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Aliases for RPRD2 Gene

Aliases for RPRD2 Gene

  • Regulation Of Nuclear Pre-MRNA Domain Containing 2 2 3 5
  • KIAA0460 2 3 4
  • Regulation Of Nuclear Pre-MRNA Domain-Containing Protein 2 3
  • HSPC099 3

External Ids for RPRD2 Gene

Previous HGNC Symbols for RPRD2 Gene

  • KIAA0460

Previous GeneCards Identifiers for RPRD2 Gene

  • GC01P148604
  • GC01P121715

Summaries for RPRD2 Gene

GeneCards Summary for RPRD2 Gene

RPRD2 (Regulation Of Nuclear Pre-MRNA Domain Containing 2) is a Protein Coding gene. Among its related pathways are Formation of HIV-1 elongation complex containing HIV-1 Tat and Gene Expression. An important paralog of this gene is RPRD1A.

Gene Wiki entry for RPRD2 Gene

Additional gene information for RPRD2 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPRD2 Gene

Genomics for RPRD2 Gene

GeneHancer (GH) Regulatory Elements for RPRD2 Gene

Promoters and enhancers for RPRD2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J150362 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 660.4 +1.7 1716 5.2 CLOCK FEZF1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC ZC3H11A RPRD2 SETDB1 PRPF3 SF3B4 PI4KB ZNF687 UBE2D3P3 PIP5K1A ARNT HIST2H2AB
GH01J150626 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 47.5 +266.3 266280 4.9 HDGF PKNOX1 CLOCK SMAD1 FOXA2 ARNT ARID4B NEUROD1 SIN3A DMAP1 ENSA GC01P150630 SETDB1 PIP5K1A PRPF3 ARNT UBE2D3P3 PI4KB SF3B4 HORMAD1
GH01J149883 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 42 -476.4 -476388 5.9 CLOCK MLX ZFP64 FEZF1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 HIST2H2AB BOLA1 GC01M149896 HIST2H2AC HIST2H2BE HIST2H2BF PRPF3 SF3B4 UBE2D3P3 ARNT
GH01J150232 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 39.2 -128.0 -127955 4.8 CLOCK MLX DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 RNU2-17P GC01P150237 ANP32E SETDB1 PRPF3 PIP5K1A GABPB2 SF3B4 ARNT UBE2D3P3
GH01J151068 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 42.1 +707.4 707395 3.3 CLOCK FEZF1 IRF4 YY1 ZNF213 E2F8 ZNF416 ZNF143 ZNF548 SP3 GABPB2 CDC42SE1 SETDB1 PRPF3 PI4KB PIP5K1A MRPL9 UBE2D3P3 ARNT ZNF687
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RPRD2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RPRD2 gene promoter:
  • SRF (504 AA)
  • SRF
  • YY1
  • c-Rel
  • E2F-1
  • E2F
  • HOXA9
  • HOXA9B
  • Meis-1
  • Meis-1b

Genomic Locations for RPRD2 Gene

Genomic Locations for RPRD2 Gene
113,476 bases
Plus strand
113,476 bases
Plus strand

Genomic View for RPRD2 Gene

Genes around RPRD2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPRD2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPRD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPRD2 Gene

Proteins for RPRD2 Gene

  • Protein details for RPRD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Regulation of nuclear pre-mRNA domain-containing protein 2
    Protein Accession:
    Secondary Accessions:
    • A8K6N8
    • B3KPT1
    • B4E2Q6
    • O75048
    • Q5VT51
    • Q5VT53
    • Q6MZL4
    • Q86XD2
    • Q9P0D7

    Protein attributes for RPRD2 Gene

    1461 amino acids
    Molecular mass:
    156020 Da
    Quaternary structure:
    • Associates with the RNA polymerase II complex.
    • Sequence=AAF28922.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAH45623.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RPRD2 Gene

    Alternative splice isoforms for RPRD2 Gene


neXtProt entry for RPRD2 Gene

Post-translational modifications for RPRD2 Gene

  • Ubiquitination at isoforms=2, 3, 5293
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPRD2 Gene

Domains & Families for RPRD2 Gene

Gene Families for RPRD2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RPRD2 Gene

Suggested Antigen Peptide Sequences for RPRD2 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RPRD2: view

No data available for UniProtKB/Swiss-Prot for RPRD2 Gene

Function for RPRD2 Gene

Phenotypes From GWAS Catalog for RPRD2 Gene

genes like me logo Genes that share phenotypes with RPRD2: view

Animal Model Products

miRNA for RPRD2 Gene

miRTarBase miRNAs that target RPRD2

Clone Products

  • Addgene plasmids for RPRD2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPRD2 Gene

Localization for RPRD2 Gene

Subcellular locations from

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 RPRD2 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RPRD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0016591 DNA-directed RNA polymerase II, holoenzyme IDA 22231121
genes like me logo Genes that share ontologies with RPRD2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RPRD2 Gene

