FlyBase Gene Report: Dmel\Rpn6

General Information

Symbol

Dmel\Rpn6

Species

D. melanogaster

Name

Regulatory particle non-ATPase 6

Annotation Symbol

CG10149

Feature Type

protein_coding_gene

FlyBase ID

FBgn0028689

Gene Model Status

Current

Stock Availability

12 publicly available

Gene Snapshot

Regulatory particle non-ATPase 6 (Rpn6) encodes a structural subunit of the 26S proteasome, located in the lid section of the 19S regulatory particle. In the 26S proteasome, it forms a bridge between the 19S regulatory and 20S core particles. [Date last reviewed: 2018-10-11]

Other Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

l(2)k00103, p42B, Pros44.5

Key Links

Genomic Location

Cytogenetic map

51C1-51C2

Sequence location

2R:14,750,166..14,752,910 [-]

Recombination map

2-72

RefSeq locus

NT_033778 REGION:14750166..14752910

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (8 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with FLYBASE:Rpn7; FB:FBgn0028688

(Pathare et al., 2012)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables structural molecule activity

inferred from biological aspect of ancestor with PANTHER:PTN000073599

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in proteasome assembly

inferred from biological aspect of ancestor with PANTHER:PTN000073599

(assigned by GO_Central )

(Gaudet et al., 2011)

involved_in proteasome-mediated ubiquitin-dependent protein catabolic process

inferred by curator from GO:0005838

(Sumegi et al., 2003)

involved_in ubiquitin-dependent protein catabolic process

inferred from biological aspect of ancestor with PANTHER:PTN000073599

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

part_of proteasome complex

inferred from direct assay

(Nickell et al., 2009)

part_of proteasome regulatory particle

inferred from direct assay

(Sumegi et al., 2003, Holzl et al., 2000)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of proteasome regulatory particle, lid subcomplex

inferred from sequence or structural similarity with SGD:S000002255

(Holzl et al., 2000)

inferred from biological aspect of ancestor with PANTHER:PTN000073599

(assigned by GO_Central )

(Gaudet et al., 2011)

part_of proteasome regulatory particle

inferred from sequence or structural similarity with HGNC:9556

(Holzl et al., 2000)

Gene Group (FlyBase)

PROTEASOME REGULATORY PARTICLE NON-ATPASES

Protein Family (UniProt)

Belongs to the proteasome subunit S9 family. (Q7KLV9)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

PROTEASOME REGULATORY PARTICLE NON-ATPASES -: The 26S proteasome degrades polyubiquitinated proteins in the cytoplasm and nucleus. It is formed from a cylindrical catalytic core 20S proteasome capped at each end by a regulatory 19S particle. The 19S regulatory particle recognizes, unfolds, and translocates ubiquitinated proteins into the catalytic core particle in an ATP-dependent manner. 'Rpn' subunits are non-ATPase subunits located in the base and lid subcomplexes of the regulatory particle (Adapted from FBrf0215459 and PMID:28583440.)

Protein Function (UniProtKB)

Component of the lid subcomplex of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. In the complex, RPN6 is required for proteasome assembly (By similarity). May act as linker between 19S regulatory subunit and the 20S proteasome core.

(UniProt, Q7KLV9)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Rpn6 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

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

Gene model reviewed during 5.50

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Rpn6-RA

FBtr0087474

NM_166065

1612

439

Rpn6-RB

FBtr0087475

NM_058126

1827

422

Rpn6-RC

FBtr0306558

NM_001259396

1662

422

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

Rpn6-PA

FBpp0086603

49.4

439

6.40

NP_725412

AAF58213

Rpn6-PB

FBpp0086604

47.3

422

5.61

NP_477474

AAF58212

Rpn6-PC

FBpp0297513

47.3

422

5.61

NP_001246325

AFH08079

Polypeptides with Identical Sequences

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

422 aa isoforms: Rpn6-PB, Rpn6-PC

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Component of the lid subcomplex of the 19S proteasome regulatory particle complex (also named PA700 complex). The 26S proteasome consists of a 20S proteasome core and two 19S regulatory subunits. Interacts with alien/CSN2. Interacts with Prosalpha2 and Rpt6.

