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Aliases for POP4 Gene

Aliases for POP4 Gene

  • POP4 Homolog, Ribonuclease P/MRP Subunit 2 3 5
  • EC 3.1.26.5 4 61
  • RPP29 3 4
  • HPOP4 3 4
  • Processing Of Precursor 4, Ribonuclease P/MRP Subunit (S. Cerevisiae) 2
  • Ribonuclease P Protein Subunit P29 3

External Ids for POP4 Gene

Previous GeneCards Identifiers for POP4 Gene

  • GC19P030719
  • GC19P030546
  • GC19P034773
  • GC19P034789
  • GC19P030097
  • GC19P026609

Summaries for POP4 Gene

Entrez Gene Summary for POP4 Gene

  • This gene encodes one of the protein subunits of the small nucleolar ribonucleoprotein complexes: the endoribonuclease for mitochondrial RNA processing complex and the ribonuclease P complex. The encoded protein is localized to the nucleus and associates directly with the RNA component of these complexes. This protein is involved in processing of precursor RNAs. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2009]

GeneCards Summary for POP4 Gene

POP4 (POP4 Homolog, Ribonuclease P/MRP Subunit) is a Protein Coding gene. Among its related pathways are tRNA processing and Ribosome biogenesis in eukaryotes. GO annotations related to this gene include RNA binding and ribonuclease P activity.

UniProtKB/Swiss-Prot for POP4 Gene

  • Part of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5-ends. May function with RPP38 to coordinate the nucleolar targeting and/or assembly of RNase P.

Gene Wiki entry for POP4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for POP4 Gene

Genomics for POP4 Gene

Regulatory Elements for POP4 Gene

Enhancers for POP4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F029604 0.6 ENCODE 30.5 +2.1 2092 2.2 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF143 POP4 GC19P029609
GH19F029609 0.7 ENCODE 7 +6.7 6683 1.7 WRNIP1 ZNF76 KLF17 ARID4B BMI1 ZNF48 ZNF2 RAD21 ZEB1 RFX5 C19orf12 POP4 GC19P029609 GC19M029661
GH19F029620 0.2 Ensembl 4.7 +17.1 17084 0.6 ZFHX2 REST ZIC2 EGR2 POP4 GC19P029609 GC19M029661
GH19F029830 1.5 FANTOM5 Ensembl ENCODE 1.4 +227.4 227442 1.4 KLF1 RAD51 MCM3 CCNE1 URI1 C19orf12 PLEKHF1 POP4 ENSG00000267433
GH19F029587 0.6 ENCODE 0.3 -16.4 -16362 1.1 INSM2 KLF17 ZEB1 ZNF366 ZNF391 FOS ZNF680 ZNF280D JUNB ZEB2 ZNF536 POP4 ENSG00000266248
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around POP4 on UCSC Golden Path with GeneCards custom track

Genomic Location for POP4 Gene

Chromosome:
19
Start:
29,604,017 bp from pter
End:
29,617,255 bp from pter
Size:
13,239 bases
Orientation:
Plus strand

Genomic View for POP4 Gene

Genes around POP4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
POP4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for POP4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for POP4 Gene

Proteins for POP4 Gene

  • Protein details for POP4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95707-RPP29_HUMAN
    Recommended name:
    Ribonuclease P protein subunit p29
    Protein Accession:
    O95707
    Secondary Accessions:
    • Q5XKL7
    • Q6FHW9
    • Q9UQQ3

    Protein attributes for POP4 Gene

    Size:
    220 amino acids
    Molecular mass:
    25425 Da
    Quaternary structure:
    • Component of nuclear RNase P and RNase MRP ribonucleoproteins. RNase P consists of an RNA moiety and at least 8 protein subunits; POP1, RPP14, RPP20/POP7, RPP25, RPP29/POP4, RPP30, RPP38 and RPP40. RNase MRP consists of an RNA moiety and at least 9 protein subunits; POP1, RPP14, RPP20/POP7, RPP25, RPP29/POP4, RPP30, RPP38, RPP40, POP5 and RPP21. Interacts with RPP25 and POP5.

neXtProt entry for POP4 Gene

Selected DME Specific Peptides for POP4 Gene

Post-translational modifications for POP4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for POP4 Gene

Domains & Families for POP4 Gene

Suggested Antigen Peptide Sequences for POP4 Gene

Graphical View of Domain Structure for InterPro Entry

O95707

UniProtKB/Swiss-Prot:

RPP29_HUMAN :
  • Belongs to the eukaryotic/archaeal RNase P protein component 1 family.
Family:
  • Belongs to the eukaryotic/archaeal RNase P protein component 1 family.
genes like me logo Genes that share domains with POP4: view

No data available for Gene Families for POP4 Gene

Function for POP4 Gene

Molecular function for POP4 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Endonucleolytic cleavage of RNA, removing 5-extranucleotides from tRNA precursor.
UniProtKB/Swiss-Prot Function:
Part of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5-ends. May function with RPP38 to coordinate the nucleolar targeting and/or assembly of RNase P.

