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Aliases for RPF1 Gene

Aliases for RPF1 Gene

  • Ribosome Production Factor 1 Homolog 2 3 5
  • Brix Domain-Containing Protein 5 3 4
  • Ribosome Biogenesis Protein RPF1 3 4
  • Brix Domain Containing 5 2 3
  • BXDC5 3 4
  • Ribosome Production Factor 1 Homolog (S. Cerevisiae) 2
  • RNA Processing Factor 1 (RPF1) 3
  • Ribosome Production Factor 1 2
  • RNA Processing Factor 1 2
  • 2310066N05Rik 3

External Ids for RPF1 Gene

Previous HGNC Symbols for RPF1 Gene

  • BXDC5

Previous GeneCards Identifiers for RPF1 Gene

  • GC01M085593
  • GC01P084082
  • GC01P084233
  • GC01P084367
  • GC01P084656
  • GC01P084717
  • GC01P084945
  • GC01P083055

Summaries for RPF1 Gene

GeneCards Summary for RPF1 Gene

RPF1 (Ribosome Production Factor 1 Homolog) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and rRNA binding.

UniProtKB/Swiss-Prot for RPF1 Gene

  • May be required for ribosome biogenesis.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPF1 Gene

Genomics for RPF1 Gene

Regulatory Elements for RPF1 Gene

Enhancers for RPF1 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 RPF1 on UCSC Golden Path with GeneCards custom track

Promoters for RPF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around RPF1 on UCSC Golden Path with GeneCards custom track

Genomic Location for RPF1 Gene

Chromosome:
1
Start:
84,479,237 bp from pter
End:
84,498,350 bp from pter
Size:
19,114 bases
Orientation:
Plus strand

Genomic View for RPF1 Gene

Genes around RPF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPF1 Gene

Proteins for RPF1 Gene

  • Protein details for RPF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H9Y2-RPF1_HUMAN
    Recommended name:
    Ribosome production factor 1
    Protein Accession:
    Q9H9Y2
    Secondary Accessions:
    • Q5VSK7
    • Q6AHX1
    • Q8WXZ8

    Protein attributes for RPF1 Gene

    Size:
    349 amino acids
    Molecular mass:
    40111 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=CAH71915.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for RPF1 Gene

Proteomics data for RPF1 Gene at MOPED

Post-translational modifications for RPF1 Gene

  • Ubiquitination at Lys 182 and Lys 237
  • Modification sites at PhosphoSitePlus

Other Protein References for RPF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for RPF1

No data available for DME Specific Peptides for RPF1 Gene

Domains & Families for RPF1 Gene

Protein Domains for RPF1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for RPF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H9Y2

UniProtKB/Swiss-Prot:

RPF1_HUMAN :
  • Contains 1 Brix domain.
Domain:
  • Contains 1 Brix domain.
genes like me logo Genes that share domains with RPF1: view

No data available for Gene Families for RPF1 Gene

Function for RPF1 Gene

Molecular function for RPF1 Gene

UniProtKB/Swiss-Prot Function:
May be required for ribosome biogenesis.

Gene Ontology (GO) - Molecular Function for RPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 11864606
genes like me logo Genes that share ontologies with RPF1: view
genes like me logo Genes that share phenotypes with RPF1: view

Animal Model Products

miRNA for RPF1 Gene

miRTarBase miRNAs that target RPF1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPF1 Gene

Localization for RPF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPF1 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RPF1 Gene COMPARTMENTS Subcellular localization image for RPF1 gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for RPF1 Gene

Pathways & Interactions for RPF1 Gene

SuperPathways for RPF1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RPF1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RPF1 Gene

Drugs & Compounds for RPF1 Gene

No Compound Related Data Available

Transcripts for RPF1 Gene

mRNA/cDNA for RPF1 Gene

Unigene Clusters for RPF1 Gene

Ribosome production factor 1 homolog (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RPF1 Gene

No ASD Table

Relevant External Links for RPF1 Gene

GeneLoc Exon Structure for
RPF1
ECgene alternative splicing isoforms for
RPF1

Expression for RPF1 Gene

mRNA expression in normal human tissues for RPF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPF1 Gene

