Mysm1 myb-like, SWIRM and MPN domains 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Mysm1provided by MGI
Official Full Name: myb-like, SWIRM and MPN domains 1provided by MGI
Primary source: MGI:MGI:2444584
See related: Ensembl:ENSMUSG00000062627 AllianceGenome:MGI:2444584
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: C130067A03Rik; C530050H10Rik
Summary: Predicted to enable histone binding activity; peptidase activity; and transcription coactivator activity. Acts upstream of or within pigmentation; regulation of cell migration; and regulation of hair follicle development. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of protein-containing complex. Is expressed in metanephros. Human ortholog(s) of this gene implicated in diabetic retinopathy. Orthologous to human MYSM1 (Myb like, SWIRM and MPN domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in limb E14.5 (RPKM 5.5), CNS E11.5 (RPKM 4.6) and 26 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 C5; 4 43.34 cM

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (94830274..94867392, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (94942037..94979155, complement)

Chromosome 4 - NC_000070.7 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?

Chromatin-binding deubiquitinase MYSM1 acts in haematopoietic progenitors to control dendritic cell development and to program dendritic cell responses to microbial stimulation.
Title: Chromatin-binding deubiquitinase MYSM1 acts in haematopoietic progenitors to control dendritic cell development and to program dendritic cell responses to microbial stimulation.
Deubiquitinase Mysm1 regulates neural stem cell proliferation and differentiation by controlling Id4 expression.
Title: Deubiquitinase Mysm1 regulates neural stem cell proliferation and differentiation by controlling Id4 expression.
Loss of MYSM1 inhibits the oncogenic activity of cMYC in B cell lymphoma.
Title: Loss of MYSM1 inhibits the oncogenic activity of cMYC in B cell lymphoma.
MYSM1 maintains ribosomal protein gene expression in hematopoietic stem cells to prevent hematopoietic dysfunction.
Title: MYSM1 maintains ribosomal protein gene expression in hematopoietic stem cells to prevent hematopoietic dysfunction.
Study indicates a role of histone H2A deubiquitinase MYSM1 (Mysm1) in regulating the immunomodulatory activities of adipose-derived stem cells (ASCs) by targeting miR-150.
Title: Mysm1 epigenetically regulates the immunomodulatory function of adipose-derived stem cells in part by targeting miR-150.
This study provides a complete overview of the polyubiquitins in NOD2:RIP2 signaling and reveal MYSM1 as a central negative regulator restricting these polyubiquitins to prevent excessive inflammation.
Title: The deubiquitinase MYSM1 dampens NOD2-mediated inflammation and tissue damage by inactivating the RIP2 complex.
Mysm1 is a critical epigenetic regulator of epidermal development and ESC specification through interference with p53-mediated apoptosis and cell cycle inhibition-and potentially modification of p63-regulated programs-whereas ESC maintenance later in adult life may be compensated through yet to be investigated mechanisms.
Title: 2A-DUB/Mysm1 Regulates Epidermal Development in Part by Suppressing p53-Mediated Programs.
Mysm1 enhanced function of the IRF2 and IRF8 promoters, suggesting that Mysm1 governs the IRFs for hematopoietic stem cell homeostasis.
Title: Mysm1 is required for interferon regulatory factor expression in maintaining HSC quiescence and thymocyte development.
MYSM1 activity at the prepro-B cell stage of development is important for the normal programming of B cell responses to stimulation once they complete their maturation process.
Title: MYSM1-dependent checkpoints in B cell lineage differentiation and B cell-mediated immune response.
Overall we conclude that Mysm1 expression within the niche is not essential for the maintenance of hematopoietic homeostasis.
Title: Mysm1 expression in the bone marrow niche is not essential for hematopoietic maintenance.

Submit: New GeneRIF Correction See all GeneRIFs (22)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (5) 1 citation
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH142050 (e-PCR)
- UniSTS:224040

D10Mit157.2 (e-PCR), detects polymorphism
- UniSTS:126061

Mysm1 (e-PCR), detects polymorphism
- UniSTS:536437

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone H2A deubiquitinase activity	ISO Inferred from Sequence Orthology more info
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metal-dependent deubiquitinase activity	ISO Inferred from Sequence Orthology more info
enables metallopeptidase activity	IEA Inferred from Electronic Annotation more info
enables peptidase activity	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune system process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pigmentation	IMP Inferred from Mutant Phenotype more info	PubMed
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
acts_upstream_of_or_within proteolysis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of hair follicle development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of hemopoiesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: deubiquitinase MYSM1

Names: 2A-DUB; histone H2A deubiquitinase MYSM1; myb-like, SWIRM and MPN domain-containing protein 1

NP_796213.2

EC 3.1.2.15

XP_006503233.2

EC 3.1.2.15

XP_017175747.1

EC 3.1.2.15

XP_017175748.1

EC 3.1.2.15

XP_017175749.1

EC 3.1.2.15

XP_017175750.1

EC 3.1.2.15

XP_030109470.1

EC 3.1.2.15

XP_030109472.1

EC 3.1.2.15

XP_036020079.1

EC 3.1.2.15

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_177239.4 → NP_796213.2 deubiquitinase MYSM1

See identical proteins and their annotated locations for NP_796213.2

Status: VALIDATED

Source sequence(s)

AL732611

Consensus CDS

CCDS18363.1

UniProtKB/Swiss-Prot

A2AJE3, B9EKJ6, Q3TPV7, Q69Z66, Q8BRP5, Q8C4N1

Related

ENSMUSP00000075269.4, ENSMUST00000075872.4

Conserved Domains (4) summary

cd08067
Location:562 → 744

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

smart00717
Location:117 → 161

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd00167
Location:117 → 160

SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

pfam04433
Location:373 → 452

SWIRM; SWIRM domain

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_000070.7 Reference GRCm39 C57BL/6J

Range

94830274..94867392 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006503170.4 → XP_006503233.2 deubiquitinase MYSM1 isoform X7

Conserved Domains (3) summary

cd08067
Location:562 → 705

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_036164186.1 → XP_036020079.1 deubiquitinase MYSM1 isoform X3

Conserved Domains (3) summary

cd08067
Location:562 → 744

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_017320261.2 → XP_017175750.1 deubiquitinase MYSM1 isoform X6

Conserved Domains (3) summary

cd08067
Location:562 → 710

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_017320259.2 → XP_017175748.1 deubiquitinase MYSM1 isoform X2

Conserved Domains (3) summary

cd08067
Location:562 → 749

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_017320258.2 → XP_017175747.1 deubiquitinase MYSM1 isoform X1

Conserved Domains (3) summary

cd08067
Location:562 → 749

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_030253612.2 → XP_030109472.1 deubiquitinase MYSM1 isoform X8

Conserved Domains (2) summary

cd08067
Location:313 → 495

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam04433
Location:124 → 203

SWIRM; SWIRM domain
XM_030253610.2 → XP_030109470.1 deubiquitinase MYSM1 isoform X5

Conserved Domains (3) summary

cd08067
Location:562 → 705

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain
XM_017320260.3 → XP_017175749.1 deubiquitinase MYSM1 isoform X4

Conserved Domains (3) summary

cd08067
Location:562 → 710

MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase

pfam00249
Location:116 → 160

Myb_DNA-binding; Myb-like DNA-binding domain

pfam04433
Location:373 → 452

SWIRM; SWIRM domain