FlyBase Gene Report: Dmel\CG13102

General Information

Symbol

Dmel\CG13102

Species

D. melanogaster

Name

Annotation Symbol

CG13102

Feature Type

protein_coding_gene

FlyBase ID

FBgn0032088

Gene Model Status

Current

Stock Availability

10 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

29F7-29F7

Sequence location

2L:9,012,188..9,014,149 [+]

Recombination map

2-34

RefSeq locus

NT_033779 REGION:9012188..9014149

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 (0 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG13102 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 Q8MT42)

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

Antisense UTR: A well-supported alternative transcript of this gene includes an extended 3' UTR that completely overlaps and is antisense to Rcd-1r on the opposite strand.

Gene model reviewed during 5.41

Gene model reviewed during 5.51

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG13102-RA

FBtr0079766

NM_135424

576

150

CG13102-RB

FBtr0309842

NM_001259019

1835

150

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

CG13102-PA

FBpp0079367

16.3

150

8.74

FBpp0301576

16.3

150

8.74

Q8MT42

NP_001245948

AFH03622

Polypeptides with Identical Sequences

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

150 aa isoforms: CG13102-PA, CG13102-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q8MT42

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG13102 using the Feature Mapper tool.

External Data

Crossreferences

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

CG13102_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).

0.11

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 13 -- 16

embryonic midgut chamber

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

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\CG13102 in JBrowse

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

View exonic expression by developmental stage for Dmel\CG13102

View exonic expression by tissue for Dmel\CG13102

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

FBgn0032088

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

34228/tissue=All

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

FBgn0032088

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0032088

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

FBgn0032088

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

CG13102

Flygut - An atlas of the Drosophila adult midgut

FBgn0032088

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\CG13102

Stages(s) 13-16

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 ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG13102

Transgenic constructs containing regulatory region of CG13102

Aberrations (Deficiencies and Duplications) ( 2 )

Inferred from experimentation ( 2 )

Gene disrupted in

Df(2L)Exel6021

(Ryder, 2004.4.26)

Gene partially disrupted in

Df(2L)CRIMIC-CR71464

(Gene Disruption Project members, 2018-)

Inferred from location ( 6 )

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

CG13102^GD4754

viable, with Scer\GAL4^Mef2.PR

viable, with Scer\GAL4^pnr-MD237

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) (3)

Hsap\LY6L

1 of 14

Yes

Hsap\LYPD2

1 of 14

Yes

Hsap\SLURP1

1 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) (6)

Rnor\Ly6al

1 of 14

Yes

Rnor\Ly6c

1 of 14

Yes

Rnor\Ly6l

1 of 14

Yes

Rnor\Lypd2

1 of 14

Yes

Rnor\RGD1565410

1 of 14

Yes

Rnor\Slurp1

1 of 14

Yes

Mus musculus (laboratory mouse) (6)

Mmus\Ly6f

1 of 14

Yes

Mmus\Ly6g

1 of 14

Yes

Mmus\Ly6i

1 of 14

Yes

Mmus\Ly6l

1 of 14

Yes

Mmus\Lypd2

1 of 14

Yes

Mmus\Slurp1

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (6)

Xtro\LOC100492415

1 of 13

Yes

Xtro\LOC100493464

1 of 13

Yes

Xtro\XB5745512

1 of 13

Yes

Xtro\XB5836725

1 of 13

Yes

Xtro\XB5856846

1 of 13

Yes

Xtro\XB5967085

1 of 13

Yes

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\tag-234

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP001181

2 of 12

Yes

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:CG13102. 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) (1)

CG9568

5 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

DroID - A comprehensive database of gene and protein interactions.

FBgn0032088

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

2-34

Cytogenetic map

29F7-29F7

Sequence location

2L:9,012,188..9,014,149 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

29F7-29F7

Limits computationally determined from genome sequence between P{lacW}l(2)k04003^k04003 and P{PZ}tai⁰¹³⁵¹

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-34

(FlyBase, 2016)

2-29.7

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (10)

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

Bloomington

19708

y¹ w^67c23; P{EPgy2}CG13102^EY05403

36151

y¹ w^*; Mi{MIC}CG13102^MI02851 Rcd-1r^MI02851

11773

P{PZ}Rcd-1r⁰⁷⁷¹⁷ CG13102⁰⁷⁷¹⁷ cn¹/CyO; ry⁵⁰⁶

NIG-Fly

M2L-1785

y¹ w¹¹¹⁸; CG13102^SK4 P{neoFRT}40A/CyO-Tb

M2L-1786

y¹ w¹¹¹⁸; CG13102^SK8 P{neoFRT}40A/CyO-Tb

2LG-1415

y² VhaAC39-1^cho-1 v¹; P{U6-CG13102.NIG.sgRNA}attP40/CyO

VDRC

v102355

P{KK111542}VIE-260B

v49821

w¹¹¹⁸ P{GD17713}v49821

v46952

w¹¹¹⁸; P{GD17249}v46952

v49820

w¹¹¹⁸; P{GD17713}v49820

Genomic Clones (18)

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

cDNA Clones (10)

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

RE57454

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.

FBgn0032088

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RE69422

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0032088

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

Source for merge of: CG13102 BcDNA:RE57454

(FlyBase, 1996-)

Additional comments

"ms(2)29F" probably corresponds to one or both of "CG13102" and "CG9573"; the P{PZ}ms(2)29F⁰⁷⁷¹⁷ insertion maps within both "CG13102" and "CG9573" (overlapping genes on opposite strands).

(FlyBase, 1996-)

Source for merge of CG13102 BcDNA:RE57454 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (2)

Reported As

Symbol Synonym

BcDNA:RE57454

CG13102

(National Institute of Genetics Fly Stocks, 2022-, Chen et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Nilton et al., 2010, Quezada-Díaz et al., 2010, Wendler et al., 2010, Hijazi et al., 2009, Keleman et al., 2009.8.5)

Name Synonyms

Secondary FlyBase IDs

FBgn0062998

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 28 )

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.

34228

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.

Q8MT42

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

Q8MT42

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.

Q8MT42

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0032088

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

34228/tissue=All

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

FBgn0032088

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

FBgn0032088

FlyMine - An integrated database for Drosophila genomics

FBgn0032088

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

dme:Dmel_CG13102

MARRVEL_MODEL - MARRVEL (model organism gene)

34228

Linkouts

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

FBgn0032088

DroID - A comprehensive database of gene and protein interactions.

FBgn0032088

DRSC - Results frm RNAi screens

FBgn0032088

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

CG13102_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0032088

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0032088

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

CG13102

Flygut - An atlas of the Drosophila adult midgut

FBgn0032088

References (25)

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

0.11

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