FlyBase Gene Report: Dmel\beat-IIb

General Information

Symbol

Dmel\beat-IIb

Species

D. melanogaster

Name

beaten path IIb

Annotation Symbol

CG4135

Feature Type

protein_coding_gene

FlyBase ID

FBgn0038494

Gene Model Status

Current

Stock Availability

6 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

89F3-90A1

Sequence location

3R:17,232,253..17,265,049 [-]

Recombination map

3-60

RefSeq locus

NT_033777 REGION:17232253..17265049

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 (1 term)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

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 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules

inferred from sequence or structural similarity with FLYBASE:beat-Ic; FB:FBgn0028644

(Pipes et al., 2001)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

BEAT FAMILY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

BEAT FAMILY -: BEAT is a multigene family encoding immunoglobulin superfamily proteins. They can interact with SIDE family members. Interactions between beat-Ia and side have been shown to play a role in the control of motor axon guidance. (Adapted from FBrf0141485, FBrf0207934 and FBrf0222007).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\beat-IIb 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 Q9VEL7)

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 5.49

Low-frequency RNA-Seq exon junction(s) not annotated.

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

beat-IIb-RA

FBtr0083411

NM_142356

2070

407

beat-IIb-RC

FBtr0339173

NM_001170164

2442

404

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

beat-IIb-PA

FBpp0082852

43.8

407

8.11

FBpp0308315

43.4

404

8.11

E1JIN2

NP_001163635

ACZ94931

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\beat-IIb using the Feature Mapper tool.

External Data

Crossreferences

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

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).

-0.65

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

JBrowse - Visual display of RNA-Seq signals

View Dmel\beat-IIb in JBrowse

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

View exonic expression by developmental stage for Dmel\beat-IIb

View exonic expression by tissue for Dmel\beat-IIb

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

42082/tissue=All

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

FBgn0038494

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038494

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

FBgn0038494

Flygut - An atlas of the Drosophila adult midgut

FBgn0038494

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 5 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of beat-IIb

Transgenic constructs containing regulatory region of beat-IIb

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

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

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

beat-IIb^GD6761

viable, with Scer\GAL4^Mef2.PR

beat-IIb^GD6761

viable, with Scer\GAL4^pnr-MD237

beat-IIb^GD6761

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) (12)

Hsap\BCAM

1 of 14

Yes

Hsap\CADM1

1 of 14

Yes

Hsap\CADM2

1 of 14

Yes

Hsap\CADM3

1 of 14

Yes

Hsap\CEACAM6

1 of 14

Yes

Hsap\DSCAML1

1 of 14

Yes

Hsap\ESAM

1 of 14

Yes

Hsap\F11R

1 of 14

Yes

Hsap\HMCN1

1 of 14

Yes

Hsap\NECTIN3

1 of 14

Yes

Hsap\SIRPG

1 of 14

Yes

Hsap\TTN

1 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) (11)

Rnor\Bcam

1 of 14

Yes

Rnor\Cadm1

1 of 14

Yes

Rnor\Cadm2

1 of 14

Yes

Rnor\Cadm3

1 of 14

Yes

Rnor\Cd22

1 of 14

Yes

Rnor\Ceacam6

1 of 14

Yes

Rnor\Chl1

1 of 14

Yes

Rnor\Dscaml1

1 of 14

Yes

Rnor\Esam

1 of 14

Yes

Rnor\Hmcn1

1 of 14

Yes

Rnor\Nectin3

1 of 14

Yes

Mus musculus (laboratory mouse) (10)

Mmus\Bcam

1 of 14

Yes

Mmus\Cadm1

1 of 14

Yes

Mmus\Cadm2

1 of 14

Yes

Mmus\Cadm3

1 of 14

Yes

Mmus\Chl1

1 of 14

Yes

Mmus\Dscaml1

1 of 14

Yes

Mmus\Esam

1 of 14

Yes

Mmus\Hmcn1

1 of 14

Yes

Mmus\Hmcn2

1 of 14

Yes

Mmus\Nectin3

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (5)

Xtro\bcam

1 of 13

Yes

Xtro\cadm2

1 of 13

Yes

Xtro\hmcn1

1 of 13

Yes

Xtro\jam2

1 of 13

Yes

Xtro\LOC100496188

1 of 13

Yes

Danio rerio (Zebrafish) (17)

