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Aliases for RPRD1B Gene

Aliases for RPRD1B Gene

  • Regulation Of Nuclear Pre-MRNA Domain Containing 1B 2 3 5
  • Cell-Cycle Related And Expression-Elevated Protein In Tumor 2 3
  • Cell Cycle-Related And Expression-Elevated Protein In Tumor 3 4
  • C20orf77 3 4
  • CREPT 3 4
  • Chromosome 20 Open Reading Frame 77 2
  • DJ1057B20.2 3
  • NET60 3

External Ids for RPRD1B Gene

Previous HGNC Symbols for RPRD1B Gene

  • C20orf77

Previous GeneCards Identifiers for RPRD1B Gene

  • GC20P036096
  • GC20P036662
  • GC20P033397

Summaries for RPRD1B Gene

GeneCards Summary for RPRD1B Gene

RPRD1B (Regulation Of Nuclear Pre-MRNA Domain Containing 1B) is a Protein Coding gene. Diseases associated with RPRD1B include retroperitoneal leiomyosarcoma and retroperitoneal sarcoma. Among its related pathways are Gene Expression and RNA Polymerase II Transcription Initiation And Promoter Clearance. GO annotations related to this gene include RNA polymerase II core binding. An important paralog of this gene is RPRD2.

UniProtKB/Swiss-Prot for RPRD1B Gene

  • Interacts with phosphorylated C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and participates in dephosphorylation of the CTD. Transcriptional regulator which enhances expression of CCND1. Promotes binding of RNA polymerase II to the CCDN1 promoter and to the termination region before the poly-A site but decreases its binding after the poly-A site. Prevents RNA polymerase II from reading through the 3 end termination site and may allow it to be recruited back to the promoter through promotion of the formation of a chromatin loop. Also enhances the transcription of a number of other cell cycle-related genes including CDK2, CDK4, CDK6 and cyclin-E but not CDKN1A, CDKN1B or cyclin-A. Promotes cell proliferation.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPRD1B Gene

Genomics for RPRD1B Gene

Regulatory Elements for RPRD1B Gene

Enhancers for RPRD1B Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around RPRD1B on UCSC Golden Path with GeneCards custom track

Promoters for RPRD1B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around RPRD1B on UCSC Golden Path with GeneCards custom track

Genomic Location for RPRD1B Gene

Chromosome:
20
Start:
38,033,487 bp from pter
End:
38,127,780 bp from pter
Size:
94,294 bases
Orientation:
Plus strand

Genomic View for RPRD1B Gene

Genes around RPRD1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPRD1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPRD1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPRD1B Gene

Proteins for RPRD1B Gene

  • Protein details for RPRD1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NQG5-RPR1B_HUMAN
    Recommended name:
    Regulation of nuclear pre-mRNA domain-containing protein 1B
    Protein Accession:
    Q9NQG5
    Secondary Accessions:
    • Q1WDE7
    • Q6PKF4

    Protein attributes for RPRD1B Gene

    Size:
    326 amino acids
    Molecular mass:
    36900 Da
    Quaternary structure:
    • Associates with the RNA polymerase II complex.
    SequenceCaution:
    • Sequence=AAH01696.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RPRD1B Gene

neXtProt entry for RPRD1B Gene

Proteomics data for RPRD1B Gene at MOPED

Post-translational modifications for RPRD1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RPRD1B Gene

No data available for DME Specific Peptides for RPRD1B Gene

Domains & Families for RPRD1B Gene

Protein Domains for RPRD1B Gene

Suggested Antigen Peptide Sequences for RPRD1B Gene

Graphical View of Domain Structure for InterPro Entry

Q9NQG5

UniProtKB/Swiss-Prot:

RPR1B_HUMAN :
  • Contains 1 CID domain.
  • Belongs to the UPF0400 (RTT103) family.
Domain:
  • Contains 1 CID domain.
Family:
  • Belongs to the UPF0400 (RTT103) family.
genes like me logo Genes that share domains with RPRD1B: view

No data available for Gene Families for RPRD1B Gene

Function for RPRD1B Gene

Molecular function for RPRD1B Gene

UniProtKB/Swiss-Prot Function:
Interacts with phosphorylated C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and participates in dephosphorylation of the CTD. Transcriptional regulator which enhances expression of CCND1. Promotes binding of RNA polymerase II to the CCDN1 promoter and to the termination region before the poly-A site but decreases its binding after the poly-A site. Prevents RNA polymerase II from reading through the 3 end termination site and may allow it to be recruited back to the promoter through promotion of the formation of a chromatin loop. Also enhances the transcription of a number of other cell cycle-related genes including CDK2, CDK4, CDK6 and cyclin-E but not CDKN1A, CDKN1B or cyclin-A. Promotes cell proliferation.
genes like me logo Genes that share phenotypes with RPRD1B: view

Animal Models for RPRD1B Gene

MGI Knock Outs for RPRD1B:

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RPRD1B Gene

Localization for RPRD1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPRD1B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RPRD1B Gene COMPARTMENTS Subcellular localization image for RPRD1B gene
Compartment Confidence
cytoskeleton 5
nucleus 5
cytosol 1
endoplasmic reticulum 1
mitochondrion 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for RPRD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 22264791
GO:0016591 DNA-directed RNA polymerase II, holoenzyme IDA 22231121
genes like me logo Genes that share ontologies with RPRD1B: view

