FlyBase Gene Report: Dmel\CG31278

General Information

Symbol

Dmel\CG31278

Species

D. melanogaster

Name

Annotation Symbol

CG31278

Feature Type

protein_coding_gene

FlyBase ID

FBgn0051278

Gene Model Status

Current

Stock Availability

3 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

86C4-86C4

Sequence location

3R:10,707,398..10,708,340 [-]

Recombination map

3-50

RefSeq locus

NT_033777 REGION:10707398..10708340

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

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 peptide deformylase activity

inferred from biological aspect of ancestor with PANTHER:PTN002235180

(assigned by GO_Central )

(Gaudet et al., 2011)

inferred from sequence or structural similarity with UniProtKB:Q9HBH1

(FlyBase Curators, 2008--)

Biological Process (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in co-translational protein modification

inferred from biological aspect of ancestor with PANTHER:PTN002235180

(assigned by GO_Central )

(Gaudet et al., 2011)

involved_in N-terminal protein amino acid modification

inferred from biological aspect of ancestor with PANTHER:PTN002235180

(assigned by GO_Central )

(Gaudet et al., 2011)

involved_in peptidyl-methionine modification

inferred from biological aspect of ancestor with PANTHER:PTN000048655

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in mitochondrion

inferred from biological aspect of ancestor with PANTHER:PTN000048655

(assigned by GO_Central )

(Gaudet et al., 2011)

Gene Group (FlyBase)

PEPTIDE DEFORMYLASES

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

PEPTIDE DEFORMYLASES -: Organellar nascent proteins begin with an N-formylated methionine (Met). Peptide deformylase activity is required to unmask the first Met, facilitating the action of Met aminopeptidase. (Adapted from PMID:15197470.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG31278 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

Gene model reviewed during 5.47

Gene model reviewed during 5.53

Alternative translation stop created by use of multiphasic reading frames within coding region.

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG31278-RA

FBtr0082319

NM_169354

872

238

CG31278-RB

FBtr0344138

NM_001300344

883

145

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

RefSeq ID

GenBank

CG31278-PA

FBpp0081795

27.1

238

9.41

NP_731494

AAF54540

CG31278-PB

FBpp0310552

16.5

145

10.77

NP_001287273

AHN57272

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

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

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG31278 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

CG31278_1

Linkouts

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

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

GBrowse - Visual display of RNA-Seq signals

View Dmel\CG31278 in GBrowse 2

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

View exonic expression by developmental stage for Dmel\CG31278

View exonic expression by tissue for Dmel\CG31278

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

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0051278

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG31278-RA

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG31278

Flygut - An atlas of the Drosophila adult midgut

FBgn0051278

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 3 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG31278

Transgenic constructs containing regulatory region of CG31278

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6159

(Ryder, 2004.4.26)

Inferred from location ( 0 )

Phenotypes

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

Lethality

Allele

viable

CG31278^e03169

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

CG31278^GD10214

viable, with Scer\GAL4^Mef2.PR

CG31278^GD10214

viable, with Scer\GAL4^pnr-MD237

CG31278^GD10214

viable, with Scer\GAL4^tin.CΔ4

CG31278^GD10214

Sterility

Allele

fertile

CG31278^e03169

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\PDF

11 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Pdf

8 of 15

Yes

Rattus norvegicus (Norway rat) (1)

Rnor\Pdf

10 of 13

Yes

Xenopus tropicalis (Western clawed frog) (1)

Xtro\pdf

13 of 12

Yes

Danio rerio (Zebrafish) (1)

Drer\pdf

14 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

Arabidopsis thaliana (thale-cress) (2)

Atha\PDF1A

8 of 9

Yes

Atha\PDF1B

2 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190EW2 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA16144

Drosophila persimilis

Dper\GL12633

Drosophila willistoni

Dwil\GK11287

Drosophila virilis

Dvir\GJ23993

Drosophila mojavensis

Dmoj\GI23900

Drosophila grimshawi

Dgri\GH17361

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150BIT )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17016951

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL000279

Anopheles darlingi

American malaria mosquito

Adar\ADAC009745

Anopheles gambiae

Malaria mosquito

Agam\AGAP003861

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ011016

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0CFL )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA002546

Danaus plexippus

Monarch butterfly

Dple\DPOGS210219-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL017751

Apis florea

Little honeybee

Aflo\2181411652

Apis mellifera

Western honey bee

Amel\Ame.16209

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP14911

Bombus terrestris

Buff-tailed bumblebee

Bter\15203962

Linepithema humile

Argentine ant

Lhum\LH23115

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:001757

Tribolium castaneum

Red flour beetle

Tcas\TC016210

Rhodnius prolixus

Kissing bug

Rpro\RPRC015217

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI003516

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0CDC )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR000892

Strigamia maritima

European centipede

Smar\SMAR003157

Ixodes scapularis

Black-legged tick

Isca\ISCW007744

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_307445

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0JOY )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_001492gn

Gallus gallus

Domestic chicken

Ggal\ENSGALG00000026458

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (1)

Gene Symbol

Score

Source

Alignment

8 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

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 v8.0 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?

PDF; peptide deformylase, mitochondrial

11 of 15

618720

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

esyN Network Diagram

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

CG31278 - CG17187

experimental knowledge based

(Guruharsha et al., 2011)

CG31278 - borr

experimental knowledge based

(Guruharsha et al., 2011)

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0051278

MIST (protein-protein) - An integrated Molecular Interaction Database

CG31278

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-50

Cytogenetic map

86C4-86C4

Sequence location

3R:10,707,398..10,708,340 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

86C4-86C4

Limits computationally determined from genome sequence between P{PZ}hth⁰⁵⁷⁴⁵ and P{EP}EP3340^EP3340

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-50

(FlyBase, 2016)

3-47.0

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

Bloomington

18125

w¹¹¹⁸; PBac{RB}CG31278^e03169

80527

y¹, v¹; P{TKO.GS03338}attP40

VDRC

v38938

w¹¹¹⁸; P{GD10214}v38938

Genomic Clones (22)

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

cDNA Clones (5)

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 sequenced

BDGP DGC clones

RE57173

Other clones

DPiM_RE57173

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.

FBgn0051278

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

GM21916

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0051278

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

41282

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Additional comments

Annotation CG6482 split into CG31278 and CG31373 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 31 )

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.

41282

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/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