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    Puf60 poly-U binding splicing factor 60 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 84401, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Puf60provided by RGD
    Official Full Name
    poly-U binding splicing factor 60provided by RGD
    Primary source
    RGD:621674
    See related
    Ensembl:ENSRNOG00000009960 AllianceGenome:RGD:621674
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Siahbp1
    Summary
    Predicted to enable identical protein binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome; mRNA splice site selection; and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in cell junction and nucleoplasm. Orthologous to human PUF60 (poly(U) binding splicing factor 60). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 267.2), Thymus (RPKM 260.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    7q34
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (109663490..109674443, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (107782799..107793759, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (117129237..117140234, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene IQ motif and ankyrin repeat containing 1 Neighboring gene scribble planar cell polarity protein Neighboring gene uncharacterized LOC102548315 Neighboring gene nuclear receptor binding protein 2 Neighboring gene epiplakin 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Interaction cloning and characterization of RoBPI, a novel protein binding to human Ro ribonucleoproteins. Bouffard P, et al. RNA, 2000 Jan. PMID 10668799, Free PMC Article
    2. Defective interplay of activators and repressors with TFIH in xeroderma pigmentosum. Liu J, et al. Cell, 2001 Feb 9. PMID 11239393
    3. A yeast four-hybrid system identifies Cdk-activating kinase as a regulator of the XPD helicase, a subunit of transcription factor IIH. Sandrock B, et al. J Biol Chem, 2001 Sep 21. PMID 11445587
    4. Physiological Tau Interactome in Brain and Its Link to Tauopathies. Sinsky J, et al. J Proteome Res, 2020 Jun 5. PMID 32357304
    5. Dynamic protein-protein interaction wiring of the human spliceosome. Hegele A, et al. Mol Cell, 2012 Feb 24. PMID 22365833

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    poly(U)-binding-splicing factor PUF60
    Names
    60 kDa poly(U)-binding-splicing factor
    FBP interacting repressor
    RNA-binding protein Siah-BP
    Ro ribonucleoprotein-binding protein 1
    poly-U binding splicing factor 60K
    pyrimidine tract binding splicing factor
    siah binding protein 1; FBP interacting repressor; pyrimidine tract binding splicing factor; Ro ribonucleoprotein-binding protein 1
    siah-binding protein 1

    NCBI Reference Sequences (RefSeq)

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    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_001191880.2 → NP_001178809.1  poly(U)-binding-splicing factor PUF60 isoform 2

      See identical proteins and their annotated locations for NP_001178809.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A8I6AQY8
      Related
      ENSRNOP00000096818.1, ENSRNOT00000109562.1
      Conserved Domains (1) summary
      TIGR01645
      Location:9 → 563
      half-pint; poly-U binding splicing factor, half-pint family

    2. NM_001399391.1 → NP_001386320.1  poly(U)-binding-splicing factor PUF60 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/Swiss-Prot
      Q9WV25
      UniProtKB/TrEMBL
      A6HS57
      Conserved Domains (1) summary
      TIGR01645
      Location:7 → 564
      half-pint; poly-U binding splicing factor, half-pint family

    3. NM_001399392.1 → NP_001386321.1  poly(U)-binding-splicing factor PUF60 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6HS56
      Conserved Domains (1) summary
      TIGR01645
      Location:7 → 547
      half-pint; poly-U binding splicing factor, half-pint family

    4. NM_001399393.1 → NP_001386322.1  poly(U)-binding-splicing factor PUF60 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      Related
      ENSRNOP00000079179.1, ENSRNOT00000096390.1
      Conserved Domains (1) summary
      TIGR01645
      Location:9 → 546
      half-pint; poly-U binding splicing factor, half-pint family

    5. NM_001399394.1 → NP_001386323.1  poly(U)-binding-splicing factor PUF60 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      Conserved Domains (1) summary
      TIGR01645
      Location:9 → 513
      half-pint; poly-U binding splicing factor, half-pint family

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      109663490..109674443 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006241897.5 → XP_006241959.2  poly(U)-binding-splicing factor PUF60 isoform X1

      UniProtKB/TrEMBL
      A0A0H2UHZ6, A0A8L2Q6G3
      Related
      ENSRNOP00000094683.1
      Conserved Domains (1) summary
      TIGR01645
      Location:9 → 530
      half-pint; poly-U binding splicing factor, half-pint family

    2. XM_063264334.1 → XP_063120404.1  poly(U)-binding-splicing factor PUF60 isoform X3

    3. XM_063264333.1 → XP_063120403.1  poly(U)-binding-splicing factor PUF60 isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y5C7
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9WV25.2 GenPept UniProtKB/Swiss-Prot:Q9WV25

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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