FlyBase Gene Report: Dmel\cbs

GOLGINS -: Golgins are long, parallel coiled-coil homodimers important in regulating vesicle mediated transport and Golgi architecture. They are anchored to specific sites on the Golgi complex surface either by a C-terminal transmembrane domain or interacting with Arf/Arf-like GTPases via a GRIP/GRAB domain. Golgins are thought to act as tethering factors, interacting with vesicles by binding Rab GTPases and guiding them to the correct Golgi cisternae. (Adapted from PMID:21436057).

Summary (Interactive Fly)

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\cbs or the JBrowse view of Dmel\cbs 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

Comments on Gene Model

Gene model reviewed during 5.41

Gene model reviewed during 5.49

Sequence Ontology: Class of Gene

gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

cbs-RA

FBtr0087666

NM_137031

2257

611

cbs-RB

FBtr0309886

NM_001259368

2233

603

cbs-RC

FBtr0309887

NM_001259369

2227

601

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

cbs-PA

FBpp0086786

70.8

611

4.97

NP_610875

AAF58374

cbs-PB

FBpp0301620

69.9

603

4.93

NP_001246297

AFH08051

cbs-PC

FBpp0301621

69.7

601

4.93

NP_001246298

AFH08052

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

GRIP domain

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

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

External Data

Crossreferences

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

cbs_1

Linkouts

Gene Ontology (10 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

ADP-ribosylation factor binding

inferred from physical interaction with FLYBASE:Arl1; FB:FBgn0000115

(Sinka et al., 2008)

Rab GTPase binding

inferred from physical interaction with FLYBASE:Rab19; FB:FBgn0015793, FLYBASE:Rab6; FB:FBgn0015797, FLYBASE:Rab30; FB:FBgn0031882

(Sinka et al., 2008)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

centrosome cycle

inferred from mutant phenotype

(Eisman et al., 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

Golgi vesicle transport

inferred by curator from GO:0000138,GO:0017137

(Sinka et al., 2008)

Cellular Component (6 terms)

Terms Based on Experimental Evidence (6 terms)

CV Term

Evidence

References

chromatin

inferred from direct assay

(Eisman et al., 2006)

cytoplasm

inferred from direct assay

(Eisman et al., 2006)

Golgi apparatus

inferred from direct assay

(Torres et al., 2014)

Golgi trans cisterna

inferred from direct assay

(Sinka et al., 2008)

perinuclear region of cytoplasm

inferred from direct assay

(Eisman et al., 2006)

spindle

inferred from direct assay

(Eisman et al., 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

Golgi apparatus

inferred from biological aspect of ancestor with PANTHER:PTN001504455

(assigned by GO_Central )

(Gaudet et al., 2011)

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

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

chromatin

inferred from direct assay

(Eisman et al., 2006)

cytoplasm

inferred from direct assay

(Eisman et al., 2006)

Golgi apparatus

inferred from direct assay

(Torres et al., 2014)

Golgi trans cisterna

inferred from direct assay

(Sinka et al., 2008)

perinuclear region of cytoplasm

inferred from direct assay

(Eisman et al., 2006)

spindle

inferred from direct assay

(Eisman et al., 2006)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\cbs 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\cbs

View exonic expression by tissue for Dmel\cbs

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

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0086757

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG4840-RA

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

CG4840

Flygut - An atlas of the Drosophila adult midgut

FBgn0086757

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 2 )

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 cbs

Transgenic constructs containing regulatory region of cbs

Deletions and Duplications ( 0 )

