FlyBase Gene Report: Dmel\Rpp14b

General Information

Symbol

Dmel\Rpp14b

Species

D. melanogaster

Name

Ribonuclease P/MRP subunit p14 b

Annotation Symbol

CG15526

Feature Type

protein_coding_gene

FlyBase ID

FBgn0039744

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

Rpp14

Key Links

Genomic Location

Cytogenetic map

99D3-99D3

Sequence location

3R:30,055,957..30,056,603 [+]

Recombination map

3-100

RefSeq locus

NT_033777 REGION:30055957..30056603

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables ribonuclease P RNA binding

inferred from biological aspect of ancestor with PANTHER:PTN008559736

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with UniProtKB:O95059

(Gene Ontology Curators, 2002-)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in tRNA 5'-leader removal

inferred from electronic annotation with InterPro:IPR002759

(InterPro Project Members, 2004-)

inferred from sequence or structural similarity with UniProtKB:O95059

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN008559736

(GO Reference Genome Project, 2011-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

part_of multimeric ribonuclease P complex

inferred from sequence or structural similarity with UniProtKB:O95059

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN008559736

(GO Reference Genome Project, 2011-)

is_active_in nucleolus

inferred from biological aspect of ancestor with PANTHER:PTN008559736

(GO Reference Genome Project, 2011-)

part_of ribonuclease P complex

inferred from electronic annotation with InterPro:IPR002759

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

NUCLEAR RNASE P COMPLEX

RNASE MRP COMPLEX

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

NUCLEAR RNASE P COMPLEX -: Nuclear ribonuclease P (RNase P) is an essential endonuclease responsible for catalyzing 5' end maturation in precursor transfer RNAs (tRNAs) in the nucleus. It is a ribonucleoprotein (RNP) complex containing one conserved catalytic RNA subunit and a variable number of protein subunits - 8-10 in eukaryotes. (Adapted from PMID:27187488 and PMID:16998185.)
RNASE MRP COMPLEX -: RNase MRP processes ribosomal RNA (rRNA) precursors at the A3 site allowing formation of the 5.8S pre-rRNA. It is a ribonucleoprotein (RNP) complex, structurally and evolutionary related to the nuclear RNase P, and is found only in eukaryotes. RNase MRP shares most of its protein subunits with nuclear RNase P, though has a distinct catalytic RNA subunit. (Adapted from PMID:16998185 and PMID:20627997.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Rpp14b 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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VAA7)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.43

Gene model reviewed during 5.47

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Rpp14b-RA

FBtr0085562

NM_143512

566

112

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Rpp14b-PA

FBpp0084928

13.0

112

5.16

Q9VAA7

NP_651769

AAF57006

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q9VAA7

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Rpp14b using the Feature Mapper tool.

External Data

Crossreferences

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

5.05

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Rpp14b in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Rpp14b

View exonic expression by tissue for Dmel\Rpp14b

Bulk Downloads

RNA-Seq RPKM values for all genes

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

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

43578/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0039744

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039744

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0039744

Flygut - An atlas of the Drosophila adult midgut

FBgn0039744

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Rpp14b

Transgenic constructs containing regulatory region of Rpp14b

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 3 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Rpp14b^GD9047

viable, with Scer\GAL4^Mef2.PR

Rpp14b^GD9047

viable, with Scer\GAL4^pnr-MD237

Rpp14b^GD9047

viable, with Scer\GAL4^tin.CΔ4

Rpp14b^GD9047

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (2)

Hsap\RPP14

6 of 14

Yes

Hsap\POP5

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (2)

Rnor\Rpp14

8 of 14

Yes

Rnor\Pop5

1 of 14

Mus musculus (laboratory mouse) (1)

Mmus\Rpp14

6 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\rpp14

2 of 13

Yes

Xtro\pop5

1 of 13

Danio rerio (Zebrafish) (2)

Drer\rpp14

4 of 14

Yes

Drer\pop5

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\popl-5

1 of 14

Yes

Cele\Y37E11AM.4

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (2)

Agam\AgaP_AGAP013417

6 of 12

Yes

Agam\AgaP_AGAP005957

1 of 12

Arabidopsis thaliana (thale-cress) (1)

Atha\EMB1687

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Rpp14b. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (2)

Rpp14a

7 of 13

Pop5

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 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?

RPP14; ribonuclease P/MRP subunit p14

6 of 14

606112

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

Interaction Browsers

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

68434

DroID - A comprehensive database of gene and protein interactions.

FBgn0039744

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-100

Cytogenetic map

99D3-99D3

Sequence location

3R:30,055,957..30,056,603 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

99D3-99D3

Limits computationally determined from genome sequence between P{PZ}ncd⁰⁵⁸⁸⁴ and P{lacW}l(3)s2500^s2500

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-100

(FlyBase, 2016)

3-97.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

63580

y¹ v¹; P{TRiP.HMJ30147}attP40

83941

y¹ sc^* v¹ sev²¹; P{TKO.GS03593}attP40/CyO

VDRC

v104078

P{KK113009}VIE-260B

v19518

w¹¹¹⁸; P{GD9047}v19518

Genomic Clones (16)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (1)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

MIP16728

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.

FBgn0039744

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039744

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Rpp14b CG15526

(Palsule et al., 2019)

Nomenclature comments

FlyBase curator comment: As noted, there are two Rpp14 genes in D. melanogaster, CG34317 and CG15526, named here as Rpp14a and Rpp14b, respectively. (CG34317 appears to be expressed at higher levels/more tissues than CG15526.)

(Palsule et al., 2019)

Etymology

Synonyms and Secondary IDs (5)

Reported As

Symbol Synonym

CG15526

(Palsule et al., 2019, Transgenic RNAi Project members, 2017-, Chen et al., 2012, Zhang et al., 2010, Keleman et al., 2009.8.5, Perkins et al., 2009)

Pop8

(Palsule et al., 2019)

Rpp14

(Palsule et al., 2019, Rosenblad et al., 2006)

Rpp14b

Name Synonyms

Ribonuclease P/MRP subunit p14 b

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 22 )

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.

43578

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.

AAF57006

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q9VAA7

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Q9VAA7

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.