FlyBase Gene Report: Dmel\Sec13

General Information

Symbol

Dmel\Sec13

Species

D. melanogaster

Name

Secretory 13

Annotation Symbol

CG6773

Feature Type

protein_coding_gene

FlyBase ID

FBgn0024509

Gene Model Status

Current

Stock Availability

8 publicly available

Gene Summary

Functions as a component of the nuclear pore complex (NPC) and the COPII coat (By similarity). At the endoplasmic reticulum, SEC13 is involved in the biogenesis of COPII-coated vesicles (By similarity). Recruited to transcriptionally active chromatin at the time of transcription initiation by RNA polymerase II (PubMed:20144761). Required for proper expression of ecdysone-responsive genes such as Eip74EF and Eip75B during larval development (PubMed:20144761). Required for reactivation of transcription after heat shock (PubMed:20144761). Required for nuclear import of phosphorylated Mad via importin msk (PubMed:20547758). Has no role in classical nuclear localization signal (cNLS)-dependent nuclear import via importin-beta (PubMed:20547758). A component of the GATOR subcomplex GATOR2 which functions as an activator of the amino acid-sensing branch of the TORC1 signaling pathway (PubMed:27166823). The two GATOR subcomplexes, GATOR1 and GATOR2, regulate the TORC1 pathway in order to mediate metabolic homeostasis, female gametogenesis and the response to amino acid limitation and complete starvation (PubMed:27166823). GATOR2 activates the TORC1 signaling pathway through the inhibition of the GATOR1 subcomplex, controlling the switch to cell proliferation and growth under nutrient replete conditions and during female oocyte development (PubMed:27166823). (UniProt, Q9V3J4)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

l(3)01031

Key Links

Genomic Location

Cytogenetic map

94E13-94E13

Sequence location

3R:23,356,278..23,358,531 [+]

Recombination map

3-78

RefSeq locus

NT_033777 REGION:23356278..23358531

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 (20 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables chromatin binding

inferred from direct assay

(Capelson et al., 2010)

inferred from mutant phenotype

(Capelson et al., 2010)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables structural molecule activity

inferred from biological aspect of ancestor with PANTHER:PTN000111812

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with SGD:S000004198

(Gene Ontology Curators, 2002-)

inferred from electronic annotation with InterPro:IPR037363

(InterPro Project Members, 2004-)

Biological Process (11 terms)

Terms Based on Experimental Evidence (8 terms)

CV Term

Evidence

References

involved_in cellular response to heat

inferred from mutant phenotype

(Capelson et al., 2010)

involved_in chitin-based larval cuticle pattern formation

inferred from mutant phenotype

(Abrams and Andrew, 2005)

involved_in ecdysone-mediated polytene chromosome puffing

inferred from direct assay

(Capelson et al., 2010)

involved_in larval chitin-based cuticle development

inferred from mutant phenotype

(Abrams and Andrew, 2005)

involved_in positive regulation of transcription by RNA polymerase II

inferred from mutant phenotype

(Capelson et al., 2010)

involved_in positive regulation of transcription initiation by RNA polymerase II

inferred from mutant phenotype

(Capelson et al., 2010)

involved_in protein import into nucleus

inferred from mutant phenotype

(Chen and Xu, 2010)

NOT involved_in NLS-bearing protein import into nucleus

inferred from mutant phenotype

(Chen and Xu, 2010)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

involved_in COPII-coated vesicle budding

inferred from biological aspect of ancestor with PANTHER:PTN000111812

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with SGD:S000004198

(Gene Ontology Curators, 2002-)

involved_in positive regulation of TOR signaling

inferred from biological aspect of ancestor with PANTHER:PTN000111813

(GO Reference Genome Project, 2011-)

involved_in protein exit from endoplasmic reticulum

inferred from biological aspect of ancestor with PANTHER:PTN000111813

(GO Reference Genome Project, 2011-)

involved_in protein import into nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000111812

(GO Reference Genome Project, 2011-)

