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Aliases for PRPF4 Gene

Aliases for PRPF4 Gene

  • Pre-MRNA Processing Factor 4 2 3
  • HPRP4 3 4 6
  • PRP4 3 4 6
  • U4/U6 Small Nuclear Ribonucleoprotein Prp4 2 3
  • PRP4/STK/WD Splicing Factor 2 3
  • U4/U6 SnRNP 60 KDa Protein 3 4
  • WD Splicing Factor Prp4 3 4
  • PRP4 Homolog 3 4
  • PRP4 Pre-MRNA Processing Factor 4 Homolog (Yeast) 2
  • PRP4 Pre-MRNA Processing Factor 4 Homolog 3
  • SNRNP60 3
  • HPRP4P 3
  • Prp4p 3
  • RP70 3

External Ids for PRPF4 Gene

Previous GeneCards Identifiers for PRPF4 Gene

  • GC09P106836
  • GC09P107770
  • GC09P109491
  • GC09P111414
  • GC09P113117
  • GC09P115077
  • GC09P116037
  • GC09P085645

Summaries for PRPF4 Gene

Entrez Gene Summary for PRPF4 Gene

  • The protein encoded by this gene is part of a heteromeric complex that binds U4, U5, and U6 small nuclear RNAs and is involved in pre-mRNA splicing. The encoded protein also is a mitotic checkpoint protein and a regulator of chemoresistance in human ovarian cancer. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]

GeneCards Summary for PRPF4 Gene

PRPF4 (Pre-MRNA Processing Factor 4) is a Protein Coding gene. Diseases associated with PRPF4 include retinitis pigmentosa 70 and retinitis pigmentosa. Among its related pathways are Gene Expression and Spliceosome. An important paralog of this gene is SPAG16.

UniProtKB/Swiss-Prot for PRPF4 Gene

  • Participates in pre-mRNA splicing. Part of the U4/U5/U6 tri-snRNP complex, one of the building blocks of the spliceosome

Gene Wiki entry for PRPF4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRPF4 Gene

Genomics for PRPF4 Gene

Regulatory Elements for PRPF4 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for PRPF4 Gene

Start:
113,275,343 bp from pter
End:
113,293,799 bp from pter
Size:
18,457 bases
Orientation:
Plus strand

Genomic View for PRPF4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PRPF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRPF4 Gene

Proteins for PRPF4 Gene

  • Protein details for PRPF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43172-PRP4_HUMAN
    Recommended name:
    U4/U6 small nuclear ribonucleoprotein Prp4
    Protein Accession:
    O43172
    Secondary Accessions:
    • O43445
    • O43864
    • Q5T1M8
    • Q96DG2
    • Q96IK4

    Protein attributes for PRPF4 Gene

    Size:
    522 amino acids
    Molecular mass:
    58449 Da
    Quaternary structure:
    • Interacts directly with PRPF18, PPIH and PRPF3. Part of a heteromeric complex containing PPIH, PRPF3 and PRPF4 that is stable in the absence of RNA. Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39.

    Three dimensional structures from OCA and Proteopedia for PRPF4 Gene

    Alternative splice isoforms for PRPF4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRPF4 Gene

Proteomics data for PRPF4 Gene at MOPED

Post-translational modifications for PRPF4 Gene

  • Ubiquitination at Lys159
  • Modification sites at PhosphoSitePlus

Other Protein References for PRPF4 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for PRPF4 Gene

Domains for PRPF4 Gene

Gene Families for PRPF4 Gene

HGNC:
  • WDR :WD repeat domain containing

Suggested Antigen Peptide Sequences for PRPF4 Gene

Graphical View of Domain Structure for InterPro Entry

O43172

UniProtKB/Swiss-Prot:

PRP4_HUMAN :
  • O43172
Similarity:
  • Contains 7 WD repeats.
genes like me logo Genes that share domains with PRPF4: view

