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PRP4K pre-mRNA processing factor kinase PRP4K [ Homo sapiens (human) ]

Gene ID: 8899, updated on 13-Apr-2024

Summary

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Official Symbol
PRP4Kprovided by HGNC
Official Full Name
pre-mRNA processing factor kinase PRP4Kprovided by HGNC
Primary source
HGNC:HGNC:17346
See related
Ensembl:ENSG00000112739 MIM:602338; AllianceGenome:HGNC:17346
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PR4H; PRP4; PRP4H; Prp4B; PRPF4B; dJ1013A10.1
Summary
Pre-mRNA splicing occurs in two sequential transesterification steps, and the protein encoded by this gene is thought to be involved in pre-mRNA splicing and in signal transduction. This protein belongs to a kinase family that includes serine/arginine-rich protein-specific kinases and cyclin-dependent kinases (CDKs). This protein is regarded as a CDK-like kinase (Clk) with homology to mitogen-activated protein kinases (MAPKs). [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 15.0), lymph node (RPKM 13.5) and 25 other tissues See more
Orthologs
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Genomic context

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See PRP4K in Genome Data Viewer
Location:
6p25.2
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (4021300..4064983)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (3890936..3934285)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (4021534..4065217)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 14796 Neighboring gene glutaredoxin 3 pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:3990981-3991480 Neighboring gene uncharacterized LOC124901245 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23895 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23896 Neighboring gene Sharpr-MPRA regulatory region 2502 Neighboring gene uncharacterized LOC124901553 Neighboring gene family with sequence similarity 217 member A Neighboring gene testis expressed 56, pseudogene Neighboring gene Sharpr-MPRA regulatory region 9692 Neighboring gene enoyl-CoA delta isomerase 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. PRP4 Induces Epithelial-Mesenchymal Transition and Drug Resistance in Colon Cancer Cells via Activation of p53. Islam SU, et al. Int J Mol Sci, 2022 Mar 13. PMID 35328513, Free PMC Article
  2. Haploinsufficient tumor suppressor PRP4K is negatively regulated during epithelial-to-mesenchymal transition. Clarke LE, et al. FASEB J, 2021 Nov. PMID 34674320, Free PMC Article
  3. PRP4 Kinase Domain Loss Nullifies Drug Resistance and Epithelial-Mesenchymal Transition in Human Colorectal Carcinoma Cells. Ahmed MB, et al. Mol Cells, 2020 Jul 31. PMID 32576716, Free PMC Article
  4. Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes. Koedoot E, et al. Nat Commun, 2019 Jul 5. PMID 31278301, Free PMC Article
  5. Genes associated with anhedonia: a new analysis in a large clinical trial (GENDEP). Ren H, et al. Transl Psychiatry, 2018 Aug 13. PMID 30104601, Free PMC Article