Pathways & Interactions for RPRD1B Gene

genes like me logo Genes that share pathways with RPRD1B: view

Pathways by source for RPRD1B Gene

2 Reactome pathways for RPRD1B Gene

Gene Ontology (GO) - Biological Process for RPRD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0070940 dephosphorylation of RNA polymerase II C-terminal domain IMP 22231121
genes like me logo Genes that share ontologies with RPRD1B: view

No data available for SIGNOR curated interactions for RPRD1B Gene

Drugs & Compounds for RPRD1B Gene

No Compound Related Data Available

Transcripts for RPRD1B Gene

Unigene Clusters for RPRD1B Gene

Regulation of nuclear pre-mRNA domain containing 1B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RPRD1B Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c
SP1: - - - - -
SP2: - - - -
SP3: - -
SP4: - -
SP5: -
SP6:
SP7:

Relevant External Links for RPRD1B Gene

GeneLoc Exon Structure for
RPRD1B
ECgene alternative splicing isoforms for
RPRD1B

Expression for RPRD1B Gene

mRNA expression in normal human tissues for RPRD1B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RPRD1B Gene

This gene is overexpressed in Liver (x6.1).

Protein differential expression in normal tissues from HIPED for RPRD1B Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.7) and Lymph node (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for RPRD1B Gene



SOURCE GeneReport for Unigene cluster for RPRD1B Gene Hs.278839

mRNA Expression by UniProt/SwissProt for RPRD1B Gene

Q9NQG5-RPR1B_HUMAN
Tissue specificity: Preferentially expressed in a range of tumor tissues including colon, lung, liver, breast, prostate, stomach, uterine endometrium and cervical cancers with higher levels in tumors than in adjacent non-tumor tissue (at protein level).
genes like me logo Genes that share expression patterns with RPRD1B: view

Protein tissue co-expression partners for RPRD1B Gene

- Elite partner

Primer Products

In Situ Assay Products

Orthologs for RPRD1B Gene

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

Orthologs for RPRD1B Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RPRD1B 35
  • 93.66 (n)
  • 100 (a)
RPRD1B 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RPRD1B 35
  • 94.89 (n)
  • 100 (a)
RPRD1B 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rprd1b 35
  • 92.41 (n)
  • 99.69 (a)
Rprd1b 16
Rprd1b 36
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia RPRD1B 35
  • 99.9 (n)
  • 100 (a)
RPRD1B 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rprd1b 35
  • 93.46 (n)
  • 99.39 (a)
oppossum
(Monodelphis domestica)
Mammalia RPRD1B 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 42 (a)
OneToMany
-- 36
  • 42 (a)
OneToMany
chicken
(Gallus gallus)
Aves RPRD1B 35
  • 83.69 (n)
  • 96.62 (a)
CREPT 36
  • 80 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RPRD1B 36
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rprd1a 35
  • 74.36 (n)
  • 86.15 (a)
Str.4805 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.29308 35
zebrafish
(Danio rerio)
Actinopterygii rprd1b 35
  • 71.37 (n)
  • 81.29 (a)
wufb23h08 35
rprd1b 36
  • 79 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005331 35
  • 53.21 (n)
  • 49.69 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG9018 35
  • 52.92 (n)
  • 49.85 (a)
CG9018 36
  • 43 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cids-1 36
  • 23 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RTT103 36
  • 15 (a)
OneToMany
RTT103 38
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4640 36
  • 54 (a)
OneToMany
Species with no ortholog for RPRD1B:
  • 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 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 RPRD1B Gene

ENSEMBL:
Gene Tree for RPRD1B (if available)
TreeFam:
Gene Tree for RPRD1B (if available)

Paralogs for RPRD1B Gene

Paralogs for RPRD1B Gene

(1) SIMAP similar genes for RPRD1B Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for RPRD1B Gene

genes like me logo Genes that share paralogs with RPRD1B: view

Variants for RPRD1B Gene

Sequence variations from dbSNP and Humsavar for RPRD1B Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type
rs990792 -- 38,043,068(+) GACAC(G/T)GGGGG intron-variant
rs990793 -- 38,043,380(+) atgca(C/G)cagtc intron-variant
rs1106772 -- 38,074,839(+) TCATT(A/C)CCCAG intron-variant
rs751230 -- 38,075,666(-) TCAGA(A/G)ATTAA intron-variant
rs1962746 -- 38,035,985(+) ggtct(C/T)gatct intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RPRD1B Gene

Variant ID Type Subtype PubMed ID
nsv833971 CNV Gain 17160897
nsv833972 CNV Loss 17160897
esv2670839 CNV Deletion 23128226

Variation tolerance for RPRD1B Gene

Residual Variation Intolerance Score: 24.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.89; 18.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPRD1B Gene

HapMap Linkage Disequilibrium report
RPRD1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPRD1B Gene

Disorders for RPRD1B Gene

MalaCards: The human disease database

(2) MalaCards diseases for RPRD1B Gene - From: DISEASES and GeneCards

- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for RPRD1B

Genetic Association Database (GAD)
RPRD1B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPRD1B
genes like me logo Genes that share disorders with RPRD1B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPRD1B Gene

Publications for RPRD1B 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 67
  2. ABCE1 is a highly conserved RNA silencing suppressor. (PMID: 25659154) KAorblane K. … Sarmiento C. (PLoS ONE 2015) 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3

Products for RPRD1B Gene

Sources for RPRD1B Gene

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