FlyBase Gene Report: Dmel\Lcp65Ad

General Information

Symbol

Dmel\Lcp65Ad

Species

D. melanogaster

Name

Lcp65Ad

Annotation Symbol

CG6955

Feature Type

protein_coding_gene

FlyBase ID

FBgn0020641

Gene Model Status

Current

Stock Availability

1 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

65A6-65A6

Sequence location

3L:6,143,395..6,144,101 [+]

Recombination map

3-16

RefSeq locus

NT_037436 REGION:6143395..6144101

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 (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 or structural similarity

(Charles et al., 1997)

inferred from biological aspect of ancestor with PANTHER:PTN002571557

(assigned by GO_Central )

(Gaudet et al., 2011)

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

is_active_in chitin-based extracellular matrix

inferred from biological aspect of ancestor with PANTHER:PTN002571557

(assigned by GO_Central )

(Gaudet et al., 2011)

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.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Lcp65Ad 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 New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry P91939)

If you don't see the viewer to the right, 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.

Comments on Gene Model

Gene model reviewed during 5.46

Gene model reviewed during 5.55

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Lcp65Ad-RA

FBtr0076990

NM_057930

521

108

Lcp65Ad-RB

FBtr0333581

NM_001274537

616

108

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

Lcp65Ad-PA

FBpp0076699

11.7

108

4.23

NP_477278

AAF50688

Lcp65Ad-PB

FBpp0305758

11.7

108

4.23

NP_001261466

AGB94161

Polypeptides with Identical Sequences

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

108 aa isoforms: Lcp65Ad-PA, Lcp65Ad-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

108 (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\Lcp65Ad using the Feature Mapper tool.

External Data

Crossreferences

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

Lcp65Ad_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

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

Expressed at significant levels during the synthesis of all larval cuticles. Expression is first detected in the embryo during the synthesis of the first instar larval cuticle, declines after ecdysis, and increases again during the synthesis of the cuticles for the second and third larval instars. Declines again between 12-18 hr after ecdysis to the third larval instar. Expressed transiently at 7-13 hr after pupariation, during pupal cuticle deposition.

(Charles et al., 1998)

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\Lcp65Ad 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\Lcp65Ad

View exonic expression by tissue for Dmel\Lcp65Ad

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

FBgn0020641

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

38707/tissue=All

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

FBgn0020641

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020641

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

FBgn0020641

Flygut - An atlas of the Drosophila adult midgut

FBgn0020641

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 ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Lcp65Ad

Transgenic constructs containing regulatory region of Lcp65Ad

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Exel8101

(Ryder, 2004.4.26)

Inferred from location ( 0 )

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 v8.0)

Homo sapiens (Human) (0)

No records found.

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (0)

No records found.

Rattus norvegicus (Norway rat) (0)

No records found.

Xenopus tropicalis (Western clawed frog) (0)

No records found.

Danio rerio (Zebrafish) (0)

No records found.

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

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.

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (62)

Gene Symbol

Score

Source

Alignment

3 of 10

3 of 10

3 of 10

3 of 10

3 of 10

3 of 10

3 of 10

3 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

Pcp

2 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

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

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

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

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Lcp65Ad - Drep2

anti tag coimmunoprecipitation, peptide massfingerprinting

(Andlauer et al., 2014)

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.

FBgn0020641

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

Lcp65Ad

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-16

Cytogenetic map

65A6-65A6

Sequence location

3L:6,143,395..6,144,101 [+]

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

Experimentally Determined Recombination Data

Location

3-16

(FlyBase, 2016)

3-14.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (1)

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

VDRC

v102267

P{KK111294}VIE-260B

Genomic Clones (17)

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

cDNA Clones (5)

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

LP05231

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.

FBgn0020641

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0020641

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

38707

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Lcp65Ad CG6955

(Gabrielian, 1999.11)

Source for database merge of

Source for merge of: Lcp65Ad BcDNA:LP05231

(FlyBase, 1996-)

Additional comments

Source for merge of Lcp65Ad BcDNA:LP05231 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 46 )

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.

38707

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.

P91939

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.

P91939

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0020641

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

FBgn0020641

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

38707/tissue=All

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

FBgn0020641

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

Lcp65Ad_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020641

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

FBgn0020641

Flygut - An atlas of the Drosophila adult midgut

FBgn0020641

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

38707

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_CG6955

MARRVEL_MODEL - MARRVEL (model organism gene)

38707

modMine - A data warehouse for the modENCODE project

FBgn0020641

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0020641

DRSC - Results frm RNAi screens

FBgn0020641

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0020641

FlyMine - An integrated database for Drosophila genomics

FBgn0020641

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

Lcp65Ad

Synonyms and Secondary IDs (7)

Reported As

Symbol Synonym

BcDNA:LP05231

CG6955

(Andlauer et al., 2014, Keleman et al., 2009.8.5)

DCP1

DMCLP65d

(Iconomidou et al., 1999)

DmelLcp65Ad

(Karouzou et al., 2007)

Lcp-d

(Charles et al., 1998)

Lcp65Ad

(Andlauer et al., 2014, Vanden Broeck et al., 2013, Garelli et al., 2012, Blanco et al., 2008, Karouzou et al., 2007, Karouzou et al., 2007, Willis, 2007.1.3)

Name Synonyms

Lcp65Ad

Secondary FlyBase IDs