Pathways & Interactions for RPRD2 Gene

genes like me logo Genes that share pathways with RPRD2: view

Pathways by source for RPRD2 Gene

2 Reactome pathways for RPRD2 Gene

Gene Ontology (GO) - Biological Process for RPRD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0042795 snRNA transcription by RNA polymerase II TAS --
genes like me logo Genes that share ontologies with RPRD2: view

No data available for SIGNOR curated interactions for RPRD2 Gene

Drugs & Compounds for RPRD2 Gene

No Compound Related Data Available

Transcripts for RPRD2 Gene

Unigene Clusters for RPRD2 Gene

Regulation of nuclear pre-mRNA domain containing 2:
Representative Sequences:

Clone Products

  • Addgene plasmids for RPRD2

Alternative Splicing Database (ASD) splice patterns (SP) for RPRD2 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18
SP1: - - - - - - - -
SP2: - - - - - -
SP3: - - - - - - -
SP4: - - - -
SP5: - - -
SP6: - - - - -
SP7: -

Relevant External Links for RPRD2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RPRD2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RPRD2 Gene

Protein differential expression in normal tissues from HIPED for RPRD2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.4), Testis (8.4), and Serum (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RPRD2 Gene

Protein tissue co-expression partners for RPRD2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPRD2 Gene:


SOURCE GeneReport for Unigene cluster for RPRD2 Gene:


Evidence on tissue expression from TISSUES for RPRD2 Gene

  • Nervous system(4.8)
  • Blood(4.3)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with RPRD2: view

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 RPRD2 Gene

Orthologs for RPRD2 Gene

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

Orthologs for RPRD2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia RPRD2 34
  • 100 (a)
(Canis familiaris)
Mammalia RPRD2 34 33
  • 94.43 (n)
(Bos Taurus)
Mammalia RPRD2 34 33
  • 93.18 (n)
(Mus musculus)
Mammalia Rprd2 16 34 33
  • 90.24 (n)
(Monodelphis domestica)
Mammalia RPRD2 34
  • 86 (a)
(Ornithorhynchus anatinus)
Mammalia RPRD2 34
  • 64 (a)
(Gallus gallus)
Aves -- 34
  • 85 (a)
-- 34
  • 73 (a)
RPRD2 34 33
  • 71.69 (n)
(Anolis carolinensis)
Reptilia RPRD2 34
  • 68 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia rprd2 33
  • 61.78 (n)
Str.19358 33
(Danio rerio)
Actinopterygii rprd2b 34
  • 39 (a)
rprd2a 34
  • 37 (a)
wufk52b12 33
fruit fly
(Drosophila melanogaster)
Insecta CG15160 34
  • 27 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RTT103 34
  • 21 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 43 (a)
Species where no ortholog for RPRD2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • rat (Rattus norvegicus)
  • 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)

Evolution for RPRD2 Gene

Gene Tree for RPRD2 (if available)
Gene Tree for RPRD2 (if available)
Evolutionary constrained regions (ECRs) for RPRD2: view image

Paralogs for RPRD2 Gene

Paralogs for RPRD2 Gene

genes like me logo Genes that share paralogs with RPRD2: view

Variants for RPRD2 Gene

Sequence variations from dbSNP and Humsavar for RPRD2 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000046427 -- 150,453,652(+) A/T intron_variant
rs1000064607 -- 150,417,925(+) T/C intron_variant
rs1000128515 -- 150,411,175(+) A/G intron_variant
rs1000220430 -- 150,389,819(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000235766 -- 150,371,858(+) G/C genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RPRD2 Gene

Variant ID Type Subtype PubMed ID
dgv414n100 CNV gain 25217958
esv2540817 CNV deletion 19546169
esv2658303 CNV deletion 23128226
esv2670951 CNV deletion 23128226
esv2717773 CNV deletion 23290073
esv2717784 CNV deletion 23290073
esv2717795 CNV deletion 23290073
esv274946 CNV loss 21479260
esv3540611 CNV deletion 23714750
esv3578171 CNV loss 25503493
esv3587505 CNV loss 21293372
esv989789 CNV deletion 20482838
esv999047 CNV insertion 20482838
nsv1006838 CNV gain 25217958
nsv1110879 OTHER inversion 24896259
nsv1133905 CNV deletion 24896259
nsv831548 CNV loss 17160897

Variation tolerance for RPRD2 Gene

Residual Variation Intolerance Score: 5.87% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.06; 60.73% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RPRD2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPRD2 Gene

Disorders for RPRD2 Gene

Additional Disease Information for RPRD2

No disorders were found for RPRD2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPRD2 Gene

Publications for RPRD2 Gene

  1. Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B. (PMID: 22231121) Ni Z … Greenblatt JF (Transcription 2011) 2 3 4 58
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil SA … Gygi SP (Nature biotechnology 2006) 3 4 58
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for RPRD2 Gene

Sources for RPRD2 Gene

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