FlyBase Gene Report: Dmel\Claspin

General Information

Symbol

Dmel\Claspin

Species

D. melanogaster

Name

Claspin

Annotation Symbol

CG32251

Feature Type

protein_coding_gene

FlyBase ID

FBgn0052251

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Claspin (Claspin) encodes a nuclear protein that is involved in the ATR-Chk1 checkpoint pathway. It is required for the cell cycle checkpoint induced at midblastula transition. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
UniProtKB
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

64B1-64B1

Sequence location

3L:4,313,483..4,318,608 [+]

Recombination map

3-12

RefSeq locus

NT_037436 REGION:4313483..4318608

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 (4 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 anaphase-promoting complex binding

inferred from biological aspect of ancestor with PANTHER:PTN001801959

(GO Reference Genome Project, 2011-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in mitotic DNA replication checkpoint signaling

inferred from mutant phenotype

(Lee et al., 2012)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in mitotic DNA replication checkpoint signaling

inferred from biological aspect of ancestor with PANTHER:PTN001801959

(GO Reference Genome Project, 2011-)

involved_in mitotic G2 DNA damage checkpoint signaling

inferred from biological aspect of ancestor with PANTHER:PTN001801959

(GO Reference Genome Project, 2011-)

Cellular Component (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Lee et al., 2012)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the claspin family. (Q8IRB5)

Protein Signatures (InterPro)

Claspin

Summaries

Gene Snapshot

Protein Function (UniProtKB)

Required for checkpoint signaling in response to DNA replication stress; either resulting from normal embryogenesis or induced by the DNA synthesis inhibitor hydroxyurea (HU). It is not required for the G2 arrest resulting from DNA double strand breaks induced by ionizing irradiation (IR). Necessary for the timely phosphorylation of Cdk1 at the mid-blastula transition. May have a minor role in maintaining genomic stability in mitotic cells.

(UniProt, Q8IRB5)

Summary (Interactive Fly)

ATR-Chk1 checkpoint pathway - required for the cell cycle checkpoint induced at midblastula transition - required for initiation and efficient progression of the replication forks during DNA replication

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Claspin 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 Q8IRB5)

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 5.46

Gene model reviewed during 5.56

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Claspin-RA

FBtr0073286

NM_168080

4644

1465

Claspin-RB

FBtr0346538

NM_001300005

4779

1465

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

Claspin-PA

FBpp0073142

165.3

1465

4.42

FBpp0312156

165.3

1465

4.42

Q8IRB5

NP_001286934

AHN57959

Polypeptides with Identical Sequences

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

1465 aa isoforms: Claspin-PA, Claspin-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Post Translational Modification

Phosphorylated in response to DNA damage by IR and HU treatment. Phosphorylation does not require mei-41 or tefu.

(UniProt, Q8IRB5)

Crossreferences

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

Claspin

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q8IRB5

Mapped Features

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

External Data

Crossreferences

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

Claspin_1

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).

-0.37

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4

organism

(Lee et al., 2012)

third instar larval stage

eye disc

(Lee et al., 2012)

western blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 15

organism

(Lee et al., 2012)

third instar larval stage -- pupal stage

(Lee et al., 2012)

(Lee et al., 2012)

(Lee et al., 2012)

Additional Descriptive Data

Claspin protein is strongly expressed for the first 6 hours of embryonic development, and weakly expressed at 6-12 hours of development. Expression can also be weakly detected by western blot in late third instar larvae, in pupae, and in female adults, and strongly detected in ovaries. Claspin protein is detected in the nucleus in syncytial embryos during S-phase, but is undetectable during M-phase. Claspin protein is expressed in the third instar eye disc, but is undetectable at the morphogenetic furrow, where cells are arrested in G1 phase.

(Lee et al., 2012)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Lee et al., 2012)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Claspin in JBrowse

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

View exonic expression by developmental stage for Dmel\Claspin

View exonic expression by tissue for Dmel\Claspin

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

326205/tissue=All

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

FBgn0052251

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052251

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

FBgn0052251

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

CG32251

Flygut - An atlas of the Drosophila adult midgut

FBgn0052251

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 ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Claspin

Transgenic constructs containing regulatory region of Claspin

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Exel8098

(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.

