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Usp9x ubiquitin specific peptidase 9, X chromosome [ Mus musculus (house mouse) ]

Gene ID: 22284, updated on 8-Jan-2023

Summary

Official Symbol
Usp9xprovided by MGI
Official Full Name
ubiquitin specific peptidase 9, X chromosomeprovided by MGI
Primary source
MGI:MGI:894681
See related
Ensembl:ENSMUSG00000031010 AllianceGenome:MGI:894681
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
Fafl; Dffrx; FAF-X; 5730589N07Rik
Summary
Enables deubiquitinase activity and ubiquitin protein ligase binding activity. Involved in neuron migration and protein deubiquitination involved in ubiquitin-dependent protein catabolic process. Acts upstream of or within several processes, including cellular response to transforming growth factor beta stimulus; in utero embryonic development; and nervous system development. Located in apical part of cell and cytoplasm. Is expressed in several structures, including central nervous system; eye; limb interdigital region; lung; and reproductive system. Human ortholog(s) of this gene implicated in female-restricted syndromic X-linked intellectual disability 99 and non-syndromic X-linked intellectual disability 99. Orthologous to human USP9X (ubiquitin specific peptidase 9 X-linked). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 19.5), CNS E18 (RPKM 11.9) and 26 other tissues See more
Orthologs
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Genomic context

See Usp9x in Genome Data Viewer
Location:
X A1.1; X 7.95 cM
Exon count:
48
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (12937221..13039567)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (13070982..13173328)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930500G05 gene Neighboring gene predicted gene, 41890 Neighboring gene RIKEN cDNA 5730405O15 gene Neighboring gene ribosomal protein L3, pseudogene 1 Neighboring gene LLP homolog, pseudogene 2

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)
  • Gene trapped (3) 
  • Targeted (3)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables K48-linked deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
 
enables K63-linked deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
 
enables co-SMAD binding ISO
Inferred from Sequence Orthology
more info
 
enables cysteine-type deubiquitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cysteine-type deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
 
enables cysteine-type endopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cysteine-type endopeptidase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cysteine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables deubiquitinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within axon extension IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in axon extension IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in axon extension ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cellular response to transforming growth factor beta stimulus IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cerebellar cortex structural organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chromosome segregation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within hippocampus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within in utero embryonic development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in monoubiquitinated protein deubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neuron migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within neuron projection extension IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of DNA demethylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of TORC2 signaling ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein binding ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within post-embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein K63-linked deubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in protein deubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein deubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein deubiquitination involved in ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein deubiquitination involved in ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in protein import into peroxisome matrix, receptor recycling ISO
Inferred from Sequence Orthology
more info
 
involved_in protein stabilization 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 T cell receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in regulation of circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within rhythmic process IEA
Inferred from Electronic Annotation
more info
 
involved_in transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in apical part of cell IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
located_in cilium ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in growth cone ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
probable ubiquitin carboxyl-terminal hydrolase FAF-X
Names
deubiquitinating enzyme FAF-X
fat facets homolog
fat facets protein-related, X-linked
fats facets protein related, X
ubiquitin carboxyl-terminal hydrolase FAM
ubiquitin thioesterase FAF-X
ubiquitin thiolesterase FAF-X
ubiquitin-specific protease 9, X chromosome
ubiquitin-specific-processing protease FAF-X
NP_033507.2
XP_006527649.1
XP_006527650.1
XP_006527651.1
XP_006527652.1
XP_006527654.1
XP_011245756.1
XP_011245758.1
XP_030107164.1
XP_030107165.1
XP_030107166.1
XP_030107167.1
XP_030107168.1
XP_030107169.1
XP_036017800.1
XP_036017801.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001408717.1NP_001395646.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL669967
    UniProtKB/TrEMBL
    Q4FE56
  2. NM_001408718.1NP_001395647.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL669967
  3. NM_001408719.1NP_001395648.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL669967
  4. NM_009481.3NP_033507.2  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform 1

    See identical proteins and their annotated locations for NP_033507.2

    Status: VALIDATED

    Source sequence(s)
    AL669967
    Consensus CDS
    CCDS40875.1
    UniProtKB/Swiss-Prot
    P70398
    UniProtKB/TrEMBL
    Q4FE56, Q8BS89, Q8C7T5
    Related
    ENSMUSP00000086716.5, ENSMUST00000089302.11
    Conserved Domains (3) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam12030
    Location:20972476
    DUF3517; Domain of unknown function (DUF3517)
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    12937221..13039567
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030251305.1XP_030107165.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2

    Conserved Domains (2) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  2. XM_006527589.5XP_006527652.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    See identical proteins and their annotated locations for XP_006527652.1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  3. XM_030251307.2XP_030107167.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2

    Conserved Domains (2) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  4. XM_006527587.5XP_006527650.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    See identical proteins and their annotated locations for XP_006527650.1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  5. XM_006527586.4XP_006527649.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    See identical proteins and their annotated locations for XP_006527649.1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  6. XM_011247456.3XP_011245758.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X3

    Conserved Domains (3) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam12030
    Location:21022481
    DUF3517; Domain of unknown function (DUF3517)
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  7. XM_006527591.4XP_006527654.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2

    See identical proteins and their annotated locations for XP_006527654.1

    Conserved Domains (2) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  8. XM_030251309.2XP_030107169.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X4

    Conserved Domains (3) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam12030
    Location:20972476
    DUF3517; Domain of unknown function (DUF3517)
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  9. XM_036161908.1XP_036017801.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X4

    UniProtKB/TrEMBL
    Q4FE56
    Conserved Domains (3) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam12030
    Location:20972476
    DUF3517; Domain of unknown function (DUF3517)
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  10. XM_006527588.4XP_006527651.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    See identical proteins and their annotated locations for XP_006527651.1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  11. XM_036161907.1XP_036017800.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X3

    Conserved Domains (3) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam12030
    Location:21022481
    DUF3517; Domain of unknown function (DUF3517)
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  12. XM_011247454.3XP_011245756.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    See identical proteins and their annotated locations for XP_011245756.1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  13. XM_030251306.2XP_030107166.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2

    Conserved Domains (2) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  14. XM_030251304.2XP_030107164.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1

    Conserved Domains (2) summary
    cd02659
    Location:15601963
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:905969
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
  15. XM_030251308.2XP_030107168.1  probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2

    Conserved Domains (2) summary
    cd02659
    Location:15551958
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cl28922
    Location:900964
    Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold