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Aliases for RPF2 Gene

Aliases for RPF2 Gene

  • Ribosome Production Factor 2 Homolog 2 3 5
  • Ribosome Biogenesis Protein RPF2 Homolog 3 4
  • Brix Domain-Containing Protein 1 3 4
  • Brix Domain Containing 1 2 3
  • BXDC1 3 4
  • Ribosomal Processing Factor 2 Homolog (S. Cerevisiae) 2
  • Ribosome Production Factor 2 Homolog (S. Cerevisiae) 2
  • Ribosomal Processing Factor 2 Homolog 3
  • Homolog Of Rpf2 3
  • BA397G5.4 3

External Ids for RPF2 Gene

Previous HGNC Symbols for RPF2 Gene

  • BXDC1

Previous GeneCards Identifiers for RPF2 Gene

  • GC06P111410
  • GC06P111306
  • GC06P108874

Summaries for RPF2 Gene

GeneCards Summary for RPF2 Gene

RPF2 (Ribosome Production Factor 2 Homolog) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and rRNA binding.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPF2 Gene

Genomics for RPF2 Gene

Regulatory Elements for RPF2 Gene

Enhancers for RPF2 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
GH06F111033 1 Ensembl ENCODE 26.6 +52.1 52100 1.2 BCOR SMARCA5 ZMYM3 CEBPG ZNF589 ATF3 IKZF1 ADNP KDM1A RPF2 GC06P111026 GSTM2P1
GH06F110944 1.3 FANTOM5 Ensembl ENCODE 20.1 -37.1 -37097 1.4 HDGF HDAC1 TBP PKNOX1 ATF1 TBL1XR1 WRNIP1 BMI1 CBX5 SCRT2 RPF2 CDK19 AMD1 SLC16A10 GTF3C6 LOC442244
GH06F110703 0.9 Ensembl 19.8 -278.0 -278014 0.8 ATF1 MLX ARID4B YY1 GATA2 SP5 MXD4 PPARG KAT8 SSRP1 RPF2 CDK19 GTF3C6 ENSG00000219150 GC06P110701
GH06F110949 0.7 Ensembl ENCODE 19.4 -32.2 -32204 0.4 CTCF ZNF654 SMC3 ZNF384 ZBTB33 REST RAD21 RPF2 CDK19 AMD1 RNU6-957P GTF3C6 LOC442244
GH06F110957 0.4 ENCODE 19.3 -23.3 -23271 1.9 HDGF CREB3L1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 RPF2 ENSG00000231046 RN7SL617P METTL24 FCF1P5 SLC16A10 GTF3C6
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around RPF2 on UCSC Golden Path with GeneCards custom track

Promoters for RPF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001224423 185 2401 PKNOX1 CREB3L1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF416 ZNF143

Genomic Location for RPF2 Gene

Chromosome:
6
Start:
110,982,015 bp from pter
End:
111,028,263 bp from pter
Size:
46,249 bases
Orientation:
Plus strand

Genomic View for RPF2 Gene

Genes around RPF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPF2 Gene

Proteins for RPF2 Gene

  • Protein details for RPF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H7B2-RPF2_HUMAN
    Recommended name:
    Ribosome production factor 2 homolog
    Protein Accession:
    Q9H7B2
    Secondary Accessions:
    • Q5VXN1
    • Q8N4A1

    Protein attributes for RPF2 Gene

    Size:
    306 amino acids
    Molecular mass:
    35583 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RPF2 Gene

Post-translational modifications for RPF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RPF2 Gene

No data available for DME Specific Peptides for RPF2 Gene

Domains & Families for RPF2 Gene

Protein Domains for RPF2 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for RPF2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H7B2

UniProtKB/Swiss-Prot:

RPF2_HUMAN :
  • Contains 1 Brix domain.
  • Belongs to the RPF2 family.
Domain:
  • Contains 1 Brix domain.
Family:
  • Belongs to the RPF2 family.
genes like me logo Genes that share domains with RPF2: view

No data available for Gene Families for RPF2 Gene

Function for RPF2 Gene

Gene Ontology (GO) - Molecular Function for RPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019843 rRNA binding IBA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with RPF2: view
genes like me logo Genes that share phenotypes with RPF2: view

Animal Model Products

miRNA for RPF2 Gene

miRTarBase miRNAs that target RPF2

Inhibitory RNA 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 RPF2 Gene

Localization for RPF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPF2 Gene

Nucleus, nucleolus. Note=Associated with the nucleolus in an RNA-dependent manner.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RPF2 Gene COMPARTMENTS Subcellular localization image for RPF2 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for RPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
genes like me logo Genes that share ontologies with RPF2: view