See all (120) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. PRP4 Induces Epithelial-Mesenchymal Transition and Drug Resistance in Colon Cancer Cells via Activation of p53.
    Title: PRP4 Induces Epithelial-Mesenchymal Transition and Drug Resistance in Colon Cancer Cells via Activation of p53.
  2. Haploinsufficient tumor suppressor PRP4K is negatively regulated during epithelial-to-mesenchymal transition.
    Title: Haploinsufficient tumor suppressor PRP4K is negatively regulated during epithelial-to-mesenchymal transition.
  3. PRP4 Kinase Domain Loss Nullifies Drug Resistance and Epithelial-Mesenchymal Transition in Human Colorectal Carcinoma Cells.
    Title: PRP4 Kinase Domain Loss Nullifies Drug Resistance and Epithelial-Mesenchymal Transition in Human Colorectal Carcinoma Cells.
  4. PRPF4B is essential for triple-negative breast cancer metastasis formation in vivo, making PRPF4B a candidate for further drug development.
    Title: Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes.
  5. a SNP in PRPF4B was associated with anhedonia
    Title: Genes associated with anhedonia: a new analysis in a large clinical trial (GENDEP).
  6. PRP4K inhibits proliferation and invasiveness of cultured breast cancer cells and its high expression correlates with good prognosis in breast cancer patients.
    Title: Regulation of Yki/Yap subcellular localization and Hpo signaling by a nuclear kinase PRP4K.
  7. Study identifies a novel role for PRP4K in regulating the endosomal trafficking of EGFR leading to altered anoikis sensitivity in epithelial cancer cells.
    Title: Loss of PRP4K drives anoikis resistance in part by dysregulation of epidermal growth factor receptor endosomal trafficking.
  8. Results from a study on gene expression variability markers in early-stage human embryos shows that PRPF4B is a putative expression variability marker for the 3-day, 8-cell embryo stage.
    Title: Variability of Gene Expression Identifies Transcriptional Regulators of Early Human Embryonic Development.
  9. Low PRP4K expression correlates with significantly worse overall survival in high-grade serous ovarian cancer, and its depletion increased metastasis in the mouse ID8 ovarian carcinoma model and promoted both sustained growth factor signalling in detached conditions and anoikis resistance in human cervical, breast and ovarian cancer cells.
    Title: Loss of PRP4K drives anoikis resistance in part by dysregulation of epidermal growth factor receptor endosomal trafficking.
  10. PRP4K is novel estrogen regulated kinase, and its levels can be reduced by 4-OHT in ER+ breast cancer cells altering their response to taxanes
    Title: Estrogen receptor alpha (ESR1)-signaling regulates the expression of the taxane-response biomarker PRP4K.
Submit: New GeneRIF Correction See all GeneRIFs (19)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, pre-mRNA processing factor 4 homolog B (PRPF4B), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with PRPF4B is increased by RRE PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human PRP4 pre-mRNA processing factor 4 homolog B (yeast) (PRPF4B) at amino acid residues 105-106 by the HIV-1 protease PubMed

Go to the HIV-1, Human Interaction Database

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

Clone Names

  • KIAA0536

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding HDA PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein serine kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein serine/threonine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in mRNA cis splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome IC
Inferred by Curator
more info
 PubMed 
involved_in phosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in protein phosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of mitotic cell cycle spindle assembly checkpoint IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in spliceosomal snRNP assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in spliceosomal tri-snRNP complex assembly IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in kinetochore IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
serine/threonine-protein kinase PRP4 homolog
Names
PRP4 kinase
PRP4 pre-mRNA processing factor 4 homolog B
PRP4 pre-mRNA-processing factor 4 homolog
dJ1013A10.1 (PRP4 protein kinase homolog)
pre-mRNA processing factor 4B
protein-serine/threonine kinase
NP_003904.3
XP_011513272.1

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_003913.5 → NP_003904.3  serine/threonine-protein kinase PRP4 homolog

    See identical proteins and their annotated locations for NP_003904.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the protein-coding transcript.
    Source sequence(s)
    AL033383, AL138831, AY029347, CN314758, CN314761
    Consensus CDS
    CCDS4488.1
    UniProtKB/Swiss-Prot
    A8K5C9, Q13523, Q5D0F6, Q5TAY8, Q8IVC3, Q8TDP2, Q96QT7, Q9UEE6
    UniProtKB/TrEMBL
    B4DZQ5
    Related
    ENSP00000337194.6, ENST00000337659.11
    Conserved Domains (3) summary
    PHA03307
    Location:283 → 427
    PHA03307; transcriptional regulator ICP4; Provisional
    PTZ00108
    Location:170 → 381
    PTZ00108; DNA topoisomerase 2-like protein; Provisional
    cd14135
    Location:686 → 1003
    STKc_PRP4; Catalytic domain of the Serine/Threonine Kinase, Pre-mRNA-Processing factor 4

RNA

  1. NR_146783.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL033383, AL138831

  2. NR_146784.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL033383, AL138831

  3. NR_146785.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AL033383, AL138831

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    4021300..4064983
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011514970.4 → XP_011513272.1  serine/threonine-protein kinase PRP4 homolog isoform X1

    UniProtKB/TrEMBL
    B4DZQ5
    Conserved Domains (1) summary
    cl21453
    Location:686 → 822
    PKc_like; Protein Kinases, catalytic domain

