FlyBase Gene Report: Dmel\Bx42

General Information

Symbol

Dmel\Bx42

Species

D. melanogaster

Name

Bx42

Annotation Symbol

CG8264

Feature Type

protein_coding_gene

FlyBase ID

FBgn0004856

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Bx42 (Bx42) encodes a nuclear protein that acts as a cofactor in Notch signalling pathway. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

Skip

Key Links

Genomic Location

Cytogenetic map

8C9-8C9

Sequence location

X:9,103,870..9,106,604 [-]

Recombination map

1-26

RefSeq locus

NC_004354 REGION:9103870..9106604

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 (9 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with FLYBASE:asf1; FB:FBgn0029094

(Goodfellow et al., 2007)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in embryonic development via the syncytial blastoderm

inferred from mutant phenotype

(Negeri et al., 2002)

involved_in eye-antennal disc development

inferred from mutant phenotype

(Negeri et al., 2002)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in mRNA splicing, via spliceosome

inferred by curator from GO:0071011,GO:0071013

(Herold et al., 2009)

inferred from electronic annotation with InterPro:IPR004015, InterPro:IPR017862

(InterPro Project Members, 2004-)

Cellular Component (5 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

part_of Prp19 complex

inferred from direct assay

(Guilgur et al., 2014)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

located_in chromatin

non-traceable author statement

(Negeri et al., 2002)

part_of spliceosomal complex

inferred from electronic annotation with InterPro:IPR004015, InterPro:IPR017862

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

SPLICEOSOME COMPLEX B

SPLICEOSOME COMPLEX C

SPLICEOSOME COMPLEX P

Protein Family (UniProt)

Belongs to the SNW family. (P39736)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Bx42 (Bx42) encodes a nuclear protein that acts as a cofactor in Notch signalling pathway. [Date last reviewed: 2019-03-07]

Gene Group (FlyBase)

SPLICEOSOME COMPLEX B -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. After the assembly of complex A on pre-mRNA, the U4-U6 and U5 snRNPs are recruited as a preassembled tri-snRNP to form complex B. U5 snRNP binds exons at the 5' site. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX C -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex B undergoes a number of structural rearrangements and U4 and U1 snRNPs dissociate to generate complex C, the catalytic spliceosome. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX P -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex P, the post-spliceosomal complex, is formed after the catalytic removal of the intron by complex C. Complex P contains the lariat intron and spliced exons. (Adapted from PMID:24452469 and PMID:23118483).

Protein Function (UniProtKB)

May play a role in chromatin structure and function.

(UniProt, P39736)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Bx42 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 P39736)

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 5.52

Gene model reviewed during 5.46

Gene model reviewed during 5.40

Gene model reviewed during 5.56

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Bx42-RA

FBtr0071350

NM_078538

1955

547

Bx42-RB

FBtr0333809

NM_001272441

2403

547

Additional Transcript Data and Comments

Reported size (kB)

2.2, 1.9 (northern blot)

(Wieland et al., 1992)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Bx42-PA

FBpp0071285

61.2

547

9.97

FBpp0305943

61.2

547

9.97

P39736

NP_001259370

AGB95213

Polypeptides with Identical Sequences

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

547 aa isoforms: Bx42-PA, Bx42-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

547 (aa); 61 (kD predicted)

(Wieland et al., 1992)

66 (kD observed)

(Frasch and Saumweber, 1989)

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\Bx42 using the Feature Mapper tool.

External Data

Crossreferences

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

Bx42_1

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).

-0.23

Transcript Expression

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

organism | ubiquitous

(Wieland et al., 1992)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 13 -- 16

organism | ubiquitous

(Fisher et al., 2012)

Additional Descriptive Data

Bx42 transcripts are present throughout development and the 1.9 kb transcript is always nearly twice as prevalent as the 2.2 kb transcript. In situ hybridization shows that the RNA is ubiquitously distributed up to embryonic stage 16.

(Wieland et al., 1992)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

(Frasch and Saumweber, 1989)

embryonic stage 5

(Frasch and Saumweber, 1989)

third instar larval stage

embryonic/larval salivary gland

(Frasch and Saumweber, 1989)

adult stage & oogenesis

nurse cell

(Frasch and Saumweber, 1989)

follicle cell

(Frasch and Saumweber, 1989)

Additional Descriptive Data

During oogenesis, observed in nuclei of follicle cells and nurse cells. In embryos, observed in nuclei of cells at cellular blastoderm; expressed throughout embryonic development. In larval salivary glands, localized to polytene chromosomes.