Pathways & Interactions for RPF2 Gene

SuperPathways for RPF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000027 ribosomal large subunit assembly IBA --
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
genes like me logo Genes that share ontologies with RPF2: view

No data available for Pathways by source and SIGNOR curated interactions for RPF2 Gene

Transcripts for RPF2 Gene

Unigene Clusters for RPF2 Gene

Ribosome production factor 2 homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPF2 Gene

No ASD Table

Relevant External Links for RPF2 Gene

GeneLoc Exon Structure for
RPF2
ECgene alternative splicing isoforms for
RPF2

Expression for RPF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RPF2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPF2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (21.8) and Pancreas (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RPF2 Gene



Protein tissue co-expression partners for RPF2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPF2 Gene:

RPF2

SOURCE GeneReport for Unigene cluster for RPF2 Gene:

Hs.372265
genes like me logo Genes that share expression patterns with RPF2: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RPF2 Gene

Orthologs for RPF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPF2 34 35
  • 99.89 (n)
dog
(Canis familiaris)
Mammalia RPF2 34 35
  • 93.57 (n)
cow
(Bos Taurus)
Mammalia RPF2 34 35
  • 92.81 (n)
mouse
(Mus musculus)
Mammalia Rpf2 34 16 35
  • 88.56 (n)
oppossum
(Monodelphis domestica)
Mammalia RPF2 35
  • 88 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rpf2 34
  • 87.15 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RPF2 35
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves RPF2 34 35
  • 78.64 (n)
lizard
(Anolis carolinensis)
Reptilia RPF2 35
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpf2 34
  • 74.07 (n)
Str.551 34
African clawed frog
(Xenopus laevis)
Amphibia bxdc1-prov 34
zebrafish
(Danio rerio)
Actinopterygii rpf2 34 35
  • 65.57 (n)
-- 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.4223 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003048 34
  • 51.8 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG7993 34 35
  • 51.07 (n)
worm
(Caenorhabditis elegans)
Secernentea Y54E10A.10 34 35
  • 49.12 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPF2 34 35 37
  • 52.13 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0A07931g 34
  • 49.88 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADR215C 34
  • 48.91 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G23620 34
  • 52.66 (n)
rice
(Oryza sativa)
Liliopsida Os01g0513800 34
  • 50.34 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1078 35
  • 59 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC926.08c 34
  • 51.73 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU08595 34
  • 49.58 (n)
Species where no ortholog for RPF2 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RPF2 Gene

ENSEMBL:
Gene Tree for RPF2 (if available)
TreeFam:
Gene Tree for RPF2 (if available)

Paralogs for RPF2 Gene

Pseudogenes.org Pseudogenes for RPF2 Gene

genes like me logo Genes that share paralogs with RPF2: view

No data available for Paralogs for RPF2 Gene

Variants for RPF2 Gene

Sequence variations from dbSNP and Humsavar for RPF2 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10434874 -- 111,020,491(+) ATTTA(A/G)TGAAA intron-variant
rs10434875 -- 111,028,248(+) ATAAA(A/C)CTTAA utr-variant-3-prime
rs1044387 -- 111,025,603(+) CACTA(C/T)TGTTT utr-variant-3-prime
rs1044388 -- 111,025,605(+) CTACT(A/G)TTTCA utr-variant-3-prime
rs1044389 -- 111,025,640(+) CAAGC(A/G)TCAAT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for RPF2 Gene

Variant ID Type Subtype PubMed ID
esv2627811 CNV deletion 19546169
esv3610372 CNV loss 21293372
esv3610373 CNV loss 21293372
nsv1016001 CNV gain 25217958
nsv1020627 CNV gain 25217958
nsv1032572 CNV gain 25217958
nsv830773 CNV loss 17160897

Variation tolerance for RPF2 Gene

Residual Variation Intolerance Score: 73% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.91; 59.31% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPF2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPF2 Gene

Disorders for RPF2 Gene

Relevant External Links for RPF2

Human Genome Epidemiology (HuGE) Navigator
RPF2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPF2

No disorders were found for RPF2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPF2 Gene

Publications for RPF2 Gene

  1. Proteomic and targeted analytical identification of BXDC1 and EBNA1BP2 as dynamic scaffold proteins in the nucleolus. (PMID: 19170763) Hirano Y. … Horigome T. (Genes Cells 2009) 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Rpf2p, an evolutionarily conserved protein, interacts with ribosomal protein L11 and is essential for the processing of 27 SB Pre-rRNA to 25 S rRNA and the 60 S ribosomal subunit assembly in Saccharomyces cerevisiae. (PMID: 12048200) Morita D. … Mizuta K. (J. Biol. Chem. 2002) 2 3 64
  5. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4 64

Products for RPF2 Gene

Sources for RPF2 Gene

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