Cellular Component (7 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

part_of chromatin

inferred from direct assay

(Capelson et al., 2010)

inferred from mutant phenotype

(Capelson et al., 2010)

located_in nucleoplasm

inferred from direct assay

(Capelson et al., 2010)

located_in polytene chromosome puff

inferred from direct assay

(Capelson et al., 2010)

part_of Seh1-associated complex

inferred from direct assay

(Cai et al., 2016)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

part_of COPII vesicle coat

inferred from biological aspect of ancestor with PANTHER:PTN000111812

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with SGD:S000004198

(Gene Ontology Curators, 2002-)

part_of GATOR2 complex

traceable author statement

(Cai et al., 2016)

part_of nuclear pore outer ring

inferred from biological aspect of ancestor with PANTHER:PTN000111811

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with HGNC:10697

(Gene Ontology Curators, 2002-)

part_of Seh1-associated complex

inferred from sequence or structural similarity with SGD:S000004198

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

COAT PROTEIN COMPLEX II

NUCLEAR PORE COMPLEX

GATOR2 COMPLEX

Protein Family (UniProt)

Belongs to the WD repeat SEC13 family. (Q9V3J4)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

COAT PROTEIN COMPLEX II -: The Coat Protein Complex II (COPII) mediates protein transport from the ER to Golgi (anterograde transport). COPII recruitment is initiated by the activation of the small GTPase Sar1. Sar1 recruits a heterodimeric complex comprising of Sec23/24, which interacts with cargo and the outer cage - a heterotetramer composed of Sec13/31. (Adapted from PMID:18060556).
NUCLEAR PORE COMPLEX -: The Nuclear Pore Complex (NPC) is a large protein complex embedded in the nuclear membrane that facilitates nucleocytoplasmic traffic. The NPC is composed of approximately 30 different proteins: the nucleoporins. The NPC displays 8-fold symmetry and each nucleoporin is present in multiple copies. From the central ring that forms the pore, filaments protrude into the cytoplasm (cytoplasmic filaments) and the nucleoplasm (nuclear basket). Many nucleoporins contain FG repeats which are thought to act as a diffusion barrier and docking sight for transport receptors (karyopherins). Export and import is controlled by the interaction of the karyopherins with localization and export sequences. (Adapted from FBrf0220062 and PMID:21495847).
GATOR2 COMPLEX -: GATOR2 is a subcomplex of the GATOR or SEA complex. It suppresses the Rag GTPase activating protein activity of the GATOR1 subcomplex, promoting TORC1 activity. (Adapted from FBrf0232362 and PMID:25934700).

Protein Function (UniProtKB)

(UniProt, Q9V3J4)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Sec13 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 Q9V3J4)

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

Gene model reviewed during 5.46

Gene model reviewed during 5.56

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Sec13-RA

FBtr0084409

NM_143720

1343

356

Sec13-RB

FBtr0346160

NM_001300551

1809

356

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

Sec13-PA

FBpp0083801

39.5

356

6.22

FBpp0311988

39.5

356

6.22

Q9V3J4

NP_001287480

AHN57479

Polypeptides with Identical Sequences

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

356 aa isoforms: Sec13-PA, Sec13-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Probable component of the nuclear pore complex (NPC) (By similarity). Component of the GATOR complex consisting of mio, Nup44A/Seh1, Im11, Nplr3, Nplr2, Wdr24, Wdr59 and Sec13 (PubMed:27166823). Within the GATOR complex, probable component of the GATOR2 subcomplex which is likely composed of mio, Nup44A/Seh1, Wdr24, Wdr59 and Sec13 (PubMed:27166823). Interacts with msk (PubMed:20547758). Interacts (preferentially when phosphorylated) with Mad (PubMed:20547758).

(UniProt, Q9V3J4)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q9V3J4

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Sec13 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).

1.03

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

anterior endoderm anlage

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

embryonic stage 9 -- 10

anterior endoderm

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

embryonic stage 11

salivary gland body primordium

(Abrams and Andrew, 2005)

embryonic stage 11 -- 12

anterior midgut primordium

(Fisher et al., 2012)

central brain primordium

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 14

presumptive embryonic salivary gland

(Abrams and Andrew, 2005)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

larval ventral nerve cord

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

salivary gland body primordium

(Abrams and Andrew, 2005)

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

day 7 of adulthood -- day 49 of adulthood

adult heart

(Cammarato et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of chromatin

inferred from direct assay

(Capelson et al., 2010)

inferred from mutant phenotype

(Capelson et al., 2010)

located_in nucleoplasm

inferred from direct assay

(Capelson et al., 2010)

located_in polytene chromosome puff

inferred from direct assay

(Capelson et al., 2010)

part_of Seh1-associated complex

inferred from direct assay

(Cai et al., 2016)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Sec13 in JBrowse