Lethality

Allele

lethal - all die during embryonic stage | maternal effect

lethal - all die during embryonic stage | maternal effect (with Df(3L)Exel8098)

Claspin⁴⁵

partially lethal - majority die | maternal effect

Claspin^aq4

viable

Claspin^EY11302

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

Claspin^GD10835

viable, with Scer\GAL4^Mef2.PR

Claspin^GD10835

viable, with Scer\GAL4^pnr-MD237

Claspin^GD10835

viable, with Scer\GAL4^tin.CΔ4

Claspin^GD10835

Sterility

Allele

fertile

Claspin^EY11302

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage | conditional, with Scer\GAL4^19-12

chemical sensitive

chemical sensitive (with Df(3L)Exel8098)

Claspin⁴⁵

some die during embryonic stage | maternal effect

some die during embryonic stage | maternal effect (with Df(3L)Exel8098)

Claspin⁴⁵

Phenotype manifest in

Allele

axon | larval stage | conditional, with Scer\GAL4^19-12

larval multidendritic class III neuron | conditional, with Scer\GAL4^19-12

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) (1)

Hsap\CLSPN

11 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) (1)

Rnor\Clspn

9 of 14

Yes

Mus musculus (laboratory mouse) (1)

Mmus\Clspn

9 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\clspn

6 of 13

Yes

Xtro\fbxo15

1 of 13

Yes

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\clsp-1

3 of 14

Yes

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP002476

9 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\mrc1

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Claspin. 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) (0)

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?

CLSPN; claspin

11 of 14

605434

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

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

Claspin - S6kII

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Claspin - Tsc1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Claspin - foxo

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Claspin - rictor

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Summary of Genetic Interactions

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Rpp30

suppressible

Claspin

(Molla-Herman et al., 2015)

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0052251

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

326205

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-12

Cytogenetic map

64B1-64B1

Sequence location

3L:4,313,483..4,318,608 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

64B1-64B1

Limits computationally determined from genome sequence between P{PZ}l(3)rG166^rG166 and P{PZ}sinu⁰⁶⁵²⁴

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-12

(FlyBase, 2016)

3-9.5

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

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

Bloomington

20287

y¹ w^67c23; P{EPgy2}Claspin^EY11302

32974

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00772}attP2

NIG-Fly

32251R-2

P{NIG.32251R}2

HMJ22038

y¹ v¹; P{TRiP.HMJ22038}attP40/CyO

HMS00772

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00772}attP2

VDRC

v34476

w¹¹¹⁸; P{GD10835}v34476/TM3

v34477

w¹¹¹⁸; P{GD10835}v34477/CyO

Genomic Clones (15)

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

cDNA Clones (24)

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

SD12335

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.

FBgn0052251

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0052251

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Lee et al., 2012)

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

Annotation CG1326 split into CG32250 and CG32251 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Nomenclature History

Source for database identify of

Source for identity of: Claspin CG32251

(Lee et al., 2012)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG1326

(Meng et al., 2011, Ashburner, 2000.4.15)

CG32251

(National Institute of Genetics Fly Stocks, 2023-, McEachern et al., 2014, Japanese National Institute of Genetics, 2012.5.21, Lee et al., 2012, Friedman et al., 2011, Meng et al., 2011, Ni et al., 2010.12.1)

Claspin

(Vesala et al., 2024, Kizhedathu et al., 2021, Williams et al., 2020, Ariss et al., 2018, Sopko et al., 2015, Chen et al., 2014)

claspin

(Molla-Herman et al., 2015)

Name Synonyms

Claspin

(Rawal et al., 2024, Ko et al., 2023, Adashev et al., 2022, Beaver et al., 2022, Choi et al., 2014, McEachern et al., 2014, Lee et al., 2012, Meng et al., 2011)

Secondary FlyBase IDs

FBgn0035531

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 35 )

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.

326205

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.

Q8IRB5

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

Q8IRB5

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.

Q8IRB5

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

326205/tissue=All

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

FBgn0052251

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

FBgn0052251

FlyMine - An integrated database for Drosophila genomics

FBgn0052251

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

Claspin

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

dme:Dmel_CG32251

MARRVEL_MODEL - MARRVEL (model organism gene)

326205

Linkouts

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

FBgn0052251

DroID - A comprehensive database of gene and protein interactions.

FBgn0052251

DRSC - Results frm RNAi screens

FBgn0052251

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

Claspin_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052251

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0052251

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

CG32251

Flygut - An atlas of the Drosophila adult midgut

FBgn0052251

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0052251

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

TC008964

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

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

326205

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

References (46)

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

-0.37

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