FlyBase Gene Report: Dmel\brv3

General Information

Symbol

Dmel\brv3

Species

D. melanogaster

Name

brivido-3

Annotation Symbol

CG13762

Feature Type

protein_coding_gene

FlyBase ID

FBgn0040333

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

EG:BACR7C10.7 , Brv-3

Key Links

Genomic Location

Cytogenetic map

3A8-3A8

Sequence location

X:2,622,069..2,624,575 [-]

Recombination map

1-1

RefSeq locus

NC_004354 REGION:2622069..2624575

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 (6 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables calcium channel activity

inferred from sequence or structural similarity

(Littleton and Ganetzky, 2000)

inferred from biological aspect of ancestor with PANTHER:PTN000093539

(assigned by GO_Central )

(Gaudet et al., 2011)

enables calcium ion binding

inferred from electronic annotation with InterPro:IPR003915

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in response to cold

inferred from mutant phenotype

(Gallio et al., 2011)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in calcium ion transport

inferred from sequence or structural similarity

(Littleton and Ganetzky, 2000)

involved_in detection of mechanical stimulus

inferred from biological aspect of ancestor with PANTHER:PTN000093539

(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 membrane

inferred from biological aspect of ancestor with PANTHER:PTN000093539

(assigned by GO_Central )

(Gaudet et al., 2011)

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\brv3 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 5.45

Gene model reviewed during 5.50

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

brv3-RB

FBtr0300708

NM_130657

2334

719

brv3-RC

FBtr0340092

NM_001297902

2427

750

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

brv3-PB

FBpp0289932

83.6

719

8.95

NP_570013

AAF45799

brv3-PC

FBpp0309091

87.1

750

8.85

NP_001284831

AHN59302

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\brv3 using the Feature Mapper tool.

External Data

Crossreferences

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

brv3_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\brv3 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\brv3

View exonic expression by tissue for Dmel\brv3

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

FBgn0040333

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

FBgn0040333

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG13762-RA

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

CG13762

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 9 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of brv3

Transgenic constructs containing regulatory region of brv3

Deletions and Duplications ( 0 )

Phenotypes

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

Lethality

Allele

viable, with Dcr-2^UAS.cDa, Scer\GAL4^e22c, Scer\GAL4^sqh.PW

brv3^KK106574

Other Phenotypes

Allele

cold stress response defective, with Scer\GAL4^scrt-11-6

brv3^dsRNA.UAS

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (10)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\PKD1L1

4 of 15

Yes

Hsap\PKD1L3

3 of 15

Yes

Hsap\PKD2L1

3 of 15

Hsap\PKDREJ

3 of 15

Hsap\PKD1

2 of 15

Yes

2 of 15

2 of 15

1 of 15

1 of 15

Yes

Hsap\PKD2

1 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (9)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Pkd1l1

4 of 15

Yes

3 of 15

3 of 15

3 of 15

2 of 15

2 of 15

Yes

Mmus\Loxhd1

1 of 15

Yes

Mmus\Pkd2l2

1 of 15

Mmus\Pkd2

1 of 15

Rattus norvegicus (Norway rat) (9)

Rnor\Pkd1l1

3 of 13

Yes

Rnor\Pkd1l2

3 of 13

Yes

Rnor\Pkd2l1

3 of 13

Yes

Rnor\Pkdrej

3 of 13

Yes

Rnor\LOC100362565

2 of 13

Yes

Rnor\Pkd1

2 of 13

Yes

Rnor\Pkd2l2

2 of 13

Rnor\Loxhd1

1 of 13

Yes

Rnor\Pkd2

1 of 13

Xenopus tropicalis (Western clawed frog) (7)

Xtro\pkd1

2 of 12

Yes

Xtro\LOC100496797

1 of 12

Yes

Xtro\LOC101734692

1 of 12

Yes

Xtro\LOC105947254

1 of 12

Yes

Xtro\pkd1l1

1 of 12

Yes

Xtro\pkd1l2

1 of 12

Yes

Xtro\pkd2

1 of 12

Danio rerio (Zebrafish) (10)

Drer\pkd1a

3 of 15

Yes

Drer\pkd1b

3 of 15

Yes

Drer\pkd1l2a

2 of 15

Yes

Drer\pkd1l2b

2 of 15

Yes

Drer\pkd1l3

2 of 15

Yes

Drer\pkd2l1

2 of 15

Drer\loxhd1a

1 of 15

Yes

Drer\loxhd1b

1 of 15

Yes

Drer\pkd1l1

1 of 15

Yes

Drer\pkd2

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\lov-1

4 of 15

Yes

Cele\pkd-2

3 of 15

Cele\F27C1.11

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (0)

No records found.