This gene is overexpressed in Lung (53.7) and Blymphocyte (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for RPF1 Gene



SOURCE GeneReport for Unigene cluster for RPF1 Gene Hs.481202

genes like me logo Genes that share expression patterns with RPF1: view

Protein tissue co-expression partners for RPF1 Gene

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RPF1 Gene

Orthologs for RPF1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPF1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RPF1 35
  • 93.51 (n)
  • 95.42 (a)
BXDC5 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RPF1 35
  • 93.8 (n)
  • 96.85 (a)
RPF1 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rpf1 35
  • 89.11 (n)
  • 95.13 (a)
Rpf1 16
Rpf1 36
  • 95 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia RPF1 35
  • 99.62 (n)
  • 100 (a)
RPF1 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rpf1 35
  • 89.3 (n)
  • 93.98 (a)
oppossum
(Monodelphis domestica)
Mammalia RPF1 36
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPF1 36
  • 91 (a)
OneToOne
chicken
(Gallus gallus)
Aves RPF1 35
  • 78.62 (n)
  • 86.48 (a)
RPF1 36
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RPF1 36
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpf1 35
  • 76.31 (n)
  • 83.6 (a)
Str.10818 35
zebrafish
(Danio rerio)
Actinopterygii rpf1 35
  • 71.55 (n)
  • 77.71 (a)
rpf1 36
  • 70 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG6712 37
  • 50 (a)
CG6712 35
  • 51.56 (n)
  • 49.13 (a)
CG6712 36
  • 36 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009968 35
  • 51.75 (n)
  • 51.75 (a)
worm
(Caenorhabditis elegans)
Secernentea F44G4.1 37
  • 57 (a)
F44G4.1 35
  • 61.74 (n)
  • 57.98 (a)
F44G4.1 36
  • 43 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL093C 35
  • 49.82 (n)
  • 50.18 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F21670g 35
  • 53.26 (n)
  • 49.47 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPF1 35
  • 56.54 (n)
  • 52.74 (a)
RPF1 36
  • 45 (a)
OneToOne
RPF1 38
thale cress
(Arabidopsis thaliana)
eudicotyledons MEE49 35
  • 58.82 (n)
  • 52.22 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3048 35
barley
(Hordeum vulgare)
Liliopsida Hv.6401 35
rice
(Oryza sativa)
Liliopsida Os.15940 35
Os06g0137500 35
  • 55 (n)
  • 53.21 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC4F8.04 35
  • 51.42 (n)
  • 47.37 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 66 (a)
OneToOne
Species with no ortholog for RPF1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 RPF1 Gene

ENSEMBL:
Gene Tree for RPF1 (if available)
TreeFam:
Gene Tree for RPF1 (if available)

Paralogs for RPF1 Gene

(1) SIMAP similar genes for RPF1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with RPF1: view

No data available for Paralogs for RPF1 Gene

Variants for RPF1 Gene

Sequence variations from dbSNP and Humsavar for RPF1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs2292191 - 84,479,306(-) GCTGC(C/T)GCTCT reference, missense
rs7528067 - 84,495,425(+) AAAAT(A/G)AGCAG reference, missense
rs312401 -- 84,492,878(+) AGCAG(A/G)GGGCT intron-variant
rs312402 -- 84,492,199(+) GCATG(A/G)GTTCA intron-variant
rs312403 -- 84,492,143(+) GTGAC(A/G)GGGCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RPF1 Gene

Variant ID Type Subtype PubMed ID
nsv830437 CNV Gain+Loss 17160897

Variation tolerance for RPF1 Gene

Residual Variation Intolerance Score: 81.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.65; 89.17% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for RPF1 Gene

Disorders for RPF1 Gene

Relevant External Links for RPF1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPF1

No disorders were found for RPF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPF1 Gene

Publications for RPF1 Gene

  1. The sigma(70)-like motif: a eukaryotic RNA binding domain unique to a superfamily of proteins required for ribosome biogenesis. (PMID: 11864606) Wehner K.A. … Baserga S.J. (Mol. Cell 2002) 2 3 4 67
  2. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 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 RPF1 Gene

Sources for RPF1 Gene

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