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

    Gene ID: 8899, updated on 2-Nov-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
    mouse all
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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_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (4021300..4064983)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (3890936..3934285)
    RS_2024_09 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 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. 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
    2. 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
    3. Curcumin induces apoptosis in human colorectal carcinoma (HCT-15) cells by regulating expression of Prp4 and p53. Shehzad A, et al. Mol Cells, 2013 Jun. PMID 23686430, Free PMC Article
    4. 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
    5. Estrogen receptor alpha (ESR1)-signaling regulates the expression of the taxane-response biomarker PRP4K. Lahsaee S, et al. Exp Cell Res, 2016 Jan 1. PMID 26712520

    See all (133) 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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    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 histone H2AS1 kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 positive regulation of hippo signaling IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of protein export from nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein phosphorylation IEA
    Inferred from Electronic Annotation
    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
    		  
    is_active_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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_2024_08

    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

    Gene LinkOut

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

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