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Aliases for RPUSD3 Gene

Aliases for RPUSD3 Gene

  • RNA Pseudouridylate Synthase Domain Containing 3 2 3 5

External Ids for RPUSD3 Gene

Previous GeneCards Identifiers for RPUSD3 Gene

  • GC03M009855
  • GC03M009856
  • GC03M009817
  • GC03M009879

Summaries for RPUSD3 Gene

GeneCards Summary for RPUSD3 Gene

RPUSD3 (RNA Pseudouridylate Synthase Domain Containing 3) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and pseudouridine synthase activity. An important paralog of this gene is RPUSD4.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPUSD3 Gene

Genomics for RPUSD3 Gene

Regulatory Elements for RPUSD3 Gene

Enhancers for RPUSD3 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
GH03G009843 1.1 ENCODE 34.9 +0.7 679 1.6 HDGF PKNOX1 ARNT CREB3L1 AGO1 ARID4B SIN3A DMAP1 ZNF2 YY1 RPUSD3 RAD18 GHRLOS FANCD2 LINC00852 TADA3 GC03M009840 PIR36573
GH03G009896 1.6 Ensembl ENCODE dbSUPER 11.2 -55.6 -55606 8.2 HDGF HNRNPUL1 PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A YBX1 DMAP1 RAD18 THUMPD3-AS1 IL17RC CYCSP10 JAGN1 ENSG00000269982 CRELD1 PRRT3-AS1 RPUSD3 PRRT3
GH03G009975 1.6 Ensembl ENCODE dbSUPER 10.9 -133.6 -133612 4.8 HDGF PKNOX1 FOXA2 CREB3L1 ARNT ARID4B SIN3A ZNF2 YY1 ZNF766 FANCD2 BRK1 PRRT3 CIDECP IL17RE RPUSD3 VHL JAGN1 LINC00852 ARPC4
GH03G009870 1.2 ENCODE dbSUPER 12.2 -26.6 -26564 1.1 ATF1 PKNOX1 ARNT FEZF1 YY1 ZNF121 GATA2 FOS MAFF SMARCA4 JAGN1 IL17RE RPUSD3 IL17RC RNU6-882P TTLL3 FANCD2 TADA3 ARPC4-TTLL3 ARPC4
GH03G010247 1.4 ENCODE dbSUPER 9.7 -404.6 -404625 3.0 HDGF PKNOX1 FOXA2 CREB3L1 ARNT WRNIP1 ARID4B SIN3A DMAP1 ZNF2 GHRLOS GHRL IRAK2 FANCD2OS VHL SEC13 IL17RE JAGN1 TADA3 ARPC4-TTLL3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RPUSD3 on UCSC Golden Path with GeneCards custom track

Promoters for RPUSD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000148318 902 1401 HDGF PKNOX1 ARNT CREB3L1 AGO1 ARID4B SIN3A DMAP1 ZNF2 YY1

Genomic Location for RPUSD3 Gene

Chromosome:
3
Start:
9,837,849 bp from pter
End:
9,844,602 bp from pter
Size:
6,754 bases
Orientation:
Minus strand

Genomic View for RPUSD3 Gene

Genes around RPUSD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPUSD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPUSD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPUSD3 Gene

Proteins for RPUSD3 Gene

  • Protein details for RPUSD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6P087-RUSD3_HUMAN
    Recommended name:
    RNA pseudouridylate synthase domain-containing protein 3
    Protein Accession:
    Q6P087
    Secondary Accessions:
    • B4DS39
    • Q6P6A9
    • Q8N1B2
    • Q8NAV3

    Protein attributes for RPUSD3 Gene

    Size:
    351 amino acids
    Molecular mass:
    38461 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH62362.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAH65741.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for RPUSD3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RPUSD3 Gene

Post-translational modifications for RPUSD3 Gene

  • Ubiquitination at isoforms=2, 368
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPUSD3 Gene

Domains & Families for RPUSD3 Gene

Gene Families for RPUSD3 Gene

Protein Domains for RPUSD3 Gene

Graphical View of Domain Structure for InterPro Entry

Q6P087

UniProtKB/Swiss-Prot:

RUSD3_HUMAN :
  • Belongs to the pseudouridine synthase RluA family.
Family:
  • Belongs to the pseudouridine synthase RluA family.
genes like me logo Genes that share domains with RPUSD3: view

Function for RPUSD3 Gene

Gene Ontology (GO) - Molecular Function for RPUSD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA,IEA 22658674
GO:0005515 protein binding IPI 25416956
GO:0009982 pseudouridine synthase activity IEA --
genes like me logo Genes that share ontologies with RPUSD3: view

Phenotypes for RPUSD3 Gene

genes like me logo Genes that share phenotypes with RPUSD3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for RPUSD3

CRISPR Products

miRNA for RPUSD3 Gene

miRTarBase miRNAs that target RPUSD3

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPUSD3 Gene

Localization for RPUSD3 Gene

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 RPUSD3 gene
Compartment Confidence
nucleus 3
cytosol 2
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RPUSD3 Gene

Pathways & Interactions for RPUSD3 Gene

SuperPathways for RPUSD3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RPUSD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001522 pseudouridine synthesis IEA --
GO:0009451 RNA modification IEA --
genes like me logo Genes that share ontologies with RPUSD3: view

