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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 Gene Expression and Formation of HIV elongation complex in the absence of HIV Tat. An important paralog of this gene is RPRD1A.

Gene Wiki entry for RPRD2 Gene

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

Genomics for RPRD2 Gene

Regulatory Elements for RPRD2 Gene

Enhancers for RPRD2 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
GH01F150213 1.7 FANTOM5 Ensembl ENCODE 6.4 -149.3 -149286 1.6 ATF1 PKNOX1 YY1 ELK1 ZNF207 NFYC ZHX2 TBX21 ZNF518A ZNF592 ANP32E RNU2-17P CIART CA14 C1orf54 APH1A PLEKHO1 MTMR11 TARS2 RPRD2
GH01F150512 0.8 ENCODE 10.6 +150.4 150399 1.7 HDGF CTCF BCOR KLF1 JUN TSC22D4 KLF17 RAD21 FOSL1 POLR2A MRPS21 ADAMTSL4 LOC100289061 ADAMTSL4-AS1 RPRD2 CA14 GOLPH3L TARS2 ENSG00000261168 GC01P150516
GH01F150156 1.5 FANTOM5 ENCODE 5.3 -201.2 -201159 10.3 HDGF PKNOX1 ARNT WRNIP1 SIN3A ARID4B YBX1 ZNF143 FOS SP3 PLEKHO1 SV2A MTMR11 CA14 MCL1 PRPF3 MRPS21 ANP32E RPRD2 TNFAIP8L2
GH01F150507 1 ENCODE 7.2 +145.4 145379 2.3 SIN3A ARID4B GLIS2 FOS ZNF263 SP5 JUNB PPARG NFIL3 SMARCA4 MRPS21 ADAMTSL4 VPS72 LOC100289061 ADAMTSL4-AS1 LYSMD1 GABPB2 CA14 VPS45 ECM1
GH01F150534 1.3 Ensembl ENCODE 5.5 +173.5 173519 5.2 HDGF ATF1 PKNOX1 ARNT SIN3A FEZF1 GLIS2 ZNF766 GATA2 FOS ADAMTSL4 SEMA6C HORMAD1 TARS2 CTSS RPRD2 C1orf56 MRPS21 GC01P150544 LOC105371436
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RPRD2 on UCSC Golden Path with GeneCards custom track

Genomic Location for RPRD2 Gene

Chromosome:
1
Start:
150,363,091 bp from pter
End:
150,476,566 bp from pter
Size:
113,476 bases
Orientation:
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:
    Q5VT52-RPRD2_HUMAN
    Recommended name:
    Regulation of nuclear pre-mRNA domain-containing protein 2
    Protein Accession:
    Q5VT52
    Secondary Accessions:
    • A8K6N8
    • B3KPT1
    • B4E2Q6
    • O75048
    • Q5VT51
    • Q5VT53
    • Q6MZL4
    • Q86XD2
    • Q9P0D7

    Protein attributes for RPRD2 Gene

    Size:
    1461 amino acids
    Molecular mass:
    156020 Da
    Quaternary structure:
    • Associates with the RNA polymerase II complex.
    SequenceCaution:
    • 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

    UniProtKB/Swiss-Prot:

neXtProt entry for RPRD2 Gene

Post-translational modifications for RPRD2 Gene

  • Ubiquitination at Lys 293
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPRD2 Gene

Domains & Families for RPRD2 Gene

Protein Domains for RPRD2 Gene

Suggested Antigen Peptide Sequences for RPRD2 Gene

Graphical View of Domain Structure for InterPro Entry

Q5VT52

UniProtKB/Swiss-Prot:

RPRD2_HUMAN :
  • Contains 1 CID domain.
Domain:
  • Contains 1 CID domain.
genes like me logo Genes that share domains with RPRD2: view

No data available for Gene Families for RPRD2 Gene

Function 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

Inhibitory RNA Products

Flow Cytometry Products

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

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 RPRD2 gene
Compartment Confidence
nucleus 5
cytosol 2

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 from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with RPRD2: view

No data available for SIGNOR curated interactions for RPRD2 Gene

Transcripts for RPRD2 Gene

Unigene Clusters for RPRD2 Gene

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

Inhibitory RNA Products

Flow Cytometry Products

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
RPRD2
ECgene alternative splicing isoforms for
RPRD2

Expression for RPRD2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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, PaxDb, 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:

RPRD2

SOURCE GeneReport for Unigene cluster for RPRD2 Gene:

Hs.213666
genes like me logo Genes that share expression patterns with RPRD2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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
chimpanzee
(Pan troglodytes)
Mammalia RPRD2 35
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RPRD2 34 35
  • 94.43 (n)
cow
(Bos Taurus)
Mammalia RPRD2 34 35
  • 93.18 (n)
mouse
(Mus musculus)
Mammalia Rprd2 34 16 35
  • 90.24 (n)
oppossum
(Monodelphis domestica)
Mammalia RPRD2 35
  • 86 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPRD2 35
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 35
  • 85 (a)
OneToMany
-- 35
  • 73 (a)
OneToMany
RPRD2 34 35
  • 71.69 (n)
lizard
(Anolis carolinensis)
Reptilia RPRD2 35
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rprd2 34
  • 61.78 (n)
Str.19358 34
zebrafish
(Danio rerio)
Actinopterygii rprd2b 35
  • 39 (a)
OneToMany
rprd2a 35
  • 37 (a)
OneToMany
wufk52b12 34
fruit fly
(Drosophila melanogaster)
Insecta CG15160 35
  • 27 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RTT103 35
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 43 (a)
OneToOne
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

ENSEMBL:
Gene Tree for RPRD2 (if available)
TreeFam:
Gene Tree for RPRD2 (if available)

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 Sequence Context AA Info Type
rs1011546 -- 150,443,499(+) TATCT(A/G)TTATC intron-variant
rs1043293 -- 150,476,290(+) GGCAG(C/G)ATATT utr-variant-3-prime
rs1046698 -- 150,473,074(+) ATTCT(C/T)TGGAA reference, synonymous-codon, utr-variant-3-prime
rs10524632 -- 150,395,400(+) TGTGT(-/GTGTGTGTGTGTGTGT)ATACA intron-variant
rs10684353 -- 150,409,666(+) TTTTT(-/TT)GAGTC intron-variant

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

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

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)

Relevant External Links for RPRD2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPRD2

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

Disorders for RPRD2 Gene

Relevant External Links for RPRD2

Genetic Association Database (GAD)
RPRD2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 J.F. (Transcription 2011) 2 3 4 64
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64
  3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4 64
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for RPRD2 Gene

Sources for RPRD2 Gene

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