  11. NM_001403438.2 → NP_001390367.2  PR domain zinc finger protein 15 isoform 10

    Status: VALIDATED

    Source sequence(s)
    AC121560

  12. NM_144789.3 → NP_659038.3  PR domain zinc finger protein 15 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC121560
    Consensus CDS
    CCDS49926.1
    Related
    ENSMUSP00000093533.4, ENSMUST00000095849.10

RNA

  1. NR_175376.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC121560
    Related
    ENSMUST00000142295.8

  2. NR_175377.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC121560

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_000082.7 Reference GRCm39 C57BL/6J

    Range
    97592720..97653076 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030248930.2 → XP_030104790.1  PR domain zinc finger protein 15 isoform X6

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (4) summary
    COG5048
    Location:662 → 831
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:698 → 718
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18445
    Location:48 → 73
    zf_PR_Knuckle; PR zinc knuckle motif
    cd19199
    Location:77 → 202
    PR-SET_PRDM15; PR-SET domain found in PR domain zinc finger protein 15 (PRDM15) and similar proteins

  2. XM_006522866.5 → XP_006522929.1  PR domain zinc finger protein 15 isoform X4

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (4) summary
    COG5048
    Location:667 → 836
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:703 → 723
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18445
    Location:48 → 73
    zf_PR_Knuckle; PR zinc knuckle motif
    cd19199
    Location:77 → 202
    PR-SET_PRDM15; PR-SET domain found in PR domain zinc finger protein 15 (PRDM15) and similar proteins

  3. XM_006522865.5 → XP_006522928.1  PR domain zinc finger protein 15 isoform X3

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (4) summary
    COG5048
    Location:667 → 836
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:703 → 723
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18445
    Location:48 → 73
    zf_PR_Knuckle; PR zinc knuckle motif
    cd19199
    Location:77 → 202
    PR-SET_PRDM15; PR-SET domain found in PR domain zinc finger protein 15 (PRDM15) and similar proteins

  4. XM_030248931.2 → XP_030104791.1  PR domain zinc finger protein 15 isoform X8

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (4) summary
    COG5048
    Location:631 → 800
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:667 → 687
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18445
    Location:12 → 37
    zf_PR_Knuckle; PR zinc knuckle motif
    cd19199
    Location:41 → 166
    PR-SET_PRDM15; PR-SET domain found in PR domain zinc finger protein 15 (PRDM15) and similar proteins

  5. XM_030248932.2 → XP_030104792.1  PR domain zinc finger protein 15 isoform X10

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (3) summary
    COG5048
    Location:549 → 718
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:585 → 605
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cl40432
    Location:1 → 50
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

  6. XM_036159746.1 → XP_036015639.1  PR domain zinc finger protein 15 isoform X12

    Conserved Domains (2) summary
    COG5048
    Location:193 → 362
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:229 → 249
    ZF_C2H2; C2H2 Zn finger [structural motif]

  7. XM_036159745.1 → XP_036015638.1  PR domain zinc finger protein 15 isoform X11

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (3) summary
    COG5048
    Location:510 → 679
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:546 → 566
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cl40432
    Location:1 → 50
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

  8. XM_006522868.5 → XP_006522931.1  PR domain zinc finger protein 15 isoform X10

    See identical proteins and their annotated locations for XP_006522931.1

    UniProtKB/Swiss-Prot
    E9Q6A1, E9Q8T2, Q3UML7
    Conserved Domains (3) summary
    COG5048
    Location:549 → 718
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:585 → 605
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cl40432
    Location:1 → 50
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

RNA

  1. XR_004939145.1 RNA Sequence

  2. XR_384928.5 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
E9Q8T2.1 GenPept UniProtKB/Swiss-Prot:E9Q8T2

Gene LinkOut

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