FlyBase Gene Report: Dmel\Cln7

General Information

Symbol

Dmel\Cln7

Species

D. melanogaster

Name

Cln7

Annotation Symbol

CG8596

Feature Type

protein_coding_gene

FlyBase ID

FBgn0035767

Gene Model Status

Current

Stock Availability

8 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

65F5-65F5

Sequence location

3L:7,341,884..7,345,183 [-]

Recombination map

3-20

RefSeq locus

NT_037436 REGION:7341884..7345183

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 (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 transmembrane transporter activity

inferred from electronic annotation with InterPro:IPR011701, InterPro:IPR020846

(InterPro Project Members, 2004-)

inferred from sequence model

(Perland et al., 2017)

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 transmembrane transport

inferred from sequence model

(Perland et al., 2017)

inferred from electronic annotation with InterPro:IPR011701

(InterPro Project Members, 2004-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in postsynaptic density membrane

inferred from direct assay

(Mohammed et al., 2017)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in lysosomal membrane

inferred from biological aspect of ancestor with PANTHER:PTN000606935

(GO Reference Genome Project, 2011-)

is_active_in membrane

inferred from sequence model

(Perland et al., 2017)

Gene Group (FlyBase)

ATYPICAL SOLUTE CARRIERS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

ATYPICAL SOLUTE CARRIERS -: Most atypical Solute Carriers (ASLCs) are Major Facilitator Superfamily (MFS) domain-containing proteins. ASLCs share ancestral background with the known SLC families but have not been assigned in the SLC classification system. (Adapted from FBrf0251874.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Cln7 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 Q9VS51)

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

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

Gene model reviewed during 5.45

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Cln7-RA

FBtr0076881

NM_139850

1875

546

Cln7-RB

FBtr0332732

NM_001274579

1821

546

Cln7-RC

FBtr0332733

NM_001274580

2114

546

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

Cln7-PA

FBpp0076591

61.0

546

7.88

FBpp0304978

61.0

546

7.88

FBpp0304979

61.0

546

7.88

Q9VS51

NP_001261509

AGB94204

Polypeptides with Identical Sequences

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

546 aa isoforms: Cln7-PA, Cln7-PB, Cln7-PC

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

Q9VS51

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Cln7 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).

-0.04

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 11 -- 12

plasmatocyte primordium

Comment: reported as plasmatocytes anlage

(Fisher et al., 2012)

ventral epidermis primordium

(Fisher et al., 2012)

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

located_in postsynaptic density membrane

inferred from direct assay

(Mohammed et al., 2017)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Cln7 in JBrowse

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

View exonic expression by developmental stage for Dmel\Cln7

View exonic expression by tissue for Dmel\Cln7

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

FBgn0035767

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

38813/tissue=All

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

FBgn0035767

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0035767

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

FBgn0035767

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

CG8596

Flygut - An atlas of the Drosophila adult midgut

FBgn0035767

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Cln7

Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 3 )

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 Cln7

Transgenic constructs containing regulatory region of Cln7

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

Cln7^GD2346

viable, with Scer\GAL4^Mef2.PR

Cln7^GD2346

viable, with Scer\GAL4^pnr-MD237

Cln7^GD2346

viable, with Scer\GAL4^tin.CΔ4

Cln7^GD2346

Sterility

Allele

fertile

Other Phenotypes

Allele

abnormal locomotor behavior | third instar larval stage

Cln7^84D

abnormal neurophysiology | third instar larval stage

Cln7^84D

Phenotype manifest in

Allele

embryonic/larval neuromuscular junction | third instar larval stage

Cln7^84D

muscle cell of A1-7 lateral longitudinal muscle 1 | third instar larval stage

muscle cell of A1-7 lateral longitudinal muscle 1 | third instar larval stage, with Scer\GAL4^Mef2.PR

Cln7^HMC03819

muscle cell of A1-7 lateral longitudinal muscle 1 | third instar larval stage (with Cln7^36H)

Cln7^84D

muscle cell of A1-7 lateral longitudinal muscle 1 | third instar larval stage (with Cln7^84D)

Cln7^36H

NMJ bouton | third instar larval stage

Cln7^84D

NMJ bouton | third instar larval stage, with Scer\GAL4^Mef2.PR

Cln7^HMC03819

presynaptic active zone | third instar larval stage

presynaptic active zone | third instar larval stage (with Cln7^36H)

Cln7^84D

presynaptic active zone | third instar larval stage (with Cln7^84D)

Cln7^36H

type I bouton | third instar larval stage

type I bouton | third instar larval stage (with Cln7^36H)

Cln7^84D

type I bouton | third instar larval stage (with Cln7^84D)

Cln7^36H

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) (6)

Hsap\MFSD8

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (6)

Rnor\Mfsd8

11 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (5)

Mmus\Mfsd8

12 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (6)

Xtro\mfsd8

7 of 13

Yes

Xtro\XB5954440

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (10)

Drer\mfsd8

12 of 14

Yes

Drer\mfsd8l1

3 of 14

Yes

Drer\mfsd8l2

2 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (20)

Cele\F27D9.2

14 of 14

Yes

Cele\mfsd-8

13 of 14

Yes

Cele\T28C12.1

13 of 14

Yes

Cele\T28C12.2

13 of 14

Yes

Cele\W01B6.3

13 of 14

Yes

Cele\W05E10.1

13 of 14

Yes

Cele\F14D7.6

12 of 14

Yes

Cele\ZK550.2

12 of 14

Yes

Cele\F57A8.7

10 of 14

Yes

Cele\W03C9.6

8 of 14

Yes

Cele\C25E10.4

7 of 14

Yes

Cele\C25E10.5

7 of 14

Yes

Cele\srsx-34

7 of 14

Yes

Cele\F52F10.2

6 of 14

Yes

Cele\F58G11.4

6 of 14

Yes

Cele\C53B4.3

1 of 14

Cele\mfsd-10

1 of 14

Cele\samt-1

1 of 14

Yes

Cele\T25D3.4

1 of 14

Cele\unc-17

1 of 14

Anopheles gambiae (African malaria mosquito) (8)