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

View exonic expression by developmental stage for Dmel\Sec13

View exonic expression by tissue for Dmel\Sec13

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

FBgn0024509

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

44437/tissue=All

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

FBgn0024509

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0024509

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

FBgn0024509

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

CG6773

Flygut - An atlas of the Drosophila adult midgut

FBgn0024509

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Sec13

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12

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 ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Sec13

Transgenic constructs containing regulatory region of Sec13

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

lethal | recessive

Sec13⁰¹⁰³¹

viable, with Scer\GAL4^tin.CΔ4

Sec13^GD12035

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) (10)

Hsap\SEC13

14 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Hsap\TBL1Y

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) (7)

Rnor\Sec13

14 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mus musculus (laboratory mouse) (6)

Mmus\Sec13

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (9)

Xtro\sec13

7 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\taf5

1 of 13

Danio rerio (Zebrafish) (5)

Drer\sec13

14 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (5)

Cele\npp-20

12 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (7)

Agam\AgaP_AGAP003183

12 of 12

Yes

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (5)

Atha\AT2G30050

12 of 13

Yes

Atha\AT3G01340

12 of 13

Yes

Atha\SEH1H

2 of 13

Atha\AT4G32990

1 of 13

Atha\emb1345

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (6)

Scer\SEC13

12 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\sec13

11 of 12

Yes

Spom\seh1

1 of 12

Spom\SPAC806.02c

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Sec13. 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) (6)

Nup44A

4 of 13

CG7568

1 of 13

Ciao1

1 of 13

ebi

1 of 13

Lis-1

1 of 13

Taf5

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 1 )

Allele

Disease

Evidence

References

Sec13^KK101653

model of candidiasis

CEA

(Glittenberg et al., 2022)

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?

SEC13; SEC13 homolog, nuclear pore and COPII coat complex component

14 of 14

600152

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)

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

MIST Molecular Interaction Search Tool

View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

RNA-protein

Physical Interaction

Assay

References

Sec13 - tral

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Wilhelm et al., 2005)

protein-protein

Physical Interaction

Assay

References

Sec13 - Bap60

anti bait coimmunoprecipitation, western blot

(Kuhn et al., 2019)

Sec13 - CG1416

experimental knowledge based

(Guruharsha et al., 2011)

Sec13 - Dsor1

anti tag coimmunoprecipitation, peptide massfingerprinting

(Friedman et al., 2011)

Sec13 - Ldh

experimental knowledge based

(Guruharsha et al., 2011)

Sec13 - Mad

anti tag coimmunoprecipitation, anti tag western blot, pull down, western blot

(Chen and Xu, 2010)

Sec13 - Mcad

experimental knowledge based

(Guruharsha et al., 2011)

Sec13 - ScsβG

experimental knowledge based

(Guruharsha et al., 2011)

Sec13 - Tspo

experimental knowledge based

(Guruharsha et al., 2011)

Sec13 - brm

anti bait coimmunoprecipitation, western blot

(Kuhn et al., 2019)

Sec13 - ft

anti tag coimmunoprecipitation, anti tag western blot, peptide massfingerprinting

(Kwon et al., 2013, Kwon et al., 2013)

Sec13 - mio

anti tag coimmunoprecipitation, peptide massfingerprinting

(Cai et al., 2016)

Sec13 - msk

anti tag coimmunoprecipitation, anti tag western blot, pull down, western blot

(Chen and Xu, 2010)

Sec13 - polybromo

anti bait coimmunoprecipitation, western blot

(Kuhn et al., 2019)

Sec13 - wal

experimental knowledge based

(Guruharsha et al., 2011)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

View in 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

dpy

enhanceable

Sec13

(Kandasamy et al., 2021)

External Data

Subunit Structure (UniProtKB)

(UniProt, Q9V3J4 )

Linkouts

BioGRID - A database of protein and genetic interactions.

69060

DroID - A comprehensive database of gene and protein interactions.

FBgn0024509

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

44437

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.

