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General Information
Symbol
Dmel\Nop60B
Species
D. melanogaster
Name
Nucleolar protein at 60B
Annotation Symbol
CG3333
Feature Type
FlyBase ID
FBgn0259937
Gene Model Status
Stock Availability
Gene Snapshot
Nucleolar protein at 60B (Nop60B) encodes a pseudouridine synthase that is a core component of H/ACA small nucleolar ribonucleoproteins (snoRNPs) and small Cajal body-specific ribonucleoproteins (scaRNPs). It is involved in pseudouridylation of cellular RNA, ribosome biogenesis, translation efficiency, cell proliferation, stress response and stem cell maintenance. [Date last reviewed: 2019-02-28]
Also Known As
mfl, minifly, Uhg6
Key Links
Genomic Location
Cytogenetic map
Sequence location
2R:24,174,877..24,186,343 [+]
Recombination map
2-106
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the pseudouridine synthase TruB family. (O44081)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
-
Predictions / Assertions
Summaries
Gene Group (FlyBase)
PSEUDOURIDINE SYNTHASES -
Pseudouridine synthases catalyze the site-specific isomerization of uridine residues that are already part of an RNA chain, which is the most abundant post-transcriptional modification of cellular RNAs. Their activity is specific for a particular RNA (e.g. tRNA or rRNA class). They can be classified into five families named after the E. coli enzymes RluA, RsuA, TruA, TruB, and TruD. (Adapted from PMID:17113994.)
Protein Function (UniProtKB)
Plays a central role in ribosomal RNA processing. Probable catalytic subunit of H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ('psi') residues may serve to stabilize the conformation of rRNAs. Required for maintenance of the germline stem cell lineage during spermatogenesis.
(UniProt, O44081)
Summary (Interactive Fly)
pseudouridylate synthase - enzymatically modifies ribosomal RNA - required for maintenance of germ-line stem cells
Gene Model and Products
Number of Transcripts
5
Number of Unique Polypeptides
2

Please see the GBrowse view of Dmel\Nop60B or the JBrowse view of Dmel\Nop60B for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model
This is a fused gene: the 3' end corresponds to the non-coding gene Uhg6, which contains one or more snoRNA loci within intronic regions.
Gene model reviewed during 5.42
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.48
Possible mutation in sequenced strain; transposable element after first alternative polyadenylation site may inhibit alternative 3' UTR formation containing downstream snoRNA precursor sequence (Uhg6).
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0072258
1753
508
FBtr0100213
2218
508
FBtr0300227
2184
508
FBtr0300861
3412
508
FBtr0304599
971
227
Additional Transcript Data and Comments
Reported size (kB)
2.0, 1.8 (northern blot)
~1.5 (northern blot); 1.7 (longest cDNA)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
FBpp0072166
56.8
508
9.88
FBpp0099583
56.8
508
9.88
FBpp0289464
56.8
508
9.88
FBpp0290083
56.8
508
9.88
FBpp0293141
25.8
227
10.38
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

Additional Polypeptide Data and Comments
Reported size (kDa)
508 (aa); 56 (kD predicted)
Comments
Nop60B protein rescues the function of the yeast cbf5 gene.
External Data
Subunit Structure (UniProtKB)
Component of the small nucleolar ribonucleoprotein particle containing H/ACA-type snoRNAs (H/ACA snoRNPs).
(UniProt, O44081)
Linkouts
Sequences Consistent with the Gene Model
 
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Nop60B using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (13 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
inferred from electronic annotation with InterPro:IPR002478, InterPro:IPR020103
(assigned by InterPro )
Biological Process (9 terms)
Terms Based on Experimental Evidence (5 terms)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
inferred from direct assay
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000565614
(assigned by GO_Central )
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
No Assay Recorded
Stage
Tissue/Position (including subcellular localization)
Reference
in situ
Stage
Tissue/Position (including subcellular localization)
Reference

Comment: reference states 0-4 hr AEL

northern blot
Stage
Tissue/Position (including subcellular localization)
Reference

Comment: reference states 0-4 hr AEL

Comment: reference states 0-6 hr AEL

Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
No Assay Recorded
Stage
Tissue/Position (including subcellular localization)
Reference
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
Nop60B protein is localized to the nucleolus during interphase. During mitosis the protein is localized throughout the cytoplasm and is absent from the condensed chromosomes. With confocal microscopy, a low level of punctate nuclear staining is seen in addition to the nucleolar staining.
High levels of Nop60B protein are observed in the germarium but not in the nurse cells or oocyte at later stages. Abundant Nop60B protein is evident in follicle cells. Nop60B protein is found throughout the embryo.
Marker for
 
