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Prpf39 Gene Detail
Summary
  • Symbol
    Prpf39
  • Name
    pre-mRNA processing factor 39
  • Synonyms
    MGC:37077, Srcs1
  • Feature Type
    protein coding gene
  • IDs
    MGI:104602
    NCBI Gene: 328110
  • Alliance
    genome feature page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr12:65083107-65110160 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 12, 27.21 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    688 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_104602
 protein coding gene Chr12:65083094-65110160 (+)
129S1/SvImJ ENSMUSG00200003611
 protein coding gene Chr12:57037350-57064403 (+)
A/J ENSMUSG00195001632
 protein coding gene Chr12:59666026-59693078 (+)
AKR/J ENSMUSG00220015435
 protein coding gene Chr12:57762027-57789081 (+)
BALB/cJ ENSMUSG00180007262
 protein coding gene Chr12:58680425-58707477 (+)
C3H/HeJ ENSMUSG00175025315
 protein coding gene Chr12:61761523-61788575 (+)
C57BL/6NJ ENSMUSG00215008488
 protein coding gene Chr12:58020078-58047131 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0017789
 protein coding gene Chr12:59950196-59977756 (+)
CAST/EiJ ENSTCUG00005012164
 protein coding gene Chr12:58054643-58081873 (+)
CBA/J ENSMUSG00210014045
 protein coding gene Chr12:58226817-58253869 (+)
DBA/2J ENSMUSG00185000966
 protein coding gene Chr12:60130417-60157470 (+)
FVB/NJ ENSMUSG00205005564
 protein coding gene Chr12:57924120-57951183 (+)
JF1/MsJ ENSUMUG00000015133
 protein coding gene Chr12:64137224-64164353 (+)
LP/J ENSMUSG00230010735
 protein coding gene Chr12:67136445-67163535 (+)
NOD/ShiLtJ ENSMUSG00190006645
 protein coding gene Chr12:57234078-57261168 (+)
NZO/HlLtJ ENSMUSG00225029452
 protein coding gene Chr12:69203617-69230707 (+)
PWK/PhJ ENSLUMG00010002421
 protein coding gene Chr12:58201568-58228699 (+)
SPRET/EiJ ENSMSPG00010010673
 protein coding gene Chr12:59800792-59827820 (+)
WSB/EiJ ENSIUOG00005000960
 protein coding gene Chr12:57925717-57952769 (+)



Homology
more
  • Human Ortholog
    PRPF39, pre-mRNA processing factor 39
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PRPF39, pre-mRNA processing factor 39
  • Links
    NCBI Gene ID: 55015
    UniProt: Q86UA1

  • Chr Location
    14q21.2; chr14:45084107-45116282 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    9 phenotypes from 1 allele in 1 genetic background
    11 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.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    8
  • GO References
    3
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
    597
  • cDNA Data
    16
  • Literature Summary
    1
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000035597 Ensembl Gene Model | MGI Sequence Detail 27054 C57BL/6J ±  kb
    transcript ENSMUST00000120580 Ensembl | MGI Sequence Detail 4069 Not Applicable  
    polypeptide ENSMUSP00000112953 Ensembl | MGI Sequence Detail 665 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      6 Sequences
    • Protein Ontology
      PR:000013282 pre-mRNA-processing factor 39
      (term hierarchy)
    • PDB
      6G70
    • InterPro Domains
      IPR003107 HAT (Half-A-TPR) repeat
      IPR059164 PRP39, C-terminal HAT repeat
      IPR011990 Tetratricopeptide-like helical domain superfamily
    • GlyGen
      Q8K2Z2 3 sites, 2 N-linked glycans (2 sites), 1 O-linked glycan (1 site)
    Molecular
    Reagents
    less
    • All nucleic 18
      cDNA 18

      Microarray probesets 6
    Other
    Accession IDs
    less
    MGD-MRK-26038
    References
    more
    • Summaries
      All 38
      Developmental Gene Expression 1
      Gene Ontology 3
      Phenotypes 11
    • Earliest
      J:22534 Frankfort BJ, et al., Identification of novel cellular genes transcriptionally suppressed by v-src. Biochem Biophys Res Commun. 1995 Jan 26;206(3):916-26
    • 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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    Send questions and comments to User Support.     		last database update
    09/08/2026
    MGI 6.24     		The Jackson Laboratory