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Upf3a Gene Detail
Summary
  • Symbol
    Upf3a
  • Name
    UPF3 regulator of nonsense transcripts homolog A (yeast)
  • Synonyms
    2600001C03Rik, 4930546M19Rik, RENT3A, UPF3
  • Feature Type
    protein coding gene
  • IDs
    MGI:1914281
    NCBI Gene: 67031
  • Alliance
    genome feature page
  • Transcription Start Sites
    2 TSS
Location &
Maps
more
  • Sequence Map
    Chr8:13835615-13849193 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 8, 6.38 cM, cytoband A2
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    568 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1914281
 protein coding gene Chr8:13834636-13849193 (+)
129S1/SvImJ ENSMUSG00200030749
 protein coding gene Chr8:10729001-10742579 (+)
A/J ENSMUSG00195038432
 protein coding gene Chr8:11078843-11092422 (+)
AKR/J ENSMUSG00220029113
 protein coding gene Chr8:10797749-10811303 (+)
BALB/cJ ENSMUSG00180021262
 protein coding gene Chr8:10707613-10721164 (+)
C3H/HeJ ENSMUSG00175035503
 protein coding gene Chr8:10877763-10891342 (+)
C57BL/6NJ ENSMUSG00215017769
 protein coding gene Chr8:10752112-10765690 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0030848
 protein coding gene Chr8:10238548-10251710 (+)
CAST/EiJ ENSTCUG00005018405
 protein coding gene Chr8:10722898-10736632 (+)
CBA/J ENSMUSG00210036119
 protein coding gene Chr8:10711585-10725163 (+)
DBA/2J ENSMUSG00185006208
 protein coding gene Chr8:10844327-10857905 (+)
FVB/NJ ENSMUSG00205030367
 protein coding gene Chr8:10737070-10750648 (+)
JF1/MsJ ENSUMUG00000023863
 protein coding gene Chr8:10855601-10869381 (+)
LP/J ENSMUSG00230023361
 protein coding gene Chr8:13013796-13028116 (+)
NOD/ShiLtJ ENSMUSG00190036687
 protein coding gene Chr8:10836416-10849994 (+)
NZO/HlLtJ ENSMUSG00225042161
 protein coding gene Chr8:20888955-20902533 (+)
PWK/PhJ ENSLUMG00010029919
 protein coding gene Chr8:10775959-10789623 (+)
SPRET/EiJ ENSMSPG00010012224
 protein coding gene Chr8:10891858-10912309 (+)
WSB/EiJ ENSIUOG00005018777
 protein coding gene Chr8:10731583-10745171 (+)



Homology
more
  • Human Ortholog
    UPF3A, UPF3A regulator of nonsense mediated mRNA decay
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    UPF3A, UPF3A regulator of nonsense mediated mRNA decay
  • Synonyms
    HUPF3A, RENT3A, UPF3
  • Links
    NCBI Gene ID: 65110
    UniProt: Q9H1J1

  • Chr Location
    13q34; chr13:114281568-114305817 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    16 phenotypes from 3 alleles in 4 genetic backgrounds
    3 phenotypes from multigenic genotypes
    8 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.
The gene product protects against mRNA transcript degradation. Homozygous constitutive KO is embryonic lethal. Homozygous conditional KO in testes leads to reduced male fertility.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    19
  • GO References
    8
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
    628
  • Tissues
    14
  • cDNA Data
    41
  • Literature Summary
    3
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000038398 Ensembl Gene Model | MGI Sequence Detail 13579 C57BL/6J ±  kb
    transcript ENSMUST00000043767 Ensembl | MGI Sequence Detail 2057 Not Applicable  
    polypeptide ENSMUSP00000037354 Ensembl | MGI Sequence Detail 422 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      4 Sequences
    • InterPro Domains
      IPR039722 Nonsense-mediated mRNA decay protein 3
      IPR012677 Nucleotide-binding alpha-beta plait domain superfamily
      IPR035979 RNA-binding domain superfamily
      IPR005120 UPF3 domain
    Molecular
    Reagents
    less
    • All nucleic 48
      cDNA 45
      Primer pair 3
      Antibodies 1

      Microarray probesets 4
    Other
    Accession IDs
    less
    MGI:1922480
    References
    more
    • Summaries
      All 38
      Developmental Gene Expression 3
      Gene Ontology 8
      Phenotypes 8
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136
    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)
    Citing These Resources
    Funding Information
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    09/15/2026
    MGI 6.29     		The Jackson Laboratory