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

Gene ID: 320713, updated on 18-Apr-2024

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
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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_000070.7Genomic Context describing neighboring genes Neighboring gene equatorin, sperm acrosome associated Neighboring gene predicted gene 12693 Neighboring gene STARR-seq mESC enhancer starr_10795 Neighboring gene STARR-positive B cell enhancer ABC_E2697 Neighboring gene STARR-seq mESC enhancer starr_10796 Neighboring gene STARR-positive B cell enhancer ABC_E6190 Neighboring gene STARR-positive B cell enhancer mm9_chr4:94674887-94675187 Neighboring gene predicted gene 12694 Neighboring gene STARR-positive B cell enhancer ABC_E6191 Neighboring gene STARR-positive B cell enhancer ABC_E36 Neighboring gene jun proto-oncogene

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)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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
 
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

Preferred Names
deubiquitinase MYSM1
Names
2A-DUB
histone H2A deubiquitinase MYSM1
myb-like, SWIRM and MPN domain-containing protein 1
NP_796213.2
XP_006503233.2
XP_017175747.1
XP_017175748.1
XP_017175749.1
XP_017175750.1
XP_030109470.1
XP_030109472.1
XP_036020079.1

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_177239.4NP_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:562744
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    smart00717
    Location:117161
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    cd00167
    Location:117160
    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:373452
    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

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    94830274..94867392 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006503170.4XP_006503233.2  deubiquitinase MYSM1 isoform X7

    Conserved Domains (3) summary
    cd08067
    Location:562705
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  2. XM_036164186.1XP_036020079.1  deubiquitinase MYSM1 isoform X3

    Conserved Domains (3) summary
    cd08067
    Location:562744
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  3. XM_017320261.2XP_017175750.1  deubiquitinase MYSM1 isoform X6

    Conserved Domains (3) summary
    cd08067
    Location:562710
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  4. XM_017320259.2XP_017175748.1  deubiquitinase MYSM1 isoform X2

    Conserved Domains (3) summary
    cd08067
    Location:562749
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  5. XM_017320258.2XP_017175747.1  deubiquitinase MYSM1 isoform X1

    Conserved Domains (3) summary
    cd08067
    Location:562749
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  6. XM_030253612.2XP_030109472.1  deubiquitinase MYSM1 isoform X8

    Conserved Domains (2) summary
    cd08067
    Location:313495
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam04433
    Location:124203
    SWIRM; SWIRM domain
  7. XM_030253610.2XP_030109470.1  deubiquitinase MYSM1 isoform X5

    Conserved Domains (3) summary
    cd08067
    Location:562705
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain
  8. XM_017320260.3XP_017175749.1  deubiquitinase MYSM1 isoform X4

    Conserved Domains (3) summary
    cd08067
    Location:562710
    MPN_2A_DUB; Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase
    pfam00249
    Location:116160
    Myb_DNA-binding; Myb-like DNA-binding domain
    pfam04433
    Location:373452
    SWIRM; SWIRM domain

RNA

  1. XR_003954970.2 RNA Sequence

  2. XR_003954969.2 RNA Sequence

  3. XR_003954971.2 RNA Sequence