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    Prpf40a pre-mRNA processing factor 40A [ Mus musculus (house mouse) ]

    Gene ID: 56194, updated on 23-Jun-2021

    Summary

    Official Symbol
    Prpf40aprovided by MGI
    Official Full Name
    pre-mRNA processing factor 40Aprovided by MGI
    Primary source
    MGI:MGI:1860512
    See related
    Ensembl:ENSMUSG00000061136
    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
    Fnb; FBP1; FBP11; Fnbp3; FBP-11; Fnbp11; 2810012K09Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 14.3), CNS E14 (RPKM 7.9) and 26 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Prpf40a in Genome Data Viewer
    Location:
    2; 2 C1.1
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (53024714..53081450, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (53134702..53191438, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (52997509..53050221, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 46741 Neighboring gene signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 Neighboring gene formin-like 2 Neighboring gene predicted gene, 52511 Neighboring gene ADP-ribosylation factor-like 6 interacting protein 6 Neighboring gene predicted gene, 25898

    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)
    • Endonuclease-mediated (1) 

    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 RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables proline-rich region binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA cis splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of cell shape ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cytokinesis ISO
    Inferred from Sequence Orthology
    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 
    located_in nuclear matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    pre-mRNA-processing factor 40 homolog A
    Names
    PRP40 pre-mRNA processing factor 40 homolog A
    formin binding protein 11
    formin-binding protein 3

    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_001371015.1NP_001357944.1  pre-mRNA-processing factor 40 homolog A isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AL845170
      Conserved Domains (2) summary
      smart00441
      Location:759813
      FF; Contains two conserved F residues
      COG5104
      Location:161696
      PRP40; Splicing factor [RNA processing and modification]
    2. NM_001371016.1NP_001357945.1  pre-mRNA-processing factor 40 homolog A isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Conserved Domains (2) summary
      smart00441
      Location:737791
      FF; Contains two conserved F residues
      COG5104
      Location:161674
      PRP40; Splicing factor [RNA processing and modification]
    3. NM_001371017.1NP_001357946.1  pre-mRNA-processing factor 40 homolog A isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Conserved Domains (2) summary
      smart00441
      Location:717771
      FF; Contains two conserved F residues
      COG5104
      Location:119654
      PRP40; Splicing factor [RNA processing and modification]
    4. NM_001371018.1NP_001357947.1  pre-mRNA-processing factor 40 homolog A isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Consensus CDS
      CCDS89487.1
      Related
      ENSMUSP00000147599.3, ENSMUST00000210789.3
      Conserved Domains (2) summary
      smart00441
      Location:713767
      FF; Contains two conserved F residues
      COG5104
      Location:119650
      PRP40; Splicing factor [RNA processing and modification]
    5. NM_001371019.1NP_001357948.1  pre-mRNA-processing factor 40 homolog A isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Conserved Domains (2) summary
      smart00441
      Location:699753
      FF; Contains two conserved F residues
      COG5104
      Location:119636
      PRP40; Splicing factor [RNA processing and modification]
    6. NM_001371020.1NP_001357949.1  pre-mRNA-processing factor 40 homolog A isoform 7

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Conserved Domains (2) summary
      smart00441
      Location:695749
      FF; Contains two conserved F residues
      COG5104
      Location:119632
      PRP40; Splicing factor [RNA processing and modification]
    7. NM_018785.3NP_061255.2  pre-mRNA-processing factor 40 homolog A isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL845170
      Consensus CDS
      CCDS16038.1
      Related
      ENSMUSP00000075655.8, ENSMUST00000076313.14
      Conserved Domains (2) summary
      smart00441
      Location:755809
      FF; Contains two conserved F residues
      COG5104
      Location:161692
      PRP40; Splicing factor [RNA processing and modification]

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      53024714..53081450 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011239140.4XP_011237442.1  pre-mRNA-processing factor 40 homolog A isoform X2

      Conserved Domains (2) summary
      smart00441
      Location:645699
      FF; Contains two conserved F residues
      COG5104
      Location:47582
      PRP40; Splicing factor [RNA processing and modification]
    2. XM_030251893.2XP_030107753.1  pre-mRNA-processing factor 40 homolog A isoform X2

      Conserved Domains (2) summary
      smart00441
      Location:645699
      FF; Contains two conserved F residues
      COG5104
      Location:47582
      PRP40; Splicing factor [RNA processing and modification]
    3. XM_006498193.3XP_006498256.2  pre-mRNA-processing factor 40 homolog A isoform X1

      Conserved Domains (2) summary
      smart00441
      Location:803857
      FF; Contains two conserved F residues
      COG5104
      Location:223740
      PRP40; Splicing factor [RNA processing and modification]
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