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

Summary

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 transcription factor activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be part of transcription repressor complex. Predicted to be active in chromatin and nucleus. Is expressed in several structures, including adrenal medulla; alimentary system; central nervous system; genitourinary system; and heart. Human ortholog(s) of this gene implicated in Birt-Hogg-Dube syndrome. Orthologous to human PRDM10 (PR/SET domain 10). [provided by Alliance of Genome Resources, Nov 2024]
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

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_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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)

Endonuclease-mediated (1)
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-152339 (e-PCR)
- UniSTS:177480

Prdm10 (e-PCR), detects polymorphism
- UniSTS:531042

D8M9Mit188 (e-PCR)
- UniSTS:131745

D9Mit188 (e-PCR), detects polymorphism
- UniSTS:131745

AU022048 (e-PCR)
- UniSTS:208359

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 DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in 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 DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity 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
is_active_in chromatin	ISO Inferred from Sequence Orthology more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
is_active_in chromatin	ISS Inferred from Sequence or Structural Similarity 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
is_active_in nucleus	ISS Inferred from Sequence or Structural Similarity 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

EC 2.1.1.-

NP_001355775.1

EC 2.1.1.-

NP_001398366.1

EC 2.1.1.-

NP_001398367.1

EC 2.1.1.-

NP_955019.1

EC 2.1.1.-

XP_006510528.1

EC 2.1.1.-

XP_006510529.1

EC 2.1.1.-

XP_006510531.1

EC 2.1.1.-

XP_006510532.1

EC 2.1.1.-

XP_006510533.1

EC 2.1.1.-

XP_006510534.1

EC 2.1.1.-

XP_011240870.1

EC 2.1.1.-

XP_030100292.1

EC 2.1.1.-

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)

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

Status: VALIDATED

Source sequence(s)

AC167244
NM_001411438.1 → NP_001398367.1 PR domain zinc finger protein 10 isoform 4

Status: VALIDATED

Source sequence(s)

AC167244, CT025678
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

NC_000075.7 Reference GRCm39 C57BL/6J

Range

31187406..31293027

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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
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
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
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
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

XR_004935468.1 RNA Sequence
XR_870532.3 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

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.