FlyBase Gene Report: Dmel\CG42346

General Information

Symbol

Dmel\CG42346

Species

D. melanogaster

Name

Annotation Symbol

CG42346

Feature Type

protein_coding_gene

FlyBase ID

FBgn0259677

Gene Model Status

Current

Stock Availability

10 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

Sequence location

X:22,832,399..22,885,541 [+]

Recombination map

1-66

RefSeq locus

NC_004354 REGION:22832399..22885541

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 (0 terms)

Molecular Function (0 terms)

There is no information supporting a Molecular Function term for this gene. (Based on a review of available data on: 2013-09-04 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

There is no information supporting a Biological Process term for this gene. (Based on a review of available data on: 2013-09-04 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

There is no information supporting a Cellular Component term for this gene. (Based on a review of available data on: 2013-09-04 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG42346 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

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Gene model reviewed during 5.46

Gene model reviewed during 5.53

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG42346-RC

FBtr0333177

NM_001042841

7849

1817

CG42346-RD

FBtr0333178

NM_001042838

9156

1817

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

CG42346-PC

FBpp0305379

203.3

1817

7.98

NP_001036306

ABI31006

CG42346-PD

FBpp0305380

203.3

1817

7.98

NP_001036303

ABI31004

Polypeptides with Identical Sequences

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

1817 aa isoforms: CG42346-PC, CG42346-PD

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

Q0KHN6

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG42346 using the Feature Mapper tool.

External Data

Crossreferences

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

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

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\CG42346 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\CG42346

View exonic expression by tissue for Dmel\CG42346

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

FBgn0259677

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG40499-RA;AT03263

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 6 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG42346

Transgenic constructs containing regulatory region of CG42346

Deletions and Duplications ( 0 )

Phenotypes

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

Lethality

Allele

partially lethal - majority die, with Scer\GAL4^pnr-MD237

CG42346^GD110

viable, with Scer\GAL4^Mef2.PR

viable, with Scer\GAL4^pnr-MD237

Other Phenotypes

Allele

some die during pupal stage, with Scer\GAL4^pnr-MD237

CG42346^GD110

visible, with Scer\GAL4^pnr-MD237

CG42346^GD110

Phenotype manifest in

Allele

trichogen cell, with Scer\GAL4^pnr-MD237

CG42346^GD110

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (6)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\IGFALS

1 of 15

Yes

Hsap\LRRC8C

1 of 15

Yes

Hsap\LRRC8D

1 of 15

Yes

Hsap\LRRC8E

1 of 15

Yes

Hsap\LRRC70

1 of 15

Yes

Hsap\STK11IP

1 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (7)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Igfals

1 of 15

Yes

Mmus\Lrrc8c

1 of 15

Yes

Mmus\Lrrc8d

1 of 15

Yes

Mmus\Lrrc8e

1 of 15

Yes

Mmus\Lrrc15

1 of 15

Yes

Mmus\Lrrc66

1 of 15

Yes

Mmus\Stk11ip

1 of 15

Yes

Rattus norvegicus (Norway rat) (6)

Rnor\Igfals

1 of 13

Yes

Rnor\Lrrc8c

1 of 13

Yes

Rnor\Lrrc8d

1 of 13

Yes

Rnor\Lrrc8e

1 of 13

Yes

Rnor\Lrrc15

1 of 13

Yes

Rnor\Lrrc32

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (7)

Xtro\LOC100170560

1 of 12

Yes

Xtro\lrrc8a

1 of 12

Yes

Xtro\lrrc8b

1 of 12

Yes

Xtro\lrrc8c

1 of 12

Yes

Xtro\lrrc8d

1 of 12

Yes

Xtro\lrrc8e

1 of 12

Yes

Xtro\lrrc32.1

1 of 12

Yes

Danio rerio (Zebrafish) (10)

Drer\lrrc8aa

1 of 15

Yes

Drer\lrrc8ab

1 of 15

Yes

Drer\lrrc8c

1 of 15

Yes

Drer\lrrc8da

1 of 15

Yes

Drer\lrrc32

1 of 15

Yes

Drer\si:ch211-106h11.1

1 of 15

Yes

Drer\si:dkey-1j5.4

1 of 15

Yes

Drer\si:dkey-182i3.11

1 of 15

Yes

Drer\si:zfos-323e3.4

1 of 15

Yes

Drer\tlr22

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\lron-15

1 of 15

Yes

Cele\pan-1

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (14)

Atha\AT1G75640

1 of 9

Yes

Atha\AT2G24130

1 of 9

Yes

Atha\AT3G47090

1 of 9

Yes

Atha\AT3G47570

1 of 9

Yes

Atha\AT4G36180

1 of 9

Yes

Atha\FLS2

1 of 9

Yes

Atha\GHR1

1 of 9

Yes

Atha\RLP12

1 of 9

Yes

Atha\RLP19

1 of 9

Yes

Atha\RLP34

1 of 9

Yes

Atha\RLP35

1 of 9

Yes

Atha\RLP38

1 of 9

Yes

Atha\RLP40

1 of 9

Yes

Atha\RLP53

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\cyr1

1 of 12

Yes

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091900NI )

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\GA22587

Drosophila persimilis

Dper\GL16459

Drosophila willistoni

Dwil\GK19841

Drosophila virilis

Dvir\GJ19236

Drosophila mojavensis

Dmoj\GI15653

Drosophila grimshawi

Dgri\GH11867

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091500C1 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17021378