(Frasch and Saumweber, 1989)

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

part_of Prp19 complex

inferred from direct assay

(Guilgur et al., 2014)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Bx42 in JBrowse

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

View exonic expression by developmental stage for Dmel\Bx42

View exonic expression by tissue for Dmel\Bx42

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0004856

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

31840/tissue=All

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

FBgn0004856

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0004856

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

FBgn0004856

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

CG8264

Flygut - An atlas of the Drosophila adult midgut

FBgn0004856

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 ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Bx42

Transgenic constructs containing regulatory region of Bx42

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 14 )

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

lethal, with Scer\GAL4^nub-AC-62

Bx42^HMS00086

lethal, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

lethal | female limited, with Scer\GAL4^dome-PG14

Bx42^HMS00086

lethal - all die during embryonic stage, with Scer\GAL4^T80

Bx42^RNAi.UAS.cNa

partially lethal, with Scer\GAL4^G6.1

Bx42^RNAi.UAS.cNa

viable, with Scer\GAL4^Mef2.PR

Bx42^GD13866

viable, with Scer\GAL4^pnr-MD237

Bx42^GD13866

Sterility

Allele

female sterile, with Scer\GAL4^VP16.otu

Bx42^HMS00086

Other Phenotypes

Allele

abnormal size | third instar larval stage, with Scer\GAL4^Cg.PA

Bx42^HMS00086

some die during embryonic stage, with Scer\GAL4^T80

Bx42^RNAi.UAS.cNa

some die during embryonic stage, with Scer\GAL4^αTub84B.PL

Bx42^RNAi.UAS.cNa

some die during P-stage, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

some die during pupal stage, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

Phenotype manifest in

Allele

antenna | ectopic, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

anterior crossvein, with Scer\GAL4^dpp.blk1

Bx42^RNAi.UAS.cNa

anterior crossvein, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

anterior scutellar bristle, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

embryonic/larval fat body | third instar larval stage, with Scer\GAL4^Cg.PA

Bx42^HMS00086

eye, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

first posterior wing cell, with Scer\GAL4^dpp.blk1

Bx42^RNAi.UAS.cNa

gnathal segment, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

head | P-stage, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

leg | ectopic, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

mitochondrion | third instar larval stage, with Scer\GAL4^Cg.PA

Bx42^HMS00086

mouthpart, with Scer\GAL4^ey.PH

Bx42^RNAi.UAS.cNa

posterior scutellar bristle, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

salivary gland, with Scer\GAL4^G6.1

Bx42^RNAi.UAS.cNa

wing vein, with Scer\GAL4^dpp.blk1

Bx42^RNAi.UAS.cNa

wing vein L3, with Scer\GAL4^dpp.blk1

Bx42^RNAi.UAS.cNa

wing vein L3, with Scer\GAL4^ptc-559.1

Bx42^RNAi.UAS.cNa

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) (1)

Hsap\SNW1

14 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (1)

Rnor\Snw1

14 of 14

Yes

Mus musculus (laboratory mouse) (1)

Mmus\Snw1

13 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\snw1

8 of 13

Yes

Xtro\nr6a1

1 of 13

Danio rerio (Zebrafish) (1)

Drer\snw1

13 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\skp-1

14 of 14

Yes

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP004521

12 of 12

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\SKIP

13 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\PRP45

11 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\prp45

12 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Bx42. 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) (0)

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?

SNW1; SNW domain containing 1

14 of 14

603055

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

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Bx42 - Brr2

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - CG14641

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - CG1965

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - CG4849

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - CG6015

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - CG9667

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - Prp19

anti tag coimmunoprecipitation, peptide massfingerprinting

(Guilgur et al., 2014)

Bx42 - Prp8

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - Tango4

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - U2A

pull down, western blot

(Penn et al., 2008)

Bx42 - Ubx

proximity-dependent biotin identification, Identification by mass spectrometry, anti tag coimmunoprecipitation, anti tag western blot

(Carnesecchi et al., 2020)

Bx42 - crn

experimental knowledge based

(Guruharsha et al., 2011)

Bx42 - ct

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

Bx42 - fand

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Guilgur et al., 2014, Guruharsha et al., 2011)

Bx42 - l(1)10Bb

experimental knowledge based

(Guruharsha et al., 2011)

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.