Enzyme Numbers (IUBMB) for POP4 Gene

Gene Ontology (GO) - Molecular Function for POP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000171 contributes_to ribonuclease MRP activity IBA --
GO:0003723 RNA binding IEA,TAS 10352175
GO:0004526 ribonuclease P activity IEA --
GO:0004540 ribonuclease activity IEA --
GO:0005515 protein binding IPI 15096576
genes like me logo Genes that share ontologies with POP4: view
genes like me logo Genes that share phenotypes with POP4: view

Animal Models for POP4 Gene

MGI Knock Outs for POP4:
  • Pop4 tm1a(EUCOMM)Wtsi

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for POP4 Gene

Localization for POP4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for POP4 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for POP4 Gene COMPARTMENTS Subcellular localization image for POP4 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for POP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000172 ribonuclease MRP complex IEA --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005655 nucleolar ribonuclease P complex IEA --
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with POP4: view

Pathways & Interactions for POP4 Gene

genes like me logo Genes that share pathways with POP4: view

Pathways by source for POP4 Gene

Gene Ontology (GO) - Biological Process for POP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001682 tRNA 5-leader removal TAS --
GO:0006364 rRNA processing IEA --
GO:0006379 mRNA cleavage IEA --
GO:0008033 tRNA processing IEA,TAS 10352175
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic IEA --
genes like me logo Genes that share ontologies with POP4: view

No data available for SIGNOR curated interactions for POP4 Gene

Transcripts for POP4 Gene

Unigene Clusters for POP4 Gene

Processing of precursor 4, ribonuclease P/MRP subunit (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for POP4 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b · 5c · 5d ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b · 10c · 10d · 10e · 10f
SP1: - - - - - - - - -
SP2: - - - -
SP3: - - - - - - - - - - -
SP4: - - - - - - - - -
SP5: - - - -
SP6: - - - - - - -
SP7: - - - - - - - - - -
SP8: - - - - - - -
SP9: - - - - - -
SP10:
SP11: -
SP12: - - - - -

Relevant External Links for POP4 Gene

GeneLoc Exon Structure for
POP4
ECgene alternative splicing isoforms for
POP4

Expression for POP4 Gene

mRNA expression in normal human tissues for POP4 Gene

Protein differential expression in normal tissues from HIPED for POP4 Gene

This gene is overexpressed in Lavage (51.9) and Lung (8.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for POP4 Gene



NURSA nuclear receptor signaling pathways regulating expression of POP4 Gene:

POP4

SOURCE GeneReport for Unigene cluster for POP4 Gene:

Hs.412870
genes like me logo Genes that share expression patterns with POP4: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for POP4 Gene

Orthologs for POP4 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for POP4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia POP4 34 35
  • 99.55 (n)
cow
(Bos Taurus)
Mammalia POP4 34 35
  • 88.18 (n)
dog
(Canis familiaris)
Mammalia POP4 34 35
  • 87.29 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia POP4 35
  • 84 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pop4 34
  • 83.48 (n)
mouse
(Mus musculus)
Mammalia Pop4 34 16 35
  • 82.58 (n)
oppossum
(Monodelphis domestica)
Mammalia POP4 35
  • 73 (a)
OneToOne
chicken
(Gallus gallus)
Aves POP4 34 35
  • 70.61 (n)
lizard
(Anolis carolinensis)
Reptilia POP4 35
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pop4 34
  • 63.62 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.3040 34
zebrafish
(Danio rerio)
Actinopterygii pop4 34 35
  • 63.17 (n)
Dr.6289 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011713 34
  • 50.88 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG8038 34 35
  • 48.07 (n)
worm
(Caenorhabditis elegans)
Secernentea C15C6.4 35
  • 24 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes POP4 35 37
  • 20 (a)
OneToOne
Species where no ortholog for POP4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for POP4 Gene

ENSEMBL:
Gene Tree for POP4 (if available)
TreeFam:
Gene Tree for POP4 (if available)

Paralogs for POP4 Gene

No data available for Paralogs for POP4 Gene

Variants for POP4 Gene

Sequence variations from dbSNP and Humsavar for POP4 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10411749 -- 29,615,062(+) CTAGA(G/T)TGACC intron-variant
rs10413641 -- 29,616,424(+) CCGAT(C/G)AGCAA nc-transcript-variant, utr-variant-3-prime
rs10422969 -- 29,605,801(+) TTACA(A/G)ATGGG upstream-variant-2KB
rs10425030 -- 29,609,207(+) TGAAA(A/G)ATGAG intron-variant
rs10625292 -- 29,607,282(+) AAAAA(-/A/AA/AAA)GAATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for POP4 Gene

Variant ID Type Subtype PubMed ID
nsv1061604 CNV loss 25217958
nsv833799 CNV gain 17160897

Variation tolerance for POP4 Gene

Residual Variation Intolerance Score: 86.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.26; 40.54% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for POP4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
POP4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for POP4 Gene

Disorders for POP4 Gene

Relevant External Links for POP4

Genetic Association Database (GAD)
POP4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
POP4

No disorders were found for POP4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for POP4 Gene

Publications for POP4 Gene

  1. Rpp14 and Rpp29, two protein subunits of human ribonuclease P. (PMID: 10024167) Jarrous N. … Altman S. (RNA 1999) 2 3 4 22 64
  2. hPop4: a new protein subunit of the human RNase MRP and RNase P ribonucleoprotein complexes. (PMID: 10352175) van Eenennaam H. … van Venrooij W.J. (Nucleic Acids Res. 1999) 2 3 4 22 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Mutual interactions between subunits of the human RNase MRP ribonucleoprotein complex. (PMID: 15096576) Welting T.J. … Pruijn G.J. (Nucleic Acids Res. 2004) 3 4 64
  5. Inhibition of the expression of the human RNase P protein subunits Rpp21, Rpp25, Rpp29 by external guide sequences (EGSs) and siRNA. (PMID: 15351636) Zhang H. … Altman S. (J. Mol. Biol. 2004) 3 22 64

Products for POP4 Gene

Sources for POP4 Gene

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