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal - all die before end of embryonic stage | partially, with Scer\GAL4^VP16.nos.UTR

cbs^{GRIP.UASp.GFP}

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

cbs^GD11443

viable, with Scer\GAL4^Mef2.PR

cbs^GD11443

viable, with Scer\GAL4^pnr-MD237

cbs^GD11443

viable, with Scer\GAL4^tin.CΔ4

cbs^GD11443

Other Phenotypes

Allele

mitotic cell cycle defective | embryonic stage, with Scer\GAL4^VP16.nos.UTR

cbs^{GRIP.UASp.GFP}

some die during embryonic stage | partially, with Scer\GAL4^VP16.nos.UTR

cbs^{GRIP.UASp.GFP}

Phenotype manifest in

Allele

centrosome, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

centrosome | embryonic stage 4, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

centrosome | embryonic stage 5, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

centrosome | supernumerary, with Scer\GAL4^VP16.nos.UTR

cbs^{GRIP.UASp.GFP}

embryo | embryonic stage 4, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

embryo | embryonic stage 5, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

nucleus | embryonic stage 4, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

nucleus | embryonic stage 5, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

spindle | embryonic stage 4, with Scer\GAL4^VP16.nos.UTR

cbs^{dsRNA.Sym.UAS}

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\GOLGA1

11 of 15

Yes

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Golga1

10 of 15

Yes

Rattus norvegicus (Norway rat) (1)

Rnor\Golga1

9 of 13

Yes

Xenopus tropicalis (Western clawed frog) (1)

Xtro\golga1

8 of 12

Yes

Danio rerio (Zebrafish) (2)

Drer\golga1

11 of 15

Yes

Drer\si:ch211-286b5.4

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (6)

Cele\dnc-2

1 of 15

Yes

Cele\gcc-2

1 of 15

Yes

Cele\T01C3.3

1 of 15

Yes

Cele\T01G5.7

1 of 15

Yes

Cele\Y45F10B.8

1 of 15

Yes

Cele\Y45F10B.9

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\AT5G44310

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\YGR130C

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\brl1

1 of 12

Yes

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091906GR )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\cbs

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA18469

Drosophila persimilis

Dper\GL17075

Drosophila willistoni

Dwil\GK10646

Drosophila virilis

Dvir\GJ21049

Drosophila mojavensis

Dmoj\GI20609

Drosophila grimshawi

Dgri\GH22681

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091506Z9 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17005287

Musca domestica

House fly

Mdoa\17004597

Glossina morsitans

Tsetse fly

Gmor\GMOY001496

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_09832

Mayetiola destructor

Hessian fly

Mdes\Mdes005821

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL000569

Anopheles darlingi

American malaria mosquito

Adar\ADAC010429

Anopheles gambiae

Malaria mosquito

Agam\AGAP001765

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ007301

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0G7C )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA005964

Bombyx mori

Silkmoth

Bmor\BGIBMGA005963

Danaus plexippus

Monarch butterfly

Dple\DPOGS214244-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS214243-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL012833

Apis florea

Little honeybee

Aflo\2615241076

Apis mellifera

Western honey bee

Amel\GB45976

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP10230

Bombus terrestris

Buff-tailed bumblebee

Bter\15212999

Linepithema humile

Argentine ant

Lhum\LH23907

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:0019b3

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG002607

Tribolium castaneum

Red flour beetle

Tcas\TC014288

Pediculus humanus

Human body louse

Phum\PHUM248480

Rhodnius prolixus

Kissing bug

Rpro\RPRC006630

Cimex lectularius

Bed bug

Clec\CLEC007054

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_16935

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0BS5 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR005233

Ixodes scapularis

Black-legged tick

Isca\ISCW017221

Tetranychus urticae

Two-spotted spider mite

Turt\tetur21g01000

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_108770

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G02ME )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Golga1L

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Golga1

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000014194

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000003260

Gallus gallus

Domestic chicken

Ggal\GOLGA1

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (1)

Gene Symbol

Score

Source

Alignment

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 v7.1 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?

