FlyBase Gene Report: Dmel\Lcp65Ag1

General Information

Symbol

Dmel\Lcp65Ag1

Species

D. melanogaster

Name

Lcp65Ag1

Annotation Symbol

CG10530

Feature Type

protein_coding_gene

FlyBase ID

FBgn0020638

Gene Model Status

Current

Stock Availability

None publicly available

Gene Summary

Lcp65Ag1 (Lcp65Ag1) encodes a small structural protein of the chitin based larval cuticle. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

LCP8

Key Links

Genomic Location

Cytogenetic map

65A6-65A6

Sequence location

3L:6,134,697..6,135,274 [-]

Recombination map

3-16

RefSeq locus

NT_037436 REGION:6134697..6135274

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 (5 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)

non-traceable author statement

(assigned by UniProt )

(Charles et al., 1998)

inferred from biological aspect of ancestor with PANTHER:PTN002571557

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in chitin-based cuticle development

inferred from sequence model

(Karouzou et al., 2007)

involved_in larval chitin-based cuticle development

non-traceable author statement

(assigned by UniProt )

(Charles et al., 1998)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

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)

located_in extracellular region

non-traceable author statement

(assigned by UniProt )

(Charles et al., 1998)

Gene Group (FlyBase)

CPR CUTICLE PROTEIN FAMILY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Lcp65Ag1 (Lcp65Ag1) encodes a small structural protein of the chitin based larval cuticle. [Date last reviewed: 2019-03-14]

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, C0HL64)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Lcp65Ag1 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 C0HL64)

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

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Lcp65Ag1-RA

FBtr0077058

NM_057925

517

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

RefSeq ID

GenBank

Lcp65Ag1-PA

FBpp0076766

11.2

105

3.91

NP_477273

AAF50692

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

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Lcp65Ag1 using the Feature Mapper tool.

External Data

Crossreferences

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

With a probe that recognizes Lcp65Ag1, Lcp65Ag2, and Lcp65Ag3 transcripts, expression is detected 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\Lcp65Ag1 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\Lcp65Ag1

View exonic expression by tissue for Dmel\Lcp65Ag1

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

FBgn0020638

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

38703/tissue=All

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

FBgn0020638

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

FBgn0020638

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

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 Lcp65Ag1

Transgenic constructs containing regulatory region of Lcp65Ag1

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.

Other Phenotypes

Allele

electrophoretic variant | slow

Lcp65Ag1^S

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

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

BioGRID - A database of protein and genetic interactions.

64158

DroID - A comprehensive database of gene and protein interactions.

FBgn0020638

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:6,134,697..6,135,274 [-]

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 (0)

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

Genomic Clones (16)

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

cDNA Clones (62)

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

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.

FBgn0020638

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0020638

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

38703

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Lcp65Ag1 CG10530

(Gabrielian, 1999.11)

Source for database merge of

Additional comments

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.

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 36 )

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.

38703

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.

C0HL64

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

C0HL64

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.

C0HL64

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0020638

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

FBgn0020638

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

38703/tissue=All

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

FBgn0020638

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

FBgn0020638

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

38703

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_CG10530

MARRVEL_MODEL - MARRVEL (model organism gene)

38703

modMine - A data warehouse for the modENCODE project

FBgn0020638

Linkouts

BioGRID - A database of protein and genetic interactions.

64158

DroID - A comprehensive database of gene and protein interactions.

FBgn0020638

DRSC - Results frm RNAi screens

FBgn0020638

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0020638

FlyMine - An integrated database for Drosophila genomics

FBgn0020638

Synonyms and Secondary IDs (7)

Reported As

Symbol Synonym

CG10530

(Ni et al., 2010.12.1)

DCP8-alpha

L₃CP8

(Chihara and Kimbrell, 1986)

LCP8

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

Lcp-g1

(Charles et al., 1998)

Lcp65Ag1

(Mossman et al., 2019, Castillo et al., 2015, Blanco et al., 2008, Karouzou et al., 2007, Karouzou et al., 2007, Karouzou et al., 2007, Willis, 2007.1.3)

Lcp8

Name Synonyms

Lcp65Ag1

Secondary FlyBase IDs

FBgn0002539

Datasets (5)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (5)

Result

Result Type

Title

scRNAseq_2020_Cho_NI72LG_seq_clustering

cell clustering analysis

Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying

scRNAseq_2020_Cho_NI96LG_seq_clustering

cell clustering analysis

Clustering analysis of lymph gland cells from non-infested larvae at 96 h after egg-laying

scRNAseq_2020_Cho_WI96LG_seq_clustering

cell clustering analysis

Clustering analysis of lymph gland cells from wasp-infested larvae at 96 h after egg-laying

scRNAseq_2020_Cho_NI96HL_seq_clustering

cell clustering analysis

Clustering analysis of circulating hemocytes from non-infested larvae at 96 h after egg-laying

scRNAseq_2020_Cho_NI120HL_seq_clustering

cell clustering analysis

Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying

References (41)

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

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