No data available for Pathways by source and SIGNOR curated interactions for RPUSD3 Gene

Drugs & Compounds for RPUSD3 Gene

(1) Additional Compounds for RPUSD3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pseudouridine
  • 5-(b-D-Ribofuranosyl)uracil
  • 5-(b-delta-Ribofuranosyl)uracil
  • 5-b-D-Ribofuranosyl-Uracil
  • 5-beta-delta-Ribofuranosyl-Uracil
  • 5-Ribosyluracil
1445-07-4
genes like me logo Genes that share compounds with RPUSD3: view

Transcripts for RPUSD3 Gene

Unigene Clusters for RPUSD3 Gene

RNA pseudouridylate synthase domain containing 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPUSD3 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d · 2e · 2f · 2g ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9 ^ 10a · 10b · 10c ^ 11a ·
SP1: - - - - - - - - -
SP2: - - - - - - - - - -
SP3: - - - - - - - - - -
SP4: - - - - - - -
SP5: - - - - - - - -
SP6: - - - - - - -
SP7: - - - - - - - -
SP8: - - - - - - - - - - - - - -
SP9: - - -
SP10: - - - - - - - - -
SP11: - -
SP12: - - -
SP13: - - -
SP14: -
SP15: - -
SP16: -

ExUns: 11b · 11c · 11d ^ 12a · 12b · 12c
SP1: - -
SP2: - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8: - - -
SP9:
SP10:
SP11:
SP12: - - -
SP13:
SP14:
SP15:
SP16:

Relevant External Links for RPUSD3 Gene

GeneLoc Exon Structure for
RPUSD3
ECgene alternative splicing isoforms for
RPUSD3

Expression for RPUSD3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RPUSD3 Gene

Protein differential expression in normal tissues from HIPED for RPUSD3 Gene

This gene is overexpressed in Lung (52.2) and Breast (14.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RPUSD3 Gene



Protein tissue co-expression partners for RPUSD3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPUSD3 Gene:

RPUSD3

SOURCE GeneReport for Unigene cluster for RPUSD3 Gene:

Hs.33719

Evidence on tissue expression from TISSUES for RPUSD3 Gene

  • Nervous system(4.6)
  • Bone marrow(4.2)
  • Eye(4.1)
genes like me logo Genes that share expression patterns with RPUSD3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPUSD3 Gene

Orthologs for RPUSD3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RPUSD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPUSD3 34 35
  • 92.77 (n)
dog
(Canis familiaris)
Mammalia RPUSD3 34 35
  • 85.75 (n)
cow
(Bos Taurus)
Mammalia RPUSD3 34 35
  • 84.06 (n)
mouse
(Mus musculus)
Mammalia Rpusd3 34 16 35
  • 78.04 (n)
rat
(Rattus norvegicus)
Mammalia Rpusd3 34
  • 77.32 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RPUSD3 35
  • 51 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RPUSD3 35
  • 48 (a)
OneToOne
chicken
(Gallus gallus)
Aves RPUSD3 34
  • 57.4 (n)
lizard
(Anolis carolinensis)
Reptilia RPUSD3 35
  • 46 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpusd3 34
  • 53.26 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.3147 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3295 35
  • 17 (a)
OneToMany
Species where no ortholog for RPUSD3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for RPUSD3 Gene

ENSEMBL:
Gene Tree for RPUSD3 (if available)
TreeFam:
Gene Tree for RPUSD3 (if available)

Paralogs for RPUSD3 Gene

Paralogs for RPUSD3 Gene

genes like me logo Genes that share paralogs with RPUSD3: view

Variants for RPUSD3 Gene

Sequence variations from dbSNP and Humsavar for RPUSD3 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs142932960 Likely pathogenic 9,839,148(+) CATGT(A/G)CACCT intron-variant, reference, missense
rs767103943 Likely pathogenic 9,840,238(+) CACAC(A/G)AAAGT reference, missense
rs1000941594 -- 9,841,108(+) CTCTA(C/G)AAAAA intron-variant
rs1001033478 -- 9,839,984(+) CAAGC(A/G/T)ATTCT intron-variant
rs1001089270 -- 9,845,384(+) CCGCC(C/T)GCCTT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RPUSD3 Gene

Variant ID Type Subtype PubMed ID
nsv1010768 CNV gain 25217958
nsv834615 CNV loss 17160897

Variation tolerance for RPUSD3 Gene

Residual Variation Intolerance Score: 92.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.40; 42.48% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPUSD3 Gene

Human Gene Mutation Database (HGMD)
RPUSD3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPUSD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPUSD3 Gene

Disorders for RPUSD3 Gene

Relevant External Links for RPUSD3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPUSD3

No disorders were found for RPUSD3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPUSD3 Gene

Publications for RPUSD3 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64
  3. A pseudouridine synthase module is essential for mitochondrial protein synthesis and cell viability. (PMID: 27974379) Antonicka H. … Shoubridge E.A. (EMBO Rep. 2017) 3 64
  4. A Genome-wide CRISPR Death Screen Identifies Genes Essential for Oxidative Phosphorylation. (PMID: 27667664) Arroyo J.D. … Mootha V.K. (Cell Metab. 2016) 3 64
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp J.J. … Guthrie C. (Nat. Struct. Mol. Biol. 2015) 3 64

Products for RPUSD3 Gene

Sources for RPUSD3 Gene

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