FlyBase Gene Report: Dmel\Rpb3

General Information

Symbol

Dmel\Rpb3

Species

D. melanogaster

Name

RNA polymerase II subunit 3

Annotation Symbol

CG7885

Feature Type

protein_coding_gene

FlyBase ID

FBgn0026373

Gene Model Status

Current

Stock Availability

6 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

RNA polymerase II, l(2)34Dg, RpII33, Pol II, PolII

Key Links

Genomic Location

Cytogenetic map

34D1-34D6

Sequence location

2L:13,833,337..13,834,306 [+]

Recombination map

2-49

RefSeq locus

NT_033779 REGION:13833337..13834306

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 (11 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

enables DNA binding

inferred from electronic annotation with InterPro:IPR001514

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

contributes_to DNA-directed 5'-3' RNA polymerase activity

inferred from biological aspect of ancestor with PANTHER:PTN000210279

(assigned by GO_Central )

(Gaudet et al., 2011)

inferred from sequence or structural similarity with HGNC:9189

(Aoyagi and Wassarman, 2000)

enables protein dimerization activity

inferred from electronic annotation with InterPro:IPR009025, InterPro:IPR011262

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

contributes_to RNA polymerase II activity

inferred from sequence or structural similarity with UniProtKB:P16370

(Aoyagi and Wassarman, 2000)

Biological Process (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in cellular response to heat

inferred from expression pattern

(Yao et al., 2007)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in transcription by RNA polymerase II

inferred from sequence or structural similarity with UniProtKB:P16370

(Aoyagi and Wassarman, 2000)

Cellular Component (5 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(Yao et al., 2007)

located_in nucleus

inferred from direct assay

(Yao et al., 2007)

located_in polytene chromosome puff

inferred from direct assay

(Yao et al., 2007)

located_in polytene chromosome

inferred from direct assay

(assigned by UniProt )

(Pankotai et al., 2010)

part_of RNA polymerase II, core complex

inferred from direct assay

(Yao et al., 2007)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of RNA polymerase II, core complex

inferred from sequence or structural similarity with UniProtKB:P16370

(Aoyagi and Wassarman, 2000)

inferred from biological aspect of ancestor with PANTHER:PTN000210281

(assigned by GO_Central )

(Gaudet et al., 2011)

Gene Group (FlyBase)

RNA POLYMERASE II

RNA POLYMERASE II CATALYTIC CORE SUBUNITS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

RNA POLYMERASE II -: The RNA Polymerase II (RNAPII) is a multi-subunit enzyme that transcribes protein-coding genes to produce mRNAs. RNAPII also transcribes various other types of RNAs, including snRNA, small nucleolar RNA (snoRNA), microRNA, piRNA and long noncoding RNA. For transcription initiation, RNAPII assembles with the general transcription factors at promoter DNA to form the pre-initiation complex. (Adapted from FBrf0228779, FBrf0213652, PMID:25693126, PMID:23463798 and PMID:17318225).
RNA POLYMERASE II CATALYTIC CORE SUBUNITS -: DNA-directed RNA polymerases catalyze the synthesis of RNA from DNA templates. Nuclear DNA is transcribed by three different multi-subunit polymerases, RNA Pol I, II and III. RNA Pol II synthesizes messenger RNAs. Although composed of 12 subunits, RNA Pol II contains a ten-subunit catalytic core, of which several subunits are shared with RNA Pol I and III. (Adapted from PMID:22365827 and PMID:19540940.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Rpb3 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 5.52

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Rpb3-RA

FBtr0080544

NM_058071

970

275

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

Rpb3-PA

FBpp0080121

31.2

275

4.45

NP_477419

AAF53342

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

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\Rpb3 using the Feature Mapper tool.

External Data

Crossreferences

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

RpII33_1

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

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

embryonic stage 7 -- 8

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

located_in cytoplasm

inferred from direct assay

(Yao et al., 2007)

located_in nucleus

inferred from direct assay

(Yao et al., 2007)

located_in polytene chromosome puff

inferred from direct assay

(Yao et al., 2007)

located_in polytene chromosome

inferred from direct assay

(assigned by UniProt )

(Pankotai et al., 2010)

part_of RNA polymerase II, core complex

inferred from direct assay

(Yao et al., 2007)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Rpb3 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\Rpb3

View exonic expression by tissue for Dmel\Rpb3

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

FBgn0026373

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

FBgn0026373

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG7885-RA

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

CG7885

Flygut - An atlas of the Drosophila adult midgut

FBgn0026373

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 3 )

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 Rpb3

Transgenic constructs containing regulatory region of Rpb3

Deletions and Duplications ( 118 )

Not disrupted in

Df(2L)A47

(Roote, 1997.6.3, Roote, 1996.8, Fossett et al., 1994, Gubb et al., 1990, Ashburner et al., 1982)

Df(2L)A48

(Fossett et al., 1994, Gubb et al., 1990, Ashburner et al., 1982)

Df(2L)A63

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A72

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A178

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A215

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A217

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A220

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A245

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A246

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A260

(Ashburner et al., 1982)

Df(2L)A263

(Ashburner et al., 1982)

Df(2L)A264

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A266

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A267

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A337

(Fossett et al., 1994)

Df(2L)A376

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A377

(Ashburner et al., 1982)

Df(2L)A379

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A400

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)A445

(Fossett et al., 1994, Ashburner et al., 1982)

Df(2L)Adh-nBR55

(Roote, 1997.6.3)

Df(2L)Adh-nBR100

(Fossett et al., 1994)

Df(2L)Adh-nBR102

(Fossett et al., 1994)

Df(2L)Adh-nBR103

(Fossett et al., 1994)

Df(2L)Adh-nBR105

(Fossett et al., 1994)

Df(2L)Adh-nBR106

(Fossett et al., 1994)

Df(2L)Adh-nBR107

(Fossett et al., 1994)

Df(2L)Adh-nBR117

(Fossett et al., 1994)

Df(2L)Adh-nBR118

(Fossett et al., 1994)

Df(2L)Adh-nBR119

(Fossett et al., 1994)

Df(2L)Adh-nBR120

(Fossett et al., 1994)

Df(2L)Adh-nBR121

(Fossett et al., 1994)

Df(2L)Adh-nBR122

(Fossett et al., 1994)

Df(2L)Adh-nBR125

(Fossett et al., 1994)

Df(2L)Adh-nBR126

(Fossett et al., 1994)

Df(2L)Adh-nBR127

(Fossett et al., 1994)

Df(2L)Adh-nBR128

(Fossett et al., 1994)

Df(2L)Adh-nBR129

(Fossett et al., 1994)

Df(2L)Adh-nBR131

(Fossett et al., 1994)

Df(2L)b89e12

(Ashburner et al., 1999, Roote, 1998.5.15)

Df(2L)el77

(Woodruff and Ashburner, 1979)

Df(2L)el80i1

(Roote, 1997.6.3)

Df(2L)el82f1

(Roote, 1997.6.3)

Df(2L)fn1

(Ashburner et al., 1982, Woodruff and Ashburner, 1979)

Df(2L)fn2

(Ashburner et al., 1982, Woodruff and Ashburner, 1979)

Df(2L)fn3

(Ashburner et al., 1982, Woodruff and Ashburner, 1979)

Df(2L)fn5

(Ashburner et al., 1982)

Df(2L)fn7

(Ashburner et al., 1982, Woodruff and Ashburner, 1979)

