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Aliases for URB1 Gene

Aliases for URB1 Gene

  • URB1 Ribosome Biogenesis 1 Homolog (S. Cerevisiae) 2 3 5
  • Nucleolar Preribosomal-Associated Protein 1 2 3
  • Nucleolar Protein 254 KDa 3 4
  • C21orf108 3 4
  • NPA1 3 4
  • Nucleolar Pre-Ribosomal-Associated Protein 1 3
  • Chromosome 21 Open Reading Frame 108 2
  • URB1 Ribosome Biogenesis 1 Homolog 4
  • KIAA0539 4
  • NOP254 4

External Ids for URB1 Gene

Previous HGNC Symbols for URB1 Gene

  • C21orf108

Previous GeneCards Identifiers for URB1 Gene

  • GC21M032607
  • GC21M033683
  • GC21M019092

Summaries for URB1 Gene

GeneCards Summary for URB1 Gene

URB1 (URB1 Ribosome Biogenesis 1 Homolog (S. Cerevisiae)) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and 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 URB1 Gene

Genomics for URB1 Gene

Regulatory Elements for URB1 Gene

Enhancers for URB1 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
GH21F032492 1 Ensembl ENCODE 30.3 -101.6 -101572 4.8 PKNOX1 ZFP64 ZNF493 FEZF1 ZNF48 RFX5 FOS EGR2 ZNF202 ZNF680 EVA1C URB1 PAXBP1-AS1 MIS18A ENSG00000273091 ENSG00000252045 URB1-AS1 TCP10L TIAM1 EXOSC3P1
GH21F032258 1 Ensembl ENCODE 30 +134.6 134626 0.8 ZFP64 ZNF493 RAD21 ZNF354C SCRT2 ZNF143 DEK ZNF202 ZNF680 ZNF654 EVA1C URB1 MIS18A EXOSC3P1 LOC105372779 HUNK PAXBP1-AS1 ENSG00000261610 GC21P032241
GH21F032769 0.4 ENCODE 20 -378.3 -378328 3.9 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF263 SP3 NFYC EVA1C URB1 ENSG00000238220 OR7E23P ENSG00000226433 LINC01548 PAXBP1-AS1 TCP10L C21orf62 PAXBP1
GH21F032410 0.6 ENCODE 18.2 -20.1 -20131 5.4 ATF1 FEZF1 ZNF48 ZNF121 GLIS2 GATA2 KLF7 ZNF263 SP3 JUNB URB1 EVA1C TCP10L URB1-AS1 ENSG00000252045 SNORA80A C21orf59 IL10RB LOC101928078
GH21F032425 1 Ensembl ENCODE 18.1 -34.0 -34010 3.3 ZSCAN5A CTCF TAF1 TAL1 RAD21 ZNF316 ZFHX2 NCOR1 HNF4G TRIM24 URB1 URB1-AS1 ENSG00000252045 TCP10L SNORA80A EVA1C LOC101928078
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around URB1 on UCSC Golden Path with GeneCards custom track

Promoters for URB1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001566248 126 2201 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 ZNF143 KLF13 SP3 SP5 MXD4

Genomic Location for URB1 Gene

Chromosome:
21
Start:
32,311,018 bp from pter
End:
32,393,026 bp from pter
Size:
82,009 bases
Orientation:
Minus strand

Genomic View for URB1 Gene

Genes around URB1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
URB1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for URB1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for URB1 Gene

Proteins for URB1 Gene

  • Protein details for URB1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60287-NPA1P_HUMAN
    Recommended name:
    Nucleolar pre-ribosomal-associated protein 1
    Protein Accession:
    O60287
    Secondary Accessions:
    • D3DSE5
    • Q96NX1
    • Q9NYQ1

    Protein attributes for URB1 Gene

    Size:
    2271 amino acids
    Molecular mass:
    254389 Da
    Quaternary structure:
    No Data Available

neXtProt entry for URB1 Gene

Post-translational modifications for URB1 Gene

  • Ubiquitination at Lys 23, Lys 185, Lys 376, Lys 399, Lys 616, Lys 1085, Lys 1336, Lys 1786, and Lys 1909
  • Modification sites at PhosphoSitePlus

Other Protein References for URB1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for URB1 Gene

Domains & Families for URB1 Gene

Protein Domains for URB1 Gene

Suggested Antigen Peptide Sequences for URB1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with URB1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for URB1 Gene

Function for URB1 Gene

Gene Ontology (GO) - Molecular Function for URB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with URB1: view

Animal Model Products

miRNA for URB1 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for URB1 Gene