Function for PRPF4 Gene

Molecular function for PRPF4 Gene

UniProtKB/Swiss-Prot Function: Participates in pre-mRNA splicing. Part of the U4/U5/U6 tri-snRNP complex, one of the building blocks of the spliceosome

Gene Ontology (GO) - Molecular Function for PRPF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 19615732
GO:0017070 U6 snRNA binding IBA --
GO:0030621 U4 snRNA binding IBA --
genes like me logo Genes that share ontologies with PRPF4: view
genes like me logo Genes that share phenotypes with PRPF4: view

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PRPF4

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for PRPF4 Gene

Localization for PRPF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRPF4 Gene

Nucleus speckle. Note=Colocalizes with spliceosomal snRNPs. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PRPF4 Gene COMPARTMENTS Subcellular localization image for PRPF4 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for PRPF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 9328476
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex NAS 9328476
GO:0015030 Cajal body IDA 15257298
GO:0016607 nuclear speck IEA --
genes like me logo Genes that share ontologies with PRPF4: view

Pathways for PRPF4 Gene

genes like me logo Genes that share pathways with PRPF4: view

Pathways by source for PRPF4 Gene

1 KEGG pathway for PRPF4 Gene

Gene Ontology (GO) - Biological Process for PRPF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000375 RNA splicing, via transesterification reactions NAS 9328476
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006396 RNA processing TAS 9328476
GO:0008380 RNA splicing TAS --
GO:0010467 gene expression TAS --
genes like me logo Genes that share ontologies with PRPF4: view

Compounds for PRPF4 Gene

(2) HMDB Compounds for PRPF4 Gene

Compound Synonyms Cas Number PubMed IDs
Adenosine triphosphate
  • 5'-(tetrahydrogen triphosphate) Adenosine
56-65-5
ADP
  • adenosindiphosphorsaeure
58-64-0
genes like me logo Genes that share compounds with PRPF4: view

Transcripts for PRPF4 Gene

Unigene Clusters for PRPF4 Gene

PRP4 pre-mRNA processing factor 4 homolog (yeast):
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PRPF4

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRPF4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14a · 14b · 14c
SP1: - -
SP2: - -
SP3: -
SP4:
SP5:
SP6:

Relevant External Links for PRPF4 Gene

GeneLoc Exon Structure for
PRPF4
ECgene alternative splicing isoforms for
PRPF4

Expression for PRPF4 Gene

mRNA expression in normal human tissues for PRPF4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for PRPF4 Gene

SOURCE GeneReport for Unigene cluster for PRPF4 Gene Hs.744014

genes like me logo Genes that share expressions with PRPF4: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for PRPF4 Gene

Orthologs for PRPF4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PRPF4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRPF4 35
  • 99.55 (n)
  • 100 (a)
PRPF4 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PRPF4 35
  • 92.19 (n)
  • 98.66 (a)
PRPF4 36
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PRPF4 35
  • 92.9 (n)
  • 99.42 (a)
PRPF4 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Prpf4 35
  • 90.91 (n)
  • 99.04 (a)
Prpf4 16
Prpf4 36
  • 99 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 95 (a)
OneToMany
-- 36
  • 92 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia PRPF4 36
  • 94 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prpf4 35
  • 91.36 (n)
  • 98.85 (a)
chicken
(Gallus gallus)
Aves PRPF4 35
  • 78.49 (n)
  • 89.34 (a)
PRPF4 36
  • 86 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PRPF4 36
  • 90 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.6885 35
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC75813 35
prpf4 35
  • 72.82 (n)
  • 84.13 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10096 35
zebrafish
(Danio rerio)
Actinopterygii LOC100334455 35
  • 70.76 (n)
  • 80 (a)
mgab03a02 35
prpf4 36
  • 80 (a)
OneToMany
prpf4 36
  • 80 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002144 35
  • 56.92 (n)
  • 56.85 (a)
fruit fly
(Drosophila melanogaster)
Insecta U4-U6-60K 35
  • 56 (n)
  • 55.4 (a)
U4-U6-60K 36
  • 50 (a)
OneToOne
CG6322 37
  • 56 (a)
worm
(Caenorhabditis elegans)
Secernentea prp-4 35
  • 49.37 (n)
  • 45.45 (a)
prp-4 36
  • 44 (a)
OneToOne
C36B1.5 37
  • 45 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL269C 35
  • 45.84 (n)
  • 34.1 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PRP4 35
  • 47.12 (n)
  • 35.75 (a)
PRP4 36
  • 34 (a)
OneToMany
PRP4 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E04819g 35
  • 45.2 (n)
  • 35.61 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons LIS 35
  • 50.5 (n)
  • 41.98 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU11251 35
  • 46.85 (n)
  • 40.77 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC227.12 35
  • 47.53 (n)
  • 39.35 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14002 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 57 (a)
OneToOne
Species with no ortholog for PRPF4:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PRPF4 Gene