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

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

Q7KLW8

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-78

Cytogenetic map

94E13-94E13

Sequence location

3R:23,356,278..23,358,531 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

94E13-94E13

Limits computationally determined from genome sequence between P{PZ}cnc⁰³⁹²¹ and P{PZ}l(3)06906⁰⁶⁹⁰⁶

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

94F1-94F2

(determined by in situ hybridisation)

(Spradling et al., 1999, BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

3-78

(FlyBase, 2016)

3-80.3

(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

92785

w¹¹¹⁸; P{UAS-lacI-Sec13-myc}6

92784

w¹¹¹⁸; P{UAS-lacI-Sec13-myc}1/TM3, Sb¹

32468

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00468}attP2

10327

ry⁵⁰⁶ P{PZ}Sec13⁰¹⁰³¹/TM3, ry^RK Sb¹ Ser¹

Kyoto

105039

y^* w^*; P{GawB}Sec13^NP5607

NIG-Fly

HMS00468

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00468}attP2

VDRC

v110428

P{KK101653}VIE-260B

v50367

w¹¹¹⁸; P{GD12035}v50367

Genomic Clones (16)

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

cDNA Clones (182)

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

LD03471

Other clones

DPiM_LD03471

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.

FBgn0024509

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0024509

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identification: cDNA screen for secreted and transmembrane proteins expressed during embryogenesis.

(Kopczynski et al., 1998)

Relationship to Other Genes

Source for database merge of

Source for merge of: sec13 l(3)01031

(Spradling et al., 1999)

Source for merge of: sec13 BcDNA:LD03471

(Misra, 2000.8.9)

Source for merge of: sec13 BEST:CK00043

(FlyBase, 1996-)

Additional comments

Source for merge of sec13 BEST:CK00043 was sequence comparison ( date:030820 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: Sec13 sec13

(FlyBase, 2009-)

Nomenclature comments

Etymology

Named "Sec13" after the S. cerevisiae ortholog.

(FlyBase, 2009-)

Synonyms and Secondary IDs (12)

Reported As

Symbol Synonym

BEST:CK00043

BcDNA:LD03471

CG6773

(Glittenberg et al., 2022, Cammarato et al., 2011, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Sabri et al., 2007, Dorer et al., 2006)

CK00043

(Kopczynski et al., 1998)

Dsec13

(Vazquez-Cuevas and Riesgo-Escovar, 2002)

GATOR2

(Lee et al., 2020)

SEC13

(Raices and D'Angelo, 2012, Dorer et al., 2006)

Sec13

(McQuarrie et al., 2023, Yang et al., 2021, Kuhn et al., 2019, Hirai et al., 2018, Chung et al., 2017, Cai et al., 2016, DeBruhl et al., 2016, Nguyen et al., 2016, Kim et al., 2015, Gonzalez et al., 2014, Katsani et al., 2014, Kwon et al., 2013, Aikin et al., 2012, Verma et al., 2012, Capelson et al., 2010, Chen and Xu, 2010, Neumann et al., 2010, Costello et al., 2009)

l(3)01031

(Beaton, 2000.1.31, Spradling et al., 1999, BDGP Project Members, 1994-1999)

sec13

(Kandasamy et al., 2021, Dent et al., 2015, Luck et al., 2014, Iyer et al., 2013, Kwon et al., 2013, Kwon et al., 2013, Neumüller et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Malone et al., 2012, Friedman et al., 2011, Chen and Xu, 2010, Fox et al., 2010, Salzer et al., 2010, Guo et al., 2008, Weake et al., 2008, Tsarouhas et al., 2007, Wilhelm, 2007, Anderson et al., 2006, Wilhelm et al., 2005)

Name Synonyms

Sec13 ortholog

Secretory 13

sec13

(Cammarato et al., 2011)

Secondary FlyBase IDs

FBgn0025715
FBgn0027897

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 56 )

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.

44437

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.

Q9V3J4

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

Q9V3J4

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.

Q9V3J4

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0024509

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

44437/tissue=All

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

FBgn0024509

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

FBgn0024509

FlyMine - An integrated database for Drosophila genomics

FBgn0024509

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

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

dme:Dmel_CG6773

MARRVEL_MODEL - MARRVEL (model organism gene)

44437

Linkouts

BioGRID - A database of protein and genetic interactions.

69060

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

FBgn0024509

DroID - A comprehensive database of gene and protein interactions.

FBgn0024509

DRSC - Results frm RNAi screens

FBgn0024509

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0024509

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0024509

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

CG6773

Flygut - An atlas of the Drosophila adult midgut

FBgn0024509

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

FBgn0024509

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

TC009207

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

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

44437

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

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

Q7KLW8

References (78)

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

1.03

Report Sections