Agam\AgaP_AGAP012381

12 of 12

Yes

Agam\AgaP_AGAP012382

7 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (9)

Atha\AT1G63010

3 of 13

Yes

Atha\AT4G11810

3 of 13

Yes

Atha\AT4G22990

3 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (15)

Scer\AQR1

1 of 13

Yes

Scer\ARN1

1 of 13

Yes

Scer\ARN2

1 of 13

Yes

Scer\ATR1

1 of 13

Yes

Scer\ATR2

1 of 13

Yes

Scer\AZR1

1 of 13

Yes

Scer\GEX1

1 of 13

Yes

Scer\GEX2

1 of 13

Yes

Scer\QDR1

1 of 13

Yes

Scer\QDR2

1 of 13

Yes

Scer\SGE1

1 of 13

Yes

Scer\SIT1

1 of 13

Yes

Scer\TPO1

1 of 13

Yes

Scer\VBA3

1 of 13

Yes

Scer\VBA5

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (6)

Spom\SPCC330.07c

2 of 12

Yes

Spom\SPAC3H1.06c

1 of 12

Yes

Spom\SPAC1399.02

1 of 12

Yes

Spom\SPCC613.01

1 of 12

Yes

Spom\SPCC613.02

1 of 12

Yes

Spom\SPCC757.11c

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Cln7. 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) (8)

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

neuronal ceroid lipofuscinosis 7

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 2 )

Allele

Disease

Evidence

References

Cln7^HMC03819

model of neuronal ceroid lipofuscinosis 7

CEA

(Connolly et al., 2019)

Cln7^84D

model of neuronal ceroid lipofuscinosis 7

CEA

(Connolly et al., 2019)

Potential Models Based on Orthology ( 1 )

Human Ortholog

Disease

Evidence

References

MFSD8; major facilitator superfamily domain containing 8

model of neuronal ceroid lipofuscinosis 7

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 1 )

Allele

Disease

Interaction

References

Cln7^84D

model of neuronal ceroid lipofuscinosis 7

is exacerbated by rictor^Δ42

(Connolly et al., 2019)

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?

MFSD8; major facilitator superfamily domain containing 8

13 of 14

611124

neuronal ceroid lipofuscinosis 7

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)

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Cln7 - Rheb

anti tag coimmunoprecipitation, anti tag western blot

(Connolly et al., 2019)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Cln7

suppressible

Dad

(Connolly et al., 2019)

Cln7

suppressible

rictor

(Connolly et al., 2019)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Dad

suppressible

Cln7

(Connolly et al., 2019)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

64253

DroID - A comprehensive database of gene and protein interactions.

FBgn0035767

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Lysosome

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-20

Cytogenetic map

65F5-65F5

Sequence location

3L:7,341,884..7,345,183 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

65F5-65F5

Limits computationally determined from genome sequence between P{EP}lark^EP3259&P{lacW}l(3)j1D5^j1D5 and P{PZ}l(3)07217⁰⁸²²³&P{EP}Rac2^EP3118

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-20

(FlyBase, 2016)

3-17.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (8)

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

Bloomington

61960

y¹ v¹; P{TRiP.HMJ23586}attP40

77001

y¹ sc^* v¹ sev²¹; P{TKO.GS00775}attP40

79442

y¹ sc^* v¹ sev²¹; P{TOE.GS01414}attP40

55664

y¹ sc^* v¹ sev²¹; P{TRiP.HMC03819}attP40

NIG-Fly

HMJ23586

y¹ v¹; P{TRiP.HMJ23586}attP40/CyO

VDRC

v109291

P{KK101535}VIE-260B

v5090

w¹¹¹⁸; P{GD2346}v5090

v318688

PBac{fTRG00845.sfGFP-TVPTBF}VK00002

Genomic Clones (16)

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

cDNA Clones (17)

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

GH22722

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.

FBgn0035767

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0035767

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

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Cln7 CG8596

(Mohammed et al., 2017)

Nomenclature comments

Etymology

Named 'Cln7' after the human ortholog.

(Mohammed et al., 2017)

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG8596

(Hagen et al., 2021, Denecke et al., 2020, Mohammed et al., 2017, Perland et al., 2017, Transgenic RNAi Project members, 2017-, Sarov et al., 2016, Hosono et al., 2015, DeSalvo et al., 2014, Jones et al., 2014, Japanese National Institute of Genetics, 2012.5.21, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Perkins et al., 2009, Adryan et al., 2007)

CLN7

(Mohammed et al., 2017)

Cln7

(Ceder et al., 2020)

cln7

(Jones et al., 2014)

Name Synonyms

Cln7

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 41 )

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.

38813

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.

Q9VS51

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

Q9VS51

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.

Q9VS51

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0035767

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

38813/tissue=All

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

FBgn0035767

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

FBgn0035767

FlyMine - An integrated database for Drosophila genomics

FBgn0035767

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

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

dme:Dmel_CG8596

MARRVEL_MODEL - MARRVEL (model organism gene)

38813

Linkouts

BioGRID - A database of protein and genetic interactions.

64253

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

FBgn0035767

DroID - A comprehensive database of gene and protein interactions.

FBgn0035767

DRSC - Results frm RNAi screens

FBgn0035767

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0035767

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0035767

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

CG8596

Flygut - An atlas of the Drosophila adult midgut

FBgn0035767

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

TC010995

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Lysosome

References (37)

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

-0.04

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