(UniProt, Q7KLV9)

Crossreferences

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

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\Rpn6 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

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

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

prepupal stage P1

gamma Kenyon cell

(Hoopfer et al., 2008)

late third instar larval stage

gamma Kenyon cell | faint

(Hoopfer et al., 2008)

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

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | ubiquitous

(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

part_of proteasome complex

inferred from direct assay

(Nickell et al., 2009)

part_of proteasome regulatory particle

inferred from direct assay

(Sumegi et al., 2003, Holzl et al., 2000)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Rpn6 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\Rpn6

View exonic expression by tissue for Dmel\Rpn6

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

FBgn0028689

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

FBgn0028689

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG10149-RA

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

CG10149

Flygut - An atlas of the Drosophila adult midgut

FBgn0028689

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Rpn6

Stages(s) 4-6
Stages(s) 11-12

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 10 )

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 Rpn6

Transgenic constructs containing regulatory region of Rpn6

Deletions and Duplications ( 9 )

Disrupted in

Df(2R)BSC11

(Deal-Herr et al., 2002.1.22)

Df(2R)BSC858

(Christensen et al., 2009.7.22)

Df(2R)Exel6284

(Ryder, 2004.4.26)

Df(2R)knSA3

(Sekelsky et al., 2000, Van Daele, 1998.8.11)

Not disrupted in

Df(2R)03072

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

Df(2R)Jp1

(Sekelsky et al., 2000, BDGP Project Members, 1994-1999)

Df(2R)Jp4

(Sekelsky et al., 2000)

Df(2R)XTE-18

(Sekelsky et al., 2000)

Partially disrupted in

Df(2R)Rpn6^2F

(Roignant et al., 2006)

Phenotypes

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

Lethality

Allele

cell lethal | recessive | somatic clone

Rpn6^2F

lethal, with Scer\GAL4^pnr-MD237

Rpn6^GD6881

lethal | recessive

lethal - all die before end of larval stage | recessive

lethal - all die before end of pupal stage | recessive

Rpn6^20F

lethal - all die during larval stage, with Scer\GAL4^Mef2.PR

Rpn6^GD6881

partially lethal, with Scer\GAL4^tin.CΔ4

Rpn6^GD6881

Other Phenotypes

Allele

decreased cell number | somatic clone

Rpn6^k00103

neuroanatomy defective | adult stage, with Scer\GAL4^GMR71G10, Spyo\Cas9^{UAS.Tag:NLS(Unk)}

neuroanatomy defective | somatic clone

Rpn6^k00103

some die during larval stage, with Scer\GAL4^tin.CΔ4

Rpn6^GD6881

some die during larval stage | recessive

some die during pupal stage | recessive

Rpn6^20F

Phenotype manifest in

Allele

adult mushroom body | somatic clone

Rpn6^k00103

adult mushroom body gamma-lobe | somatic clone

Rpn6^k00103

axon | adult stage, with Scer\GAL4^GMR71G10, Spyo\Cas9^{UAS.Tag:NLS(Unk)}

embryonic/larval fat body | third instar larval stage, with Scer\GAL4^Cg.PA

Rpn6^JF03317

gamma Kenyon cell | adult stage, with Scer\GAL4^GMR71G10, Spyo\Cas9^{UAS.Tag:NLS(Unk)}

mitochondrion | third instar larval stage, with Scer\GAL4^Cg.PA

Rpn6^JF03317

neuroblast | somatic clone

Rpn6^k00103

sarcomere, with Scer\GAL4^Mef2.PR

Rpn6^GD6881

Z disc, with Scer\GAL4^Mef2.PR

Rpn6^GD6881

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (2)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\PSMD11

14 of 15

Yes

Hsap\COPS2

1 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (2)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Psmd11

14 of 15

Yes

Mmus\Cops2

1 of 15

Rattus norvegicus (Norway rat) (2)

Rnor\Psmd11

11 of 13

Yes

Rnor\Cops2

1 of 13

Xenopus tropicalis (Western clawed frog) (2)

Xtro\psmd11

8 of 12

Yes

Xtro\cops2

1 of 12

Danio rerio (Zebrafish) (3)

Drer\psmd11b

14 of 15

Yes

Drer\psmd11a

13 of 15

Yes

Drer\cops2

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\rpn-6.1

14 of 15

Yes

Cele\rpn-6.2

6 of 15

Yes

Cele\F59B2.15

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\ATS9

9 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\RPN6

14 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\rpn6

11 of 12

Yes

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091908PJ )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA24424

Drosophila persimilis

Dper\GL10628

Drosophila willistoni

Dwil\GK19517

Drosophila virilis

Dvir\GJ21772

Drosophila mojavensis

Dmoj\GI18748

Drosophila grimshawi

Dgri\GH21149

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091505S5 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17019867