ENSEMBL:
Gene Tree for PRPF4 (if available)
TreeFam:
Gene Tree for PRPF4 (if available)

Paralogs for PRPF4 Gene

Paralogs for PRPF4 Gene

Selected SIMAP similar genes for PRPF4 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with PRPF4: view

Variants for PRPF4 Gene

Sequence variations from dbSNP and Humsavar for PRPF4 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs1044110 -- 113,292,335(+) TCAGG(A/T)CTACA utr-variant-3-prime
rs1138958 -- 113,278,969(+) AGAGC(A/G)TATCA reference, missense
rs2418248 -- 113,289,926(+) TATTA(A/C)AATAG intron-variant
rs2418249 -- 113,291,760(+) TCTGC(C/T)AATTA utr-variant-3-prime
rs3183794 -- 113,292,691(+) CAAAC(A/T)TGACG utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for PRPF4 Gene

Variant ID Type Subtype PubMed ID
nsv893744 CNV Gain 21882294

Relevant External Links for PRPF4 Gene

HapMap Linkage Disequilibrium report
PRPF4
Human Gene Mutation Database (HGMD)
PRPF4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PRPF4 Gene

Disorders for PRPF4 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (2) Diseases for PRPF4 Gene including...

Search for PRPF4 Gene in MalaCards »

UniProtKB/Swiss-Prot

PRP4_HUMAN
  • Retinitis pigmentosa 70 (RP70) [MIM:615922]: A retinal dystrophy belonging to the group of pigmentary retinopathies. Retinitis pigmentosa is characterized by retinal pigment deposits visible on fundus examination and primary loss of rod photoreceptor cells followed by secondary loss of cone photoreceptors. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. {ECO:0000269 PubMed:24419317}. Note=The disease is caused by mutations affecting the gene represented in this entry.
genes like me logo Genes that share disorders with PRPF4: view

Publications for PRPF4 Gene

  1. A new cyclophilin and the human homologues of yeast Prp3 and Prp4 form a complex associated with U4/U6 snRNPs. (PMID: 9404889) Horowitz D.S. … Krainer A.R. (RNA 1997) 2 3 4 23
  2. The human U4/U6 snRNP contains 60 and 90kD proteins that are structurally homologous to the yeast splicing factors Prp4p and Prp3p. (PMID: 9257651) Lauber J. … Luehrmann R. (RNA 1997) 2 3 4
  3. Identification and characterization of human genes encoding Hprp3p and Hprp4p, interacting components of the spliceosome. (PMID: 9328476) Wang A. … Hu J. (Hum. Mol. Genet. 1997) 3 4 23
  4. A human protein required for the second step of pre-mRNA splicing is functionally related to a yeast splicing factor. (PMID: 9000057) Horowitz D.S. … Krainer A.R. (Genes Dev. 1997) 3 4
  5. PRPF4 Mutations Cause Autosomal Dominant Retinitis Pigmentosa. (PMID: 24419317) Chen X. … Zhao C. (Hum. Mol. Genet. 2014) 3 4

Products for PRPF4 Gene

Sources for PRPF4 Gene

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