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Usp9x Gene Detail
Summary
  • Symbol
    Usp9x
  • Name
    ubiquitin specific peptidase 9, X chromosome
  • Synonyms
    5730589N07Rik, Dffrx, Fafl
  • Feature Type
    protein coding gene
  • IDs
    MGI:894681
    NCBI Gene: 22284
  • Alliance
    genome feature page
  • Transcription Start Sites
    10 TSS
Location &
Maps
more
  • Sequence Map
    ChrX:12937737-13039567 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome X, 7.95 cM
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    1489 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_894681
 protein coding gene ChrX:12937221-13039567 (+)
129S1/SvImJ ENSMUSG00200032218
 protein coding gene ChrX:7703997-7783397 (+)
A/J ENSMUSG00195039011
 protein coding gene ChrX:7676291-7755691 (+)
AKR/J ENSMUSG00220028728
 protein coding gene ChrX:7213006-7292392 (+)
BALB/cJ ENSMUSG00180028350
 protein coding gene ChrX:7675733-7755134 (+)
C3H/HeJ ENSMUSG00175030998
 protein coding gene ChrX:7700901-7780301 (+)
C57BL/6NJ ENSMUSG00215040427
 protein coding gene ChrX:8338893-8418139 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0032940
 protein coding gene ChrX:6927238-7035465 (+)
CAST/EiJ ENSTCUG00005029690
 protein coding gene ChrX:7673678-7755349 (+)
CBA/J ENSMUSG00210038215
 protein coding gene ChrX:7750179-7829580 (+)
DBA/2J ENSMUSG00185035783
 protein coding gene ChrX:14339423-14418821 (+)
FVB/NJ ENSMUSG00205031027
 protein coding gene ChrX:7412035-7491467 (+)
JF1/MsJ ENSUMUG00000031868
 protein coding gene ChrX:28197740-28277438 (+)
LP/J ENSMUSG00230031889
 protein coding gene ChrX:18900042-19009123 (+)
NOD/ShiLtJ ENSMUSG00190032270
 protein coding gene ChrX:7699364-7778764 (+)
NZO/HlLtJ ENSMUSG00225033305
 protein coding gene ChrX:24129862-24209261 (+)
PWK/PhJ ENSLUMG00010029640
 protein coding gene ChrX:7585827-7665504 (+)
SPRET/EiJ ENSMSPG00010023022
 protein coding gene ChrX:8531885-8634344 (+)
WSB/EiJ ENSIUOG00005016125
 protein coding gene ChrX:4384255-4463870 (+)



Homology
more
  • Human Ortholog
    USP9X, ubiquitin specific peptidase 9 X-linked
  • Vertebrate Orthologs
    2
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    USP9X, ubiquitin specific peptidase 9 X-linked
  • Synonyms
    DFFRX, FAF, FAF-X, FAM, hFAM, MRX99, MRXS99F, XLID99
  • Links
    NCBI Gene ID: 8239
    UniProt: Q93008

  • Chr Location
    Xp11.4; chrX:41085431-41236579 (+)  GRCh38
Human Diseases
more
  • Diseases
    2 with human USP9X associations

Human Disease Mouse Models
      
IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    1 with disease annotations
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    18 phenotypes from 3 alleles in 3 genetic backgrounds
    5 phenotypes from multigenic genotypes
    13 images
    34 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
In a conditional model of pancreatic ductal carcinoma, hemizygous males and heterozygous females with a conditional allele exhibit accelerated tumorigenesis.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    90
  • GO References
    20
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    823
  • Tissues
    134
  • cDNA Data
    281
  • Literature Summary
    15
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000031010 Ensembl Gene Model | MGI Sequence Detail 101831 C57BL/6J ±  kb
    transcript ENSMUST00000089302 Ensembl | MGI Sequence Detail 11887 Not Applicable  
    polypeptide ENSMUSP00000086716 Ensembl | MGI Sequence Detail 2554 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      9 Sequences
    • Protein Ontology
      PR:000029846 ubiquitin carboxyl-terminal hydrolase 9X
      (term hierarchy)
    • EC
      3.4.19.12
    • InterPro Domains
      IPR016024 Armadillo-type fold
      IPR038765 Papain-like cysteine peptidase superfamily
      IPR001394 Peptidase C19, ubiquitin carboxyl-terminal hydrolase
      IPR050164 Ubiquitin carboxyl-terminal hydrolases
      IPR021905 Ubiquitin C-terminal hydrolase-like, DUF3517
      IPR018200 Ubiquitin specific protease, conserved site
      IPR028889 Ubiquitin specific protease USP, catalytic domain
      IPR055176 UBP24/USP9X/USP9Y, ubiquitin-like domain
      IPR056850 UBP34/UBP24/USP9X/USP9Y-like, ARM repeat region
    • GlyGen
      P70398 6 sites, 2 N-linked glycans (2 sites), 1 O-linked glycan (3 sites)
    Molecular
    Reagents
    less
    • All nucleic 285
      cDNA 283
      Primer pair 2
      Antibodies 3

      Microarray probesets 8
    Other
    Accession IDs
    less
    MGI:1353594, MGI:1924266, MGI:2147163, MGI:2147940, MGI:2147941
    References
    more
    • Summaries
      All 106
      Developmental Gene Expression 15
      Diseases 1
      Gene Ontology 20
      Phenotypes 34
    • Earliest
      J:39118 Crozet F, et al., Cloning of the genes encoding two murine and human cochlear unconventional type I myosins. Genomics. 1997 Mar 1;40(2):332-41
    • Latest
      J:362391 Lei Y, et al., Deubiquitinase USP9X controls Wnt signaling for CNS vascular formation and barrier maintenance. Dev Cell. 2025 Jan 31;
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/08/2026
    MGI 6.24     		The Jackson Laboratory