Localization for URB1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for URB1 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for URB1 Gene COMPARTMENTS Subcellular localization image for URB1 gene
Compartment Confidence
nucleus 5
plasma membrane 3
cytosol 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for URB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus NAS 12429849
genes like me logo Genes that share ontologies with URB1: view

Pathways & Interactions for URB1 Gene

SuperPathways for URB1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for URB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with URB1: view

No data available for Pathways by source and SIGNOR curated interactions for URB1 Gene

Transcripts for URB1 Gene

mRNA/cDNA for URB1 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for URB1 Gene

URB1 ribosome biogenesis 1 homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for URB1 Gene

No ASD Table

Relevant External Links for URB1 Gene

GeneLoc Exon Structure for
URB1
ECgene alternative splicing isoforms for
URB1

Expression for URB1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for URB1 Gene

Protein differential expression in normal tissues from HIPED for URB1 Gene

This gene is overexpressed in Synovial fluid (45.5) and Vitreous humor (13.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for URB1 Gene



Protein tissue co-expression partners for URB1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of URB1 Gene:

URB1

SOURCE GeneReport for Unigene cluster for URB1 Gene:

Hs.473611
genes like me logo Genes that share expression patterns with URB1: 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 URB1 Gene

Orthologs for URB1 Gene

This gene was present in the common ancestor of animals.

Orthologs for URB1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia URB1 34
  • 99 (n)
C21ORF108 35
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia URB1 34 35
  • 84.84 (n)
cow
(Bos Taurus)
Mammalia URB1 34 35
  • 81.11 (n)
mouse
(Mus musculus)
Mammalia Urb1 34 16 35
  • 79.31 (n)
rat
(Rattus norvegicus)
Mammalia Urb1 34
  • 78.9 (n)
oppossum
(Monodelphis domestica)
Mammalia URB1 35
  • 65 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 63 (a)
OneToMany
-- 35
  • 55 (a)
OneToMany
-- 35
  • 48 (a)
OneToMany
-- 35
  • 44 (a)
OneToMany
chicken
(Gallus gallus)
Aves LOC100857673 34
  • 62.74 (n)
URB1 35
  • 56 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia URB1 35
  • 53 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia urb1 34
  • 58.8 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC100333650 34
  • 54.9 (n)
URB1 (2 of 2) 35
  • 46 (a)
OneToMany
URB1 (1 of 2) 35
  • 39 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG12499 35
  • 18 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea T05H4.10 35
  • 24 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 34 (a)
OneToOne
Species where no ortholog for URB1 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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 URB1 Gene

ENSEMBL:
Gene Tree for URB1 (if available)
TreeFam:
Gene Tree for URB1 (if available)

Paralogs for URB1 Gene

No data available for Paralogs for URB1 Gene

Variants for URB1 Gene

Sequence variations from dbSNP and Humsavar for URB1 Gene

SNP ID Clin Chr 21 pos Sequence Context AA Info Type
rs1007424 -- 32,375,615(+) ACTAT(A/G)CAAGT intron-variant
rs10222052 -- 32,344,318(+) TTATA(C/T)AACAT intron-variant
rs10222082 -- 32,366,552(+) ATAAT(C/T)ACATC intron-variant
rs10222086 -- 32,366,611(+) ACATG(C/G)CCTTA intron-variant
rs10717995 -- 32,386,166(+) AAAAA(-/A)GAAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for URB1 Gene

Variant ID Type Subtype PubMed ID
esv3307785 CNV mobile element insertion 20981092
esv3405236 CNV insertion 20981092
esv3646883 CNV loss 21293372
nsv1139016 CNV deletion 24896259
nsv510795 CNV deletion 20534489
nsv834084 CNV gain 17160897
nsv834085 CNV gain 17160897

Variation tolerance for URB1 Gene

Gene Damage Index Score: 5.68; 72.98% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for URB1 Gene

Human Gene Mutation Database (HGMD)
URB1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
URB1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for URB1 Gene

Disorders for URB1 Gene

Relevant External Links for URB1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
URB1

No disorders were found for URB1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for URB1 Gene

Publications for URB1 Gene

  1. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9628581) Nagase T. … Ohara O. (DNA Res. 1998) 2 3 4 64
  2. NOP132 is required for proper nucleolus localization of DEAD-box RNA helicase DDX47. (PMID: 16963496) Sekiguchi T. … Nishimoto T. (Nucleic Acids Res. 2006) 3 4 64
  3. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4 64
  4. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4 64
  5. Criteria for gene identification and features of genome organization: analysis of 6.5 Mb of DNA sequence from human chromosome 21. (PMID: 10773462) Slavov D. … Gardiner K. (Gene 2000) 3 4 64

Products for URB1 Gene

Sources for URB1 Gene

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