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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

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