Free for academic non-profit institutions. Other users need a Commercial license

Aliases for POP4 Gene

Aliases for POP4 Gene

  • POP4 Homolog, Ribonuclease P/MRP Subunit 2 3 5
  • EC 3.1.26.5 4 56
  • 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 Gene Expression and tRNA processing. Gene Ontology (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

Additional gene information for POP4 Gene

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

Genomics for POP4 Gene

GeneHancer (GH) Regulatory Elements for POP4 Gene

Promoters and enhancers for POP4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19I029604 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 580.5 +2.1 2092 2.2 FEZF1 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 ZNF610 GLIS1 NBN POP4 GC19P029609
GH19I029660 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 18.8 +65.3 65327 17.2 HDGF FOXA2 PKNOX1 SMAD1 ARNT SIN3A FEZF1 ZNF2 YY1 ZNF766 PLEKHF1 RPL9P32 ENSG00000266910 URI1 POP4 ZNF536 C19orf12 LOC105372352 LOC105372353 GC19M029661
GH19I029711 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.5 +110.3 110255 6.1 SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF207 ZNF143 FOS C19orf12 ENSG00000266910 URI1 RPL9P32 POP4 GC19M029684 GC19P029609
GH19I029941 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE 10 +339.5 339502 4.3 SMAD1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 POLR2B ZNF213 ZNF143 URI1 RPL9P32 POP4 GC19M029957 GC19P029925 GC19P029609
GH19I029211 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 10.4 -391.4 -391355 2.7 ARID4B SIN3A ZNF2 YY1 ZNF213 ZNF207 KLF13 SP3 ZHX2 MXD4 UQCRFS1 LOC105372352 GC19M029213 PIR40426 ENSG00000266910 RPL9P32 POP4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around POP4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the POP4 gene promoter:

Genomic Locations for POP4 Gene

Genomic Locations for POP4 Gene
chr19:29,604,017-29,617,255
(GRCh38/hg38)
Size:
13,239 bases
Orientation:
Plus strand
chr19:30,094,924-30,108,162
(GRCh37/hg19)

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

O95707:
  • QRAEAFVRAFLK
  • FISYIYGSKFQLR
  • TGILLQETKH
  • LKVIPKLNCVFT
  • SERSAKKFKAKG

Post-translational modifications for POP4 Gene

No Post-translational modifications

Other Protein References for POP4 Gene

Domains & Families for POP4 Gene

Gene Families for POP4 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

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

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

Phenotypes From GWAS Catalog 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 contributes_to ribonuclease P activity IDA,TAS 16723659
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

CRISPR Products

Inhibitory RNA 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
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
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,IBA --
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

No data available for Subcellular locations from the Human Protein Atlas (HPA) for POP4 Gene

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 IBA,IEA --
GO:0006379 mRNA cleavage IEA --
GO:0008033 tRNA processing TAS,IEA 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

Drugs & Compounds for POP4 Gene

No Compound Related Data Available

Transcripts for POP4 Gene

Unigene Clusters for POP4 Gene

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

CRISPR Products

Inhibitory RNA 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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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

Evidence on tissue expression from TISSUES for POP4 Gene

  • Nervous system(4.7)
  • Lung(4.5)
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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 99.55 (n)
cow
(Bos Taurus)
Mammalia POP4 33 34
  • 88.18 (n)
dog
(Canis familiaris)
Mammalia POP4 33 34
  • 87.29 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia POP4 34
  • 84 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pop4 33
  • 83.48 (n)
mouse
(Mus musculus)
Mammalia Pop4 33 16 34
  • 82.58 (n)
oppossum
(Monodelphis domestica)
Mammalia POP4 34
  • 73 (a)
OneToOne
chicken
(Gallus gallus)
Aves POP4 33 34
  • 70.61 (n)
lizard
(Anolis carolinensis)
Reptilia POP4 34
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pop4 33
  • 63.62 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.3040 33
zebrafish
(Danio rerio)
Actinopterygii pop4 33 34
  • 63.17 (n)
Dr.6289 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011713 33
  • 50.88 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG8038 33 34
  • 48.07 (n)
worm
(Caenorhabditis elegans)
Secernentea C15C6.4 34
  • 24 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes POP4 34 36
  • 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 Variation AA Info Type
rs1000012428 -- 29,613,266(+) C/G/T intron_variant
rs1000661202 -- 29,617,326(+) C/A downstream_transcript_variant
rs1000879744 -- 29,606,903(+) G/A intron_variant
rs1000928579 -- 29,617,140(+) T/C 3_prime_UTR_variant, non_coding_transcript_variant
rs1001480607 -- 29,609,535(+) T/A/C 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)

Additional Variant Information 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

Additional Disease Information for 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 (New York, N.Y.) 1999) 2 3 4 22 58
  2. hPop4: a new protein subunit of the human RNase MRP and RNase P ribonucleoprotein complexes. (PMID: 10352175) van Eenennaam H … van Venrooij WJ (Nucleic acids research 1999) 2 3 4 22 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Mutual interactions between subunits of the human RNase MRP ribonucleoprotein complex. (PMID: 15096576) Welting TJ … Pruijn GJ (Nucleic acids research 2004) 3 4 58
  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 (Journal of molecular biology 2004) 3 22 58

Products for POP4 Gene

Sources for POP4 Gene

Content
Loading form....