RNA

  1. XR_007059353.1 RNA Sequence

  2. XR_007059354.1 RNA Sequence

  3. XR_007059355.1 RNA Sequence

  4. XR_007059356.1 RNA Sequence

  5. XR_007059363.1 RNA Sequence

  6. XR_007059365.1 RNA Sequence

  7. XR_007059357.1 RNA Sequence

  8. XR_007059361.1 RNA Sequence

  9. XR_007059358.1 RNA Sequence

  10. XR_007059362.1 RNA Sequence

  11. XR_007059360.1 RNA Sequence

  12. XR_007059367.1 RNA Sequence

  13. XR_007059366.1 RNA Sequence

  14. XR_007059364.1 RNA Sequence

  15. XR_007059359.1 RNA Sequence

  16. XR_007059370.1 RNA Sequence

  17. XR_007059368.1 RNA Sequence

  18. XR_007059373.1 RNA Sequence

  19. XR_007059369.1 RNA Sequence

  20. XR_007059371.1 RNA Sequence

  21. XR_007059376.1 RNA Sequence

  22. XR_007059375.1 RNA Sequence

  23. XR_007059372.1 RNA Sequence

  24. XR_007059377.1 RNA Sequence

  25. XR_007059381.1 RNA Sequence

  26. XR_007059374.1 RNA Sequence

  27. XR_007059379.1 RNA Sequence

  28. XR_007059378.1 RNA Sequence

  29. XR_007059380.1 RNA Sequence

  30. XR_007059382.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    3890936..3934285
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_008487457.1 RNA Sequence

  2. XR_008487458.1 RNA Sequence

  3. XR_008487459.1 RNA Sequence

  4. XR_008487460.1 RNA Sequence

  5. XR_008487461.1 RNA Sequence

  6. XR_008487462.1 RNA Sequence

  7. XR_008487465.1 RNA Sequence

  8. XR_008487476.1 RNA Sequence

  9. XR_008487479.1 RNA Sequence

  10. XR_008487463.1 RNA Sequence

  11. XR_008487464.1 RNA Sequence

  12. XR_008487468.1 RNA Sequence

  13. XR_008487466.1 RNA Sequence

  14. XR_008487475.1 RNA Sequence

  15. XR_008487473.1 RNA Sequence

  16. XR_008487469.1 RNA Sequence

  17. XR_008487474.1 RNA Sequence

  18. XR_008487472.1 RNA Sequence

  19. XR_008487481.1 RNA Sequence

  20. XR_008487480.1 RNA Sequence

  21. XR_008487467.1 RNA Sequence

  22. XR_008487477.1 RNA Sequence

  23. XR_008487478.1 RNA Sequence

  24. XR_008487470.1 RNA Sequence

  25. XR_008487471.1 RNA Sequence

  26. XR_008487485.1 RNA Sequence

  27. XR_008487486.1 RNA Sequence

  28. XR_008487484.1 RNA Sequence

  29. XR_008487482.1 RNA Sequence

  30. XR_008487488.1 RNA Sequence

  31. XR_008487490.1 RNA Sequence

  32. XR_008487483.1 RNA Sequence

  33. XR_008487487.1 RNA Sequence

  34. XR_008487495.1 RNA Sequence

  35. XR_008487491.1 RNA Sequence

  36. XR_008487492.1 RNA Sequence

  37. XR_008487494.1 RNA Sequence

  38. XR_008487489.1 RNA Sequence

  39. XR_008487499.1 RNA Sequence

  40. XR_008487496.1 RNA Sequence

  41. XR_008487501.1 RNA Sequence

  42. XR_008487493.1 RNA Sequence

  43. XR_008487498.1 RNA Sequence

  44. XR_008487497.1 RNA Sequence

  45. XR_008487500.1 RNA Sequence

  46. XR_008487502.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_176800.2: Suppressed sequence

    Description
    NM_176800.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q13523.3 GenPept UniProtKB/Swiss-Prot:Q13523

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