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) ( EOG091903IY )

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\GA23663

Drosophila persimilis

Dper\GL26193

Drosophila willistoni

Dwil\GK16275

Drosophila virilis

Dvir\GJ11886

Drosophila mojavensis

Dmoj\GI13528

Drosophila mojavensis

Drosophila grimshawi

Drosophila grimshawi

Drosophila grimshawi

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502TR )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17024336

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_07201

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W02L5 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Tribolium castaneum

Red flour beetle

Tcas\TC012839

Tribolium castaneum

Red flour beetle

Tcas\TC034437

Tribolium castaneum

Red flour beetle

Tcas\TC001937

Tribolium castaneum

Red flour beetle

Tcas\TC012838

Pediculus humanus

Human body louse

Phum\PHUM245520

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_09058

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )

No non-Arthropod Metazoa orthologies identified

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (6)

Gene Symbol

Score

Source

Alignment

5 of 10

4 of 10

3 of 10

1 of 10

1 of 10

PRY

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?

PKD1L1; polycystin 1 like 1, transient receptor potential channel interacting

4 of 15

609721

HETEROTAXY, VISCERAL, 8, AUTOSOMAL; HTX8

PKD1L3; polycystin 1 like 3, transient receptor potential channel interacting

3 of 15

607895

PKD2L1; polycystin 2 like 1, transient receptor potential cation channel

3 of 15

604532

PKDREJ; polycystin family receptor for egg jelly

3 of 15

604670

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.

FBgn0040333

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

31246

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-1

Cytogenetic map

3A8-3A8

Sequence location

X:2,622,069..2,624,575 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

3A8-3A8

Limits computationally determined from genome sequence between P{EP}egh^EP804 and P{EP}sgg^EP1576

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-1

(FlyBase, 2016)

1-1.2

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (5)

Bloomington

31385

y¹ v¹; P{TRiP.JF01361}attP2

31505

y¹ v¹; P{TRiP.JF01058}attP2

33763

y¹ v¹; P{TRiP.JF02462}attP2

36774

y¹ v¹; P{TRiP.JF02389}attP2

VDRC

v101019

P{KK106574}VIE-260B

Genomic Clones (13)

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

cDNA Clones (3)

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

AT07541

Other clones

FI16511

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.

FBgn0040333

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

AT09821

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0040333

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

31246

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: brv3 CG13762

(Gallio et al., 2011)

Source for database merge of

Source for merge of: EG:BACR7C10.7 CG13762

(FlyBase, 1996-)

Additional comments

Source for merge of EG:BACR7C10.7 CG13762 was sequence comparison ( date:000425 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

'brivido' is Italian for shiver, and mutants are deficient in sensing cold temperature.

(Gallio et al., 2011)

Identification

External Crossreferences and Linkouts ( 37 )

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.

31246

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0040333

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

FBgn0040333

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

brv3_1

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

CG13762

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

31246

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

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

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

Dmel_CG13762

modMine - A data warehouse for the modENCODE project

FBgn0040333

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0040333

DRSC - Results frm RNAi screens

FBgn0040333

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

FBgn0040333

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG13762-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0040333

FlyMine - An integrated database for Drosophila genomics

FBgn0040333

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

31246

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

Brv-3

(Guo et al., 2020, Su et al., 2018)

Brv3

(Barbagallo and Garrity, 2015)

CG13762

(Japanese National Institute of Genetics, 2012.5.21, Stotz and Clapham, 2012, Tsubouchi et al., 2012, Gallio et al., 2011, Ni et al., 2011.7.19, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Ni et al., 2008)

CT33244

(Littleton and Ganetzky, 2000)

EG:BACR7C10.7

(Benos et al., 2001, Benos, 2000.2.6)

brv3

(Li and Gong, 2017, Kwon et al., 2013, Gallio et al., 2011)

Name Synonyms

Brivido-3

(Bellemer, 2015)

brivido-3

Secondary FlyBase IDs

FBgn0029632

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (28)

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

Report Sections