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URB1 URB1 ribosome biogenesis homolog [ Homo sapiens (human) ]

Gene ID: 9875, updated on 5-Mar-2024

Summary

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Official Symbol
URB1provided by HGNC
Official Full Name
URB1 ribosome biogenesis homologprovided by HGNC
Primary source
HGNC:HGNC:17344
See related
Ensembl:ENSG00000142207 MIM:608865; AllianceGenome:HGNC:17344
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NPA1; C21orf108
Summary
Enables RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Located in fibrillar center. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 5.5), endometrium (RPKM 5.1) and 25 other tissues See more
Orthologs
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Genomic context

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See URB1 in Genome Data Viewer
Location:
21q22.11
Exon count:
39
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (32311018..32393012, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (30680775..30762860, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (33683329..33765321, complement)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124905009 Neighboring gene Sharpr-MPRA regulatory region 333 Neighboring gene melanocortin 2 receptor accessory protein Neighboring gene MRAP antisense RNA 1 Neighboring gene NANOG hESC enhancer GRCh37_chr21:33702964-33703556 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:33706649-33707848 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18361 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:33754437-33755636 Neighboring gene small nucleolar RNA, H/ACA box 80A Neighboring gene H3K27ac hESC enhancers GRCh37_chr21:33764587-33765369 and GRCh37_chr21:33765370-33766151 Neighboring gene URB1 antisense RNA 1 (head to head) Neighboring gene eva-1 homolog C Neighboring gene histone demethylase UTY-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Ribosome assembly factor URB1 contributes to colorectal cancer proliferation through transcriptional activation of ATF4. Wang T, et al. Cancer Sci, 2021 Jan. PMID 32888357, Free PMC Article
  2. RAPTOR promotes colorectal cancer proliferation by inducing mTORC1 and upregulating ribosome assembly factor URB1. Wang T, et al. Cancer Med, 2020 Feb. PMID 31886628, Free PMC Article
  3. mRNA 5' region sequence incompleteness: a potential source of systematic errors in translation initiation codon assignment in human mRNAs. Casadei R, et al. Gene, 2003 Dec 4. PMID 14637006
  4. Criteria for gene identification and features of genome organization: analysis of 6.5 Mb of DNA sequence from human chromosome 21. Slavov D, et al. Gene, 2000 Apr 18. PMID 10773462
  5. NOP132 is required for proper nucleolus localization of DEAD-box RNA helicase DDX47. Sekiguchi T, et al. Nucleic Acids Res, 2006. PMID 16963496, Free PMC Article

See all (56) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. RAPTOR promotes colorectal cancer proliferation by inducing mTORC1 and upregulating ribosome assembly factor URB1.
    Title: RAPTOR promotes colorectal cancer proliferation by inducing mTORC1 and upregulating ribosome assembly factor URB1.
  2. Ribosome assembly factor URB1 contributes to colorectal cancer proliferation through transcriptional activation of ATF4.
    Title: Ribosome assembly factor URB1 contributes to colorectal cancer proliferation through transcriptional activation of ATF4.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA0539

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in fibrillar center IDA
Inferred from Direct Assay
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleolus NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
nucleolar pre-ribosomal-associated protein 1
Names
URB1 ribosome biogenesis 1 homolog
nucleolar preribosomal-associated protein 1
nucleolar protein 254 kDa

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_014825.3 → NP_055640.2  nucleolar pre-ribosomal-associated protein 1

    See identical proteins and their annotated locations for NP_055640.2

    Status: VALIDATED

    Source sequence(s)
    AP000266, AP000267, AP000268, AP000269
    Consensus CDS
    CCDS46645.1
    UniProtKB/Swiss-Prot
    D3DSE5, O60287, Q96NX1, Q9NYQ1
    Related
    ENSP00000372199.3, ENST00000382751.4
    Conserved Domains (2) summary
    pfam11707
    Location:78 → 393
    Npa1; Ribosome 60S biogenesis N-terminal
    pfam16201
    Location:1668 → 1857
    NopRA1; Nucleolar pre-ribosomal-associated protein 1

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    32311018..32393012 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    30680775..30762860 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O60287.4 GenPept UniProtKB/Swiss-Prot:O60287

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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