Glossina morsitans

Tsetse fly

Gmor\GMOY002711

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_00966

Mayetiola destructor

Hessian fly

Mdes\Mdes007807

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL000243

Anopheles darlingi

American malaria mosquito

Adar\ADAC001036

Anopheles gambiae

Malaria mosquito

Agam\AGAP000360

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ006310

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W009S )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA012573

Bombyx mori

Silkmoth

Bmor\BGIBMGA012529

Danaus plexippus

Monarch butterfly

Dple\DPOGS208853-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS208852-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS202052-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL016779

Heliconius melpomene

Postman butterfly

Hmel\HMEL016777

Apis florea

Little honeybee

Aflo\3843054916

Apis florea

Little honeybee

Aflo\3255912980

Apis mellifera

Western honey bee

Amel\GB54551

Apis mellifera

Western honey bee

Amel\GB54502

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP16641

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP16629

Bombus terrestris

Buff-tailed bumblebee

Bter\15204891

Bombus terrestris

Buff-tailed bumblebee

Bter\15204894

Linepithema humile

Argentine ant

Lhum\LH18068

Linepithema humile

Argentine ant

Lhum\LH25720

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:00145f

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:001464

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG013760

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG013753

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_11164

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_11165

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_11166

Tribolium castaneum

Red flour beetle

Tcas\TC000625

Pediculus humanus

Human body louse

Phum\PHUM451890

Rhodnius prolixus

Kissing bug

Rpro\RPRC002494

Cimex lectularius

Bed bug

Clec\CLEC003797

Cimex lectularius

Bed bug

Clec\CLEC003796

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI009320

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_13996

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_15226

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X01A2 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR008545

Ixodes scapularis

Black-legged tick

Isca\ISCW008095

Stegodyphus mimosarum

African social velvet spider

Smim\KFM67621.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM67619.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur14g01680

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G01ZI )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Lrr/Igr_12

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Lrr/Igr_9

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Tlr033

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-IgfalsL_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Lrr/Igr_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Lrr/Igr_5

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Tlr022

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (36)

Gene Symbol

Score

Source

Alignment

3 of 10

2 of 10

18w

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

chp

2 of 10

Tollo

2 of 10

alrm

1 of 10

atk

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

Con

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

ltl

1 of 10

rdo

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

trn

1 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?

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

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.

FBgn0259677

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-66

Cytogenetic map

20F1-20F1

Sequence location

X:22,832,399..22,885,541 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

20F1-20F1

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

20A4-20A5

h26

(Drosophila Heterochromatin Genome Project, 2004)

Experimentally Determined Recombination Data

Location

1-66

(FlyBase, 2016)

1-66.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (10)

Bloomington

28958

y¹ v¹; P{TRiP.HM05169}attP2

41548

y¹ w^* Mi{MIC}fog^MI07112

51219

y¹ w^* Mi{MIC}fog^MI08094

50500

y¹ w^* Mi{MIC}CG42346^MI08992

82499

y¹ sc^* v¹ sev²¹; P{WKO.3-B2}attP40

51719

y¹ sc^* v¹ sev²¹; P{TRiP.HMC03255}attP2

86476

y¹ w^* TI{CRIMIC.TG4.0}CG42346^{CR01635-TG4.0} CG34334^{CR01635-TG4.0-X}

VDRC

v6704

w¹¹¹⁸; P{GD110}v6704

v4812

w¹¹¹⁸; P{GD2606}v4812/TM3

v36218

w¹¹¹⁸; P{GD14349}v36218/TM3

Genomic Clones (26)

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

cDNA Clones (7)

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

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.

FBgn0259677

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0259677

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

3355160

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: CG40500 CG41105

(FlyBase Genome Annotators, 2008)

Additional comments

Annotations CG40500 and CG41105 merged as CG42346 in release 5.9 of the genome annotation.

(FlyBase Genome Annotators, 2008)

Other Comments

New annotation (CG40500) in release 3.2 of the genome annotation.

(Drosophila Heterochromatin Genome Project, 2004)

New annotation (CG41105) in release 3.2 of the genome annotation.

(Drosophila Heterochromatin Genome Project, 2004)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 23 )

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.

3355160

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

Q0KHN6

Other crossreferences

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0259677

FlyMine - An integrated database for Drosophila genomics

FBgn0259677

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

3355160

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC000625

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

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG42346

modMine - A data warehouse for the modENCODE project

FBgn0259677

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0259677

DRSC - Results frm RNAi screens

FBgn0259677

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

FBgn0259677

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG40499-RA;AT03263

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0259677

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG40500

(Bergman et al., 2006)

CG40500-PA

(Swanson et al., 2009)

CG41105

(Japanese National Institute of Genetics, 2012.5.21)

CG42346

(Meltzer et al., 2019, Gene Disruption Project members, 2018-, Hosono et al., 2015, Ashwal-Fluss et al., 2014, Meadows, 2014.12.12, Ozkan et al., 2013, Ni et al., 2010.12.1, Perkins et al., 2009, FlyBase Genome Annotators, 2008)

Name Synonyms

CG40500

CG41105

Secondary FlyBase IDs

FBan0040500
FBgn0069968
FBgn0069939
FBan0041105

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (30)

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

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