Subcellular Localization
CV Term
Evidence
References
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Nop60B in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 16 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 12 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Nop60B
Transgenic constructs containing regulatory region of Nop60B
Deletions and Duplications ( 6 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
adult abdomen & macrochaeta
adult cuticle & adult abdomen
adult cuticle & adult abdomen, with Scer\GAL4Act5C.PI
nurse cell & nucleus
Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
14 of 15
Yes
Yes
2 of 15
No
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
14 of 15
Yes
Yes
2 of 15
No
Yes
Rattus norvegicus (Norway rat) (2)
10 of 13
Yes
Yes
2 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (2)
2 of 12
Yes
Yes
1 of 12
No
Yes
Danio rerio (Zebrafish) (2)
14 of 15
Yes
Yes
2 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
13 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (2)
9 of 9
Yes
Yes
1 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (2)
15 of 15
Yes
Yes
2 of 15
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
12 of 12
Yes
Yes
1 of 12
No
No
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091907SE )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Drosophila suzukii
Spotted wing Drosophila
Drosophila simulans
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091507DG )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Mayetiola destructor
Hessian fly
Aedes aegypti
Yellow fever mosquito
Anopheles darlingi
American malaria mosquito
Anopheles gambiae
Malaria mosquito
Culex quinquefasciatus
Southern house mosquito
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W07OF )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Danaus plexippus
Monarch butterfly
Heliconius melpomene
Postman butterfly
Apis florea
Little honeybee
Apis mellifera
Western honey bee
Bombus impatiens
Common eastern bumble bee
Bombus terrestris
Buff-tailed bumblebee
Linepithema humile
Argentine ant
Megachile rotundata
Alfalfa leafcutting bee
Nasonia vitripennis
Parasitic wasp
Dendroctonus ponderosae
Mountain pine beetle
Tribolium castaneum
Red flour beetle
Pediculus humanus
Human body louse
Rhodnius prolixus
Kissing bug
Cimex lectularius
Bed bug
Acyrthosiphon pisum
Pea aphid
Acyrthosiphon pisum
Pea aphid
Zootermopsis nevadensis
Nevada dampwood termite
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X07JL )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Ixodes scapularis
Black-legged tick
Stegodyphus mimosarum
African social velvet spider
Tetranychus urticae
Two-spotted spider mite
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G079R )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Ciona intestinalis
Vase tunicate
Gallus gallus
Domestic chicken
Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 2 )
Potential Models Based on Orthology ( 1 )
Human Ortholog
Disease
Evidence
References
Modifiers Based on Experimental Evidence ( 0 )
Allele
Disease
Interaction
References
Comments on Models/Modifiers Based on Experimental Evidence ( 0 )
 
Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)
Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
Homo sapiens (Human)
Gene name
Score
OMIM
OMIM Phenotype
DO term
Complementation?
Transgene?
Functional Complementation Data
Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
Interactions
Summary of Physical Interactions
Summary of Genetic Interactions
esyN Network Diagram
esyN Network Key:
Suppression
Enhancement

Please look at the allele data for full details of the genetic interactions
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
External Data
Subunit Structure (UniProtKB)
Component of the small nucleolar ribonucleoprotein particle containing H/ACA-type snoRNAs (H/ACA snoRNPs).
(UniProt, O44081 )
Linkouts
BioGRID - A database of protein and genetic interactions.
DroID - A comprehensive database of gene and protein interactions.
InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
MIST (genetic) - An integrated Molecular Interaction Database
MIST (protein-protein) - An integrated Molecular Interaction Database
Pathways
Gene Group - Pathway Membership (FlyBase)
External Data
Linkouts
KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
Genomic Location and Detailed Mapping Data
Chromosome (arm)
2R
Recombination map
2-106
Cytogenetic map
Sequence location
2R:24,174,877..24,186,343 [+]
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
60C1-60C2
Limits computationally determined from genome sequence between P{EP}EP503 and P{lacW}Nop60Bk05318
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
60B12-60C1
60C1-60C2
(determined by in situ hybridisation)
60B-60C
(determined by in situ hybridisation)
60B13-60C1
(determined by in situ hybridisation)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Stocks and Reagents
Stocks (16)
Genomic Clones (25)
cDNA Clones (144)
 

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequences
BDGP DGC clones
Other clones
Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

cDNA Clones, End Sequenced (ESTs)
RNAi and Array Information
Linkouts
DRSC - Results frm RNAi screens
GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
Antibody Information
Laboratory Generated Antibodies
Commercially Available Antibodies
 
Other Information
Relationship to Other Genes
Source for database identify of
Source for identity of: Nop60B CG3333
Source for database merge of
Source for merge of: l(2)k05318 Nop60B
Source for merge of: Nop60B Uhg6
Additional comments
Other Comments
dsRNA made from templates generated with primers directed against this gene results in a change in cell proliferation.
One of 42 Drosophila genes identified as being most likely to reveal molecular and cellular mechanisms of nervous system development or plasticity relevant to human Mental Retardation disorders.
Nop60B hosts the snoRNA:H1 gene in its fourth intron. Overall orientation not stated: Nop60B+ snoRNA:H1+ Nop60B+
Nop60B plays a central role in ribosomal RNA processing and pseudouridylation.
The 3' exons of Nop60B are non-coding and correspond to Uhg6, a snoRNA host gene.
Origin and Etymology
Discoverer
Etymology
Identification
External Crossreferences and Linkouts ( 67 )
Sequence Crossreferences
NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
Other crossreferences
Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
FlyMine - An integrated database for Drosophila genomics
GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
KEGG Genes - Molecular building blocks of life in the genomic space.
KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
modMine - A data warehouse for the modENCODE project
Linkouts
BioGRID - A database of protein and genetic interactions.
DroID - A comprehensive database of gene and protein interactions.
DRSC - Results frm RNAi screens
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
MIST (genetic) - An integrated Molecular Interaction Database
MIST (protein-protein) - An integrated Molecular Interaction Database
Synonyms and Secondary IDs (18)
Reported As
Secondary FlyBase IDs
  • FBgn0023184
  • FBgn0022178
  • FBgn0083122
Datasets (0)
Study focus (0)
Experimental Role
Project
Project Type
Title
References (108)