Musca domestica

House fly

Mdoa\17020670

Musca domestica

House fly

Mdoa\17027030

Glossina morsitans

Tsetse fly

Gmor\GMOY006031

Glossina morsitans

Tsetse fly

Gmor\GMOY000456

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_08625

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_09382

Mayetiola destructor

Hessian fly

Mdes\Mdes012893

Mayetiola destructor

Hessian fly

Mdes\Mdes007598

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL012417

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL012419

Anopheles darlingi

American malaria mosquito

Adar\ADAC007674

Anopheles darlingi

American malaria mosquito

Adar\ADAC007675

Anopheles gambiae

Malaria mosquito

Agam\AGAP001440

Anopheles gambiae

Malaria mosquito

Agam\AGAP001441

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ015965

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ015971

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W09LH )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA004247

Bombyx mori

Silkmoth

Bmor\BGIBMGA014136

Danaus plexippus

Monarch butterfly

Dple\DPOGS206320-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS203550-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL004107

Heliconius melpomene

Postman butterfly

Hmel\HMEL012595

Apis florea

Little honeybee

Aflo\3343940036

Apis florea

Little honeybee

Aflo\3123752548

Apis mellifera

Western honey bee

Amel\GB45561

Apis mellifera

Western honey bee

Amel\LOC408397

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP13749

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP23513

Bombus terrestris

Buff-tailed bumblebee

Bter\15210088

Bombus terrestris

Buff-tailed bumblebee

Bter\15203597

Linepithema humile

Argentine ant

Lhum\LH12761

Linepithema humile

Argentine ant

Lhum\LH15571

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:001763

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:00222e

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG014804

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG004966

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_02352

Tribolium castaneum

Red flour beetle

Tcas\TC034407

Tribolium castaneum

Red flour beetle

Tcas\TC033696

Pediculus humanus

Human body louse

Phum\PHUM111220

Pediculus humanus

Human body louse

Phum\PHUM558880

Rhodnius prolixus

Kissing bug

Rpro\RPRC013139

Rhodnius prolixus

Kissing bug

Rpro\RPRC007537

Cimex lectularius

Bed bug

Clec\CLEC003131

Cimex lectularius

Bed bug

Clec\CLEC007594

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI005210

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI000933

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI005455

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_01972

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_03488

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X090R )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR011544

Strigamia maritima

European centipede

Smar\SMAR015673

Ixodes scapularis

Black-legged tick

Isca\ISCW019800

Ixodes scapularis

Black-legged tick

Isca\ISCW012119

Stegodyphus mimosarum

African social velvet spider

Smim\KFM79696.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM79474.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM65570.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur10g04010

Tetranychus urticae

Two-spotted spider mite

Turt\tetur09g01250

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_58294

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_305160

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0B4C )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Psmd11

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Tmem68

Ciona intestinalis

Vase tunicate

Cint\LOC100184157

Ciona intestinalis

Vase tunicate

Cint\LOC100186374

Gallus gallus

Domestic chicken

Ggal\TMEM68

Gallus gallus

Domestic chicken

Ggal\PSMD11

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (1)

Gene Symbol

Score

Source

Alignment

3 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 v8.0 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?

PSMD11; proteasome 26S subunit, non-ATPase 11

14 of 15

604449

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

Rpn6 - PSMG1

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα2

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα3

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα4

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα5

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα6

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosα7

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ1

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ2

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ3

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ4

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ5

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ6

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Prosβ7

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn1

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn11

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn13

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn2

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn3

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn5

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn7

affinity chromatography technology, molecular weight estimation by staining, experimental knowledge based

(Pathare et al., 2012, Guruharsha et al., 2011)

Rpn6 - Rpn8

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpn9

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt1

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt2

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt3

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt4

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt5

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Rpt6

experimental knowledge based

(Guruharsha et al., 2011)

Rpn6 - Ubx

two hybrid

(Hsiao et al., 2014)

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

View in Interactions Browser

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

peb

suppressible

Rpn6

(Wilk et al., 2004)

External Data

Subunit Structure (UniProtKB)

(UniProt, Q7KLV9 )

Linkouts

BioGRID - A database of protein and genetic interactions.

62384

DroID - A comprehensive database of gene and protein interactions.

