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Aliases for RPF1 Gene

Aliases for RPF1 Gene

  • Ribosome Production Factor 1 Homolog (S. Cerevisiae) 2 3
  • Brix Domain-Containing Protein 5 3 4
  • Ribosome Biogenesis Protein RPF1 3 4
  • Ribosome Production Factor 1 2 3
  • Brix Domain Containing 5 2 3
  • BXDC5 3 4
  • RNA Processing Factor 1 (RPF1) 3
  • RNA Processing Factor 1 2
  • 2310066N05Rik 3
  • PRPF19 6
  • NMP200 6
  • PRP19 6
  • PSO4 6

External Ids for RPF1 Gene

Previous Symbols for RPF1 Gene

  • BXDC5

Summaries for RPF1 Gene

GeneCards Summary for RPF1 Gene

RPF1 (Ribosome Production Factor 1 Homolog (S. Cerevisiae)) is a Protein Coding gene. Among its related pathways are Spliceosome and Class I MHC mediated antigen processing and presentation. GO annotations related to this gene include 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

Genomic Location for RPF1 Gene

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RPF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPF1 Gene

No data available for Regulatory Elements 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

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys182 and Lys237

Other Protein References for RPF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RPF1 Gene

Domains for RPF1 Gene

Protein Domains for RPF1 Gene

InterPro:
Blocks:
ProtoNet:

UniProtKB/Swiss-Prot:

RPF1_HUMAN
Domain:
  • Contains 1 Brix domain.:
    • Q9H9Y2
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
GO:0005515 protein binding IPI 25416956
GO:0019843 rRNA binding --
GO:0042134 rRNA primary transcript binding IBA --
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with RPF1: view
genes like me logo Genes that share phenotypes with RPF1: view

miRNA for RPF1 Gene

miRTarBase miRNAs that target RPF1

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting 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

Gene Ontology (GO) - Cellular Components for RPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IDA 12429849
GO:0030687 preribosome, large subunit precursor IBA --
genes like me logo Genes that share ontologies with RPF1: view

Pathways for RPF1 Gene

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

Pathways by source for RPF1 Gene

2 KEGG pathways for RPF1 Gene

Gene Ontology (GO) - Biological Process for RPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000027 ribosomal large subunit assembly IBA --
GO:0000460 maturation of 5.8S rRNA IBA --
GO:0000470 maturation of LSU-rRNA IBA --
GO:0006364 rRNA processing --
genes like me logo Genes that share ontologies with RPF1: view

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

Integrated Proteomics: protein expression 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 expressions with RPF1: view

Orthologs for RPF1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPF1 36
  • 99.62 (n)
  • 100 (a)
RPF1 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia BXDC5 37
  • 95 (a)
OneToOne
RPF1 36
  • 93.51 (n)
  • 95.42 (a)
dog
(Canis familiaris)
Mammalia RPF1 36
  • 93.8 (n)
  • 96.85 (a)
RPF1 37
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rpf1 36
  • 89.11 (n)
  • 95.13 (a)
Rpf1 16
Rpf1 37
  • 95 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RPF1 37
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPF1 37
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rpf1 36
  • 89.3 (n)
  • 93.98 (a)
chicken
(Gallus gallus)
Aves RPF1 36
  • 78.62 (n)
  • 86.48 (a)
RPF1 37
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RPF1 37
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpf1 36
  • 76.31 (n)
  • 83.6 (a)
Str.10818 36
zebrafish
(Danio rerio)
Actinopterygii rpf1 36
  • 71.55 (n)
  • 77.71 (a)
rpf1 37
  • 70 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009968 36
  • 51.75 (n)
  • 51.75 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG6712 36
  • 51.56 (n)
  • 49.13 (a)
CG6712 37
  • 36 (a)
OneToOne
CG6712 38
  • 50 (a)
worm
(Caenorhabditis elegans)
Secernentea F44G4.1 36
  • 61.74 (n)
  • 57.98 (a)
F44G4.1 37
  • 43 (a)
OneToOne
F44G4.1 38
  • 57 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL093C 36
  • 49.82 (n)
  • 50.18 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPF1 36
  • 56.54 (n)
  • 52.74 (a)
RPF1 37
  • 45 (a)
OneToOne
RPF1 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F21670g 36
  • 53.26 (n)
  • 49.47 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3048 36
thale cress
(Arabidopsis thaliana)
eudicotyledons MEE49 36
  • 58.82 (n)
  • 52.22 (a)
barley
(Hordeum vulgare)
Liliopsida Hv.6401 36
rice
(Oryza sativa)
Liliopsida Os.15940 36
Os06g0137500 36
  • 55 (n)
  • 53.21 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC4F8.04 36
  • 51.42 (n)
  • 47.37 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 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

Selected 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 MAF
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
rs1056979 -- 84,490,348(+) CTCTC(A/C)ACAGT synonymous-codon, reference
rs1056980 -- 84,490,361(+) TACCA(A/G)ACTCA reference, missense

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

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

Relevant External Links for RPF1 Gene

HapMap Linkage Disequilibrium report
RPF1

Disorders for RPF1 Gene

No disorders were found for RPF1 Gene.

No data available for UniProtKB/Swiss-Prot 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
  2. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. 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
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4

Products for RPF1 Gene

Sources for RPF1 Gene

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