FlyBase Gene Report: Dmel\Lcp65Ag2

General Information

Symbol

Dmel\Lcp65Ag2

Species

D. melanogaster

Name

Lcp65Ag2

Annotation Symbol

CG10534

Feature Type

protein_coding_gene

FlyBase ID

FBgn0020637

Gene Model Status

Current

Stock Availability

1 publicly available

Gene Summary

Component of the cuticle of the larva. (UniProt, C0HL65)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

LCP8

Key Links

Genomic Location

Cytogenetic map

65A6-65A6

Sequence location

3L:6,132,990..6,133,593 [-]

Recombination map

3-16

RefSeq locus

NT_037436 REGION:6132990..6133593

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 (3 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 structural constituent of chitin-based larval cuticle

inferred from sequence model

(Karouzou et al., 2007)

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 chitin-based cuticle development

inferred from sequence model

(Karouzou et al., 2007)

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 chitin-based extracellular matrix

inferred from sequence model

(Karouzou et al., 2007)

Gene Group (FlyBase)

CPR CUTICLE PROTEIN FAMILY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

CPR CUTICLE PROTEIN FAMILY -: The largest cuticle protein family, the CPR family, contain a 35 amino acid R&R consensus (named after Rebers and Riddiford, PMID:2462055), which in an extended form has been shown to bind chitin (PMID:15475300). (Adapted from FBrf0242484.)

Protein Function (UniProtKB)

Component of the cuticle of the larva.

(UniProt, C0HL65)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Lcp65Ag2 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 C0HL65)

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 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Lcp65Ag2-RA

FBtr0077059

NM_057924

543

105

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

Lcp65Ag2-PA

FBpp0076767

11.2

105

3.91

P92201

NP_477272

AAF50693

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

105 (aa)

(Charles et al., 1997)

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\Lcp65Ag2 using the Feature Mapper tool.

External Data

Crossreferences

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).

-0.61

Transcript Expression

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

(Charles et al., 1998)

larval stage

(Charles et al., 1998)

prepupal stage P4 -- pupal stage P5(i)

Comment: reference states 7-13 hr APF

(Charles et al., 1998)

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

JBrowse - Visual display of RNA-Seq signals

View Dmel\Lcp65Ag2 in JBrowse

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

View exonic expression by developmental stage for Dmel\Lcp65Ag2

View exonic expression by tissue for Dmel\Lcp65Ag2

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

38702/tissue=All

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

FBgn0020637

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020637

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

FBgn0020637

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

CG10534

Flygut - An atlas of the Drosophila adult midgut

FBgn0020637

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 ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Lcp65Ag2

Transgenic constructs containing regulatory region of Lcp65Ag2

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Exel8101

(Ryder, 2004.4.26)

Inferred from location ( 5 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

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) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (99)

Agam\CPR23

6 of 12

Yes

Agam\CPR24

6 of 12

Yes

Agam\CPR25

5 of 12

Yes

4 of 12

4 of 12

4 of 12

4 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

3 of 12

2 of 12

2 of 12

2 of 12

Yes

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

Yes

Agam\CPR153

2 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

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

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

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

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

1 of 12

1 of 12

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:Lcp65Ag2. 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) (99)

8 of 13

8 of 13

8 of 13

7 of 13

7 of 13

7 of 13

6 of 13

6 of 13

5 of 13

5 of 13

5 of 13

5 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

4 of 13

Pcp

4 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 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

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

vul

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

frm

1 of 13

l(3)mbn

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

Interaction Browsers

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.

64157

DroID - A comprehensive database of gene and protein interactions.

FBgn0020637

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-16

Cytogenetic map

65A6-65A6

Sequence location

3L:6,132,990..6,133,593 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

65A6-65A6

Limits computationally determined from genome sequence between P{PZ}loj⁰⁴⁰²⁶ and P{PZ}l(3)02094⁰²⁰⁹⁴

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

65A-65A

(Charles et al., 1996)

Experimentally Determined Recombination Data

Location

3-16

(FlyBase, 2016)

3-14.4

(Comeron et al., 2012)

3-11

(Chihara and Kimbrell, 1986)

Left of (cM)

Right of (cM)

Notes

Maps within 0.18 map units of Lcp65Ab1 and Lcp65Ab2.

(Chihara and Kimbrell, 1986)

Not separated from Lcp65Ab1 or Lcp65Ab2 in 563 progeny.

Stocks and Reagents

Stocks (1)

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

VDRC

v103526

P{KK112715}VIE-260B

Genomic Clones (16)

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

cDNA Clones (52)

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

Other clones

FI09408

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.

FBgn0020637

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0020637

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

First identified by protein electrophoresis as LCP8; molecular studies showed that a protein of this mobility is coded by two genes in the cuticle protein gene cluster in 65A, Lcp65Ag1 and Lcp65Ag2. An electrophoretic allele of LCP8 was identified. This is listed under Lcp65Ag1; it may be a Lcp65Ag2 allele.

Relationship to Other Genes

Source for database merge of

Source for merge of: Lcp65Ag2 BcDNA:RE01644

(FlyBase, 1996-)

Additional comments

Source for merge of Lcp65Ag2 BcDNA:RE01644 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: Lcp65Ag2 CG10534

(Gabrielian, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

BcDNA:RE01644

CG10534

(Keleman et al., 2009.8.5)

DCP8-beta

L₃CP8

(Chihara and Kimbrell, 1986)

LCP8

(Charles et al., 1998, Chihara et al., 1982)

Lcp-g2

(Charles et al., 1998)

Lcp65Ag2

(Pignataro et al., 2024, Bossen et al., 2023, Mossman et al., 2019, Kenmoku et al., 2017, Brown et al., 2014, Vanden Broeck et al., 2013, Garelli et al., 2012, Blanco et al., 2008, Karouzou et al., 2007, Karouzou et al., 2007, Karouzou et al., 2007, Willis, 2007.1.3)

Lcp8

chr3L:6106987..6107153

(Will et al., 2013)

Name Synonyms

Lcp65Ag2

Secondary FlyBase IDs

FBgn0002539
FBgn0064908

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 33 )

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.

38702

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.

C0HL65

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

C0HL65

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

Q8IGZ1

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.

C0HL65

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

38702/tissue=All

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

FBgn0020637

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

FBgn0020637

FlyMine - An integrated database for Drosophila genomics

FBgn0020637

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

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

dme:Dmel_CG10534

MARRVEL_MODEL - MARRVEL (model organism gene)

38702

Linkouts

BioGRID - A database of protein and genetic interactions.

64157

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

FBgn0020637

DroID - A comprehensive database of gene and protein interactions.

FBgn0020637

DRSC - Results frm RNAi screens

FBgn0020637

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020637

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0020637

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

CG10534

Flygut - An atlas of the Drosophila adult midgut

FBgn0020637

References (47)

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

-0.61

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