FBgn0028689

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

36638

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

Rpn6

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Proteasome

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

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-72

Cytogenetic map

51C1-51C2

Sequence location

2R:14,750,166..14,752,910 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

51C1-51C2

Limits computationally determined from genome sequence between P{lacW}ttv^k03617&P{EP}ttv^EP765 and P{lacW}Rpn6^k00103

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

51C1-51C2

(determined by in situ hybridisation)

(Spradling et al., 1999)

51C1-51C2

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

2-72

(FlyBase, 2016)

2-76.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (12)

Bloomington

83038

y¹; M{WKO.1-H11}ZH-86Fb

29385

y¹ v¹; P{TRiP.JF03317}attP2

8717

w^*; Rpn6^2F/CyO, P{ActGFP}JMR1

8718

w^*; Rpn6^20F/CyO, P{ActGFP}JMR1

26484

w¹¹¹⁸; Mi{ET1}Rpn6^MB09493/SM6a

10465

y¹ w^67c23; P{lacW}Rpn6^k00103/CyO

80638

y¹ w^*; TI{CRIMIC.TG4.0}ave^{CR00745-TG4.0} Rpn6^{CR00745-TG4.0-X}

Kyoto

102946

y¹ w^67c23 ; P{lacW}Rpn6^k14707 / CyO

111115

y^d2 w¹¹¹⁸ P{ey-FLP.N}2 P{5xglBS-lacZ.38-1}TPN1; P{neoFRT}42D P{lacW}Rpn6^k00103 /CyO y⁺

VDRC

v103942

P{KK102879}VIE-260B

v18021

w¹¹¹⁸; P{GD6881}v18021

v18022

w¹¹¹⁸; P{GD6881}v18022

Genomic Clones (24)

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

cDNA Clones (171)

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 sequenced

BDGP DGC clones

LD18931

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.

FBgn0028689

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0028689

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

36638

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: Rpn6 Pros44.5

(FlyBase, 1996-)

Source for merge of: Rpn6 BcDNA:LD18931

(FlyBase, 1996-)

Additional comments

The nomenclature of genes encoding subunits of the 26S proteasome of D. melanogaster have been standardized according to FBrf0215459. These symbols/names largely follow those used already in FlyBase, and largely mirror fly community usage. HOWEVER, note that at least one other nomenclature system exists that is followed by the HUGO Gene Nomenclature Committee (HGNC), for example, with the unfortunate result that several D. melanogaster genes have shared synonyms.

(FlyBase, 2009-)

Source for merge of Rpn6 Pros44.5 was sequence comparison ( date:000120 ).

(FlyBase, 1996-)

Source for merge of Rpn6 BcDNA:LD18931 was sequence comparison ( date:991227 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 98 )

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.

36638

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

Q7KLV9

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

A0A0B4K7Z5

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0028689

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

FBgn0028689

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

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

CG10149

Flygut - An atlas of the Drosophila adult midgut

FBgn0028689

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

351786

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

36638

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

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

Dmel_CG10149

modMine - A data warehouse for the modENCODE project

FBgn0028689

Linkouts

ApoDroso - Functional genomic database for photoreceptor development, survival and function

10465-Rpn6[k00103]

BioGRID - A database of protein and genetic interactions.

62384

DPiM - Drosophila Protein interaction map

FBgn0028689

DroID - A comprehensive database of gene and protein interactions.

FBgn0028689

DRSC - Results frm RNAi screens

FBgn0028689

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

FBgn0028689

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG10149-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0028689

FlyMine - An integrated database for Drosophila genomics

FBgn0028689

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

36638

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Proteasome

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

Rpn6

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

Synonyms and Secondary IDs (14)

Reported As

Symbol Synonym

BcDNA.LD18931

(Tsang, 1999.6.19)

BcDNA:LD18931

CG10149

(Kolkhof et al., 2017, Hosono et al., 2015, Rosa-Ferreira et al., 2015, Fukuoh et al., 2014, Belote and Zhong, 2009, Keleman et al., 2009.8.5, Perkins et al., 2009, Hughes et al., 2008, Barbash and Lorigan, 2007, Lee et al., 2003, Ma et al., 2002)

CG5289

(Wang et al., 2014)

Pros44.5

(Spradling et al., 1999)

RPN6

(Tain et al., 2017)

(Lundgren et al., 2005)

dPSMD11

(Panda et al., 2013)

l(2)k00103

(Beaton, 2000.1.31, Sekelsky et al., 2000, Van Daele, 1998.8.11, BDGP Project Members, 1994-1999)

p42B

(Sumegi et al., 2003, Kurucz et al., 2002, Ma et al., 2002, Holzl et al., 2000)

rpn6

(Nguyen et al., 2019, Tsakiri et al., 2013, Guest et al., 2011)

Name Synonyms

Proteasome p44.5 subunit

(Spradling et al., 1999)

Regulatory particle non-ATPase 6

Secondary FlyBase IDs

FBgn0022278
FBgn0027867

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (100)

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

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