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    Prpf39 pre-mRNA processing factor 39 [ Mus musculus (house mouse) ]

    Gene ID: 328110, updated on 23-Jun-2021

    Summary

    Official Symbol
    Prpf39provided by MGI
    Official Full Name
    pre-mRNA processing factor 39provided by MGI
    Primary source
    MGI:MGI:104602
    See related
    Ensembl:ENSMUSG00000035597
    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
    Sr; Srcs1
    Expression
    Broad expression in CNS E18 (RPKM 13.3), CNS E11.5 (RPKM 12.7) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Prpf39 in Genome Data Viewer
    Location:
    12; 12 C1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (65083094..65110160)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (65036334..65063386)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (66137321..66164373)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene kelch-like 28 Neighboring gene TOG array regulator of axonemal microtubules 1 Neighboring gene predicted gene, 51966 Neighboring gene predicted gene, 25970 Neighboring gene FK506 binding protein 3 Neighboring gene Fanconi anemia, complementation group M Neighboring gene MIS18 binding protein 1

    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

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ11128, MGC37077

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA 5'-splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of U1 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of U2-type prespliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of commitment complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    pre-mRNA-processing factor 39
    Names
    PRP39 homolog
    PRP39 pre-mRNA processing factor 39 homolog
    v-src suppressed transcript 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_001374212.1NP_001361141.1  pre-mRNA-processing factor 39 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC159621
      Conserved Domains (2) summary
      COG5107
      Location:40419
      RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
      sd00006
      Location:334362
      TPR; TPR repeat [structural motif]
    2. NM_001374213.1NP_001361142.1  pre-mRNA-processing factor 39 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC159621
      Conserved Domains (2) summary
      COG5107
      Location:40419
      RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
      sd00006
      Location:334362
      TPR; TPR repeat [structural motif]
    3. NM_177806.3NP_808474.2  pre-mRNA-processing factor 39 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AI790078, AK168462, BC076622, BY069337
      Consensus CDS
      CCDS25939.2
      UniProtKB/TrEMBL
      E9QJV4
      Related
      ENSMUSP00000112953.2, ENSMUST00000120580.8
      Conserved Domains (2) summary
      COG5107
      Location:68538
      RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
      sd00006
      Location:453481
      TPR; TPR repeat [structural motif]

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      65083094..65110160
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006516029.4XP_006516092.1  pre-mRNA-processing factor 39 isoform X1

      Conserved Domains (1) summary
      smart00386
      Location:166198
      HAT; HAT (Half-A-TPR) repeats

    RNA

    1. XR_001780462.3 RNA Sequence

      Related
      ENSMUST00000129956.2
    2. XR_004937522.1 RNA Sequence

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