58295

DroID - A comprehensive database of gene and protein interactions.

FBgn0004856

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

31840

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

P39736

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-26

Cytogenetic map

8C9-8C9

Sequence location

X:9,103,870..9,106,604 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

8C9-8C9

Limits computationally determined from genome sequence between P{EP}CG10962^EP1565&P{EP}EP1030 and P{EP}EP1450&P{EP}EP1356

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

8C7-8C8

(determined by in situ hybridisation)

(Wieland et al., 1992)

Experimentally Determined Recombination Data

Location

1-26

(FlyBase, 2016)

1-27.9

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

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

Bloomington

34777

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00086}attP2

NIG-Fly

8264R-1

P{NIG.8264R}1

8264R-3

P{NIG.8264R}3

HMS00086

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00086}attP2

VDRC

v330264

P{VSH330264}attP40

v107012

P{KK101598}VIE-260B

v342786

P{hsFLP}1, y1 w1118; P{HD_CFD01840}attP40/CyO-GFP

Genomic Clones (9)

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

cDNA Clones (68)

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

LD22701

Other clones

DPiM_LD22701

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.

FBgn0004856

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0004856

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Wieland et al., 1992)

monoclonal

(Frasch and Saumweber, 1989)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Embryos derived from homozygous female germline clones show disruptions in dpp target gene expression patterns.

(Sharma and Ashe, 2006)

RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R⁺ cells.

(Boutros et al., 2004)

In a sample of 79 genes with multiple introns, 33 showed significant heterogeneity in G+C content among introns of the same gene and significant positive correspondence between the intron and the third codon position G+C content within genes. These results are consistent with selection adding against preferred codons at the start of genes.

(Kliman and Eyre-Walker, 1998)

Bx42 is present in a set of transcriptionally active puffs on polytene chromosomes.

(Wieland et al., 1992)

Bx42 binds to the chromosome within 2.5kb 5' of the start of Sgs4 transcription.

(Saumweber et al., 1990)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

BX42

(Herold et al., 2009)

Bx-42

(Carnesecchi et al., 2020)

Bx42

(Lee et al., 2024, Zhou et al., 2019, Bonnay et al., 2014, Guilgur et al., 2014, Malmendal et al., 2013, Mbodj et al., 2013, Moshkin et al., 2013, Neumüller et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Davis et al., 2011, Friedman et al., 2011, Lindquist et al., 2011, Moshkin et al., 2009, Farny et al., 2008, Zhou et al., 2008, Negeri et al., 2007, Taylor-Harding et al., 2004, Frasch and Saumweber, 1989)

CG8264

(Meadows, 2017.1.11, Bonnay et al., 2014, Guilgur et al., 2014, Ni et al., 2011.7.19, Herold et al., 2009, Keleman et al., 2009.8.5, Andersen and Tapon, 2008)

SKIP

(Moshkin et al., 2009, Goodfellow et al., 2007)

Skip

(Penn et al., 2008, Sharma and Ashe, 2006)

bx42

(Bonnay et al., 2014, Muerdter et al., 2013)

Name Synonyms

Bx42

(Davis et al., 2011)

Ski-interacting protein

(Sharma and Ashe, 2006)

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 ( 44 )

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.

31840

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/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.

P39736

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

P39736

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

M9PGQ6

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.

P39736

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0004856

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

31840/tissue=All

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

FBgn0004856

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

FBgn0004856

FlyMine - An integrated database for Drosophila genomics

FBgn0004856

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

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

dme:Dmel_CG8264

MARRVEL_MODEL - MARRVEL (model organism gene)

31840

Linkouts

BioGRID - A database of protein and genetic interactions.

58295

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

FBgn0004856

DroID - A comprehensive database of gene and protein interactions.

FBgn0004856

DRSC - Results frm RNAi screens

FBgn0004856

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

Bx42_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0004856

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0004856

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

CG8264

Flygut - An atlas of the Drosophila adult midgut

FBgn0004856

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0004856

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

TC004979

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

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

31840

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

P39736

References (71)

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

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