Drer\cadm1a

1 of 14

Yes

Drer\cadm2a

1 of 14

Yes

Drer\cadm2b

1 of 14

Yes

Drer\cadm3

1 of 14

Yes

Drer\ceacam1

1 of 14

Yes

Drer\chl1a

1 of 14

Yes

Drer\dscama

1 of 14

Yes

Drer\f11r.2

1 of 14

Yes

Drer\hmcn1

1 of 14

Yes

Drer\jam2a

1 of 14

Yes

Drer\jam2b

1 of 14

Yes

Drer\kirrel3a

1 of 14

Yes

Drer\kirrel3b

1 of 14

Yes

Drer\kirrel3l

1 of 14

Yes

Drer\si:ch211-286b5.8

1 of 14

Yes

Drer\si:dkey-24p1.7

1 of 14

Yes

Drer\vsig10

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\unc-89

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (27)

Agam\AgaP_AGAP004369

7 of 12

Yes

Agam\AgaP_AGAP004577

5 of 12

Yes

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

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:beat-IIb. 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) (21)

8 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

2 of 13

1 of 13

hbs

1 of 13

kirre

1 of 13

rst

1 of 13

side-II

1 of 13

sns

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?

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

Show neighbor-neighbor interactions:

Off

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

MIST Molecular Interaction Search Tool

View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

beat-IIb - side

enzyme linked immunosorbent assay

(Ozkan et al., 2013)

beat-IIb - side-IV

enzyme linked immunosorbent assay

(Ozkan et al., 2013)

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.

FBgn0038494

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

42082

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-60

Cytogenetic map

89F3-90A1

Sequence location

3R:17,232,253..17,265,049 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

89F3-90A1

Limits computationally determined from genome sequence between P{EP}CG5208^EP562&P{EP}Dad^EP3196 and P{PZ}l(3)07882⁰⁷⁸⁸²;

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

90A1-90A1

(Pipes, 2001.8.23)

Experimentally Determined Recombination Data

Location

3-60

(FlyBase, 2016)

3-59.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (6)

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

Bloomington

62669

w¹¹¹⁸; PBac{IT.GAL4}beat-IIb^0150-G4

36195

y¹ w^*; Mi{MIC}beat-IIb^MI03102

59406

y¹ w^*; Mi{PT-GFSTF.0}beat-IIb^{MI03102-GFSTF.0}

57157

y¹ sc^* v¹ sev²¹; P{TRiP.HMC04537}attP40

VDRC

v104935

P{KK112363}VIE-260B

v17815

w¹¹¹⁸; P{GD6761}v17815/TM3

Genomic Clones (49)

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

cDNA Clones (77)

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

RE10028

Other clones

RT09992

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.

FBgn0038494

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0038494

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

Source for merge of: beat-IIb CG14337

(FlyBase Genome Annotators, 2002-2003)

Additional comments

Annotations CG4135 and CG14337 merged as CG4135 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Source for identity of beat-IIb CG4135 was sequence comparison ( date:011019 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: beat-IIb CG4135

(FlyBase, 1996-)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (7)

Reported As

Symbol Synonym

Beat-IIb

(Li et al., 2017, Ozkan et al., 2013)

CG14337

CG4135

(Ni et al., 2010.12.1, Keleman et al., 2009.8.5)

CT13620

(Hynes and Zhao, 2000)

beat IIb

(Pipes et al., 2001)

beat-IIb

(Corthals et al., 2023, Peng et al., 2018, Lobell et al., 2017, Clandinin and Owens, 2016-, Aradska et al., 2015, Gene Disruption Project members, 2015-, Nagarkar-Jaiswal et al., 2015, Ashwal-Fluss et al., 2014, Wolfram et al., 2014, Ozkan et al., 2013, Ozkan et al., 2013)

Name Synonyms

beat-IIb

beaten path IIb

Secondary FlyBase IDs

FBgn0038493

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

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.

42082

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.

Q9VEL7

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

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.

Q9VEL7

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

42082/tissue=All

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

FBgn0038494

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

FBgn0038494

FlyMine - An integrated database for Drosophila genomics

FBgn0038494

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

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

dme:Dmel_CG4135

MARRVEL_MODEL - MARRVEL (model organism gene)

42082

Linkouts

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

FBgn0038494

DroID - A comprehensive database of gene and protein interactions.

FBgn0038494

DRSC - Results frm RNAi screens

FBgn0038494

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038494

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0038494

Flygut - An atlas of the Drosophila adult midgut

FBgn0038494

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

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

42082

References (44)

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

-0.65

Report Sections