GOLGA1; golgin A1

11 of 15

602502

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

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

cbs - Arl1

two hybrid, pull down, western blot

(Sinka et al., 2008)

cbs - Dsor1

experimental knowledge based

(Guruharsha et al., 2011)

cbs - Nepl3

experimental knowledge based

(Guruharsha et al., 2011)

cbs - Rab19

two hybrid, pull down, western blot

(Sinka et al., 2008)

cbs - Rab30

two hybrid, pull down, peptide massfingerprinting, western blot

(Gillingham et al., 2014, Sinka et al., 2008)

cbs - Rab6

pull down, western blot, two hybrid, peptide massfingerprinting

(Gillingham et al., 2014, Sinka et al., 2008)

cbs - TER94

experimental knowledge based

(Guruharsha et al., 2011)

cbs - drl

experimental knowledge based

(Guruharsha et al., 2011)

cbs - gkt

experimental knowledge based, inferred by curator

(Guruharsha et al., 2011)

cbs - jar

pull down, peptide massfingerprinting, anti tag western blot

(Finan et al., 2011)

cbs - vret

experimental knowledge based

(Guruharsha et al., 2011)

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.

62252

DroID - A comprehensive database of gene and protein interactions.

FBgn0086757

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

36492

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

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

Retrograde transport at the Trans-Golgi-Network

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-68

Cytogenetic map

50A9-50A9

Sequence location

2R:13,450,586..13,453,393 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

50A9-50A9

Limits computationally determined from genome sequence between P{EP}Dp^EP358 and P{lacW}drk^k13809&P{EP}mip120^EP606

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-68

(FlyBase, 2016)

2-72.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

cbs is very tightly linked to cnn.

(Megraw et al., 1999)

Stocks and Reagents

Stocks (3)

Bloomington

26992

y¹ w^*; P{EP}cbs^G2391

VDRC

v103509

P{KK112417}VIE-260B

v21959

w¹¹¹⁸; P{GD11443}v21959

Genomic Clones (22)

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

cDNA Clones (14)

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 sequences

BDGP DGC clones

LD35238

Other clones

DPiM_LD35238

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.

FBgn0086757

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0086757

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

36492

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Sinka et al., 2008)

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: cbs CG4840

(Eisman et al., 2006)

Additional comments

Other Comments

cbs protein undergoes a dramatic relocalization during mitosis from the cytoplasm to an association with chromosomes from late prometaphase to early telophase.

(Eisman et al., 2006)

cbs appears to participate in microtubule organising centre function.

(Megraw et al., 1999)

Transcription start sites of cnn and cbs are separated by a mere 134bp. Overall orientation not stated: cnn- cbs+

(Megraw, 1999.3.3)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 39 )

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.

36492

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

Other crossreferences

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

FBgn0086757

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

cbs_1

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

CG4840

Flygut - An atlas of the Drosophila adult midgut

FBgn0086757

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

36492

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

TC014288

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

GRIP domain

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

Dmel_CG4840

modMine - A data warehouse for the modENCODE project

FBgn0086757

Linkouts

BioGRID - A database of protein and genetic interactions.

62252

DPiM - Drosophila Protein interaction map

FBgn0086757

DroID - A comprehensive database of gene and protein interactions.

FBgn0086757

DRSC - Results frm RNAi screens

FBgn0086757

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0086757

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG4840-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0086757

FlyMine - An integrated database for Drosophila genomics

FBgn0086757

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

Interactive Fly

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

36492

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

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

Retrograde transport at the Trans-Golgi-Network

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

CG4840

(Mathew et al., 2011, Munro, 2011, Keleman et al., 2009.8.5, Sinka et al., 2008, Eisman et al., 2006, Yepiskoposyan et al., 2006)

Cbs

(Finan et al., 2011)

cbs

(Bischof and FlyORF project members, 2014.6.20, Chen et al., 2014, Japanese National Institute of Genetics, 2012.5.21, Munro, 2011, Eisman et al., 2006)

dGolgin-97

(Torres et al., 2014, Sinka et al., 2008)

dem

(Megraw et al., 1999, Megraw et al., 1998)

Name Synonyms

CG4840

Centrosomin's beautiful sister

(Finan et al., 2011)

Golgin 97

(Southon et al., 2010)

centrosomin's beautiful sister

(Eisman et al., 2006, Megraw, 1999.3.3)

dGolgin-97

(Sinka et al., 2008)

dementin

(Megraw et al., 1999)

Secondary FlyBase IDs

FBgn0026256
FBgn0033840

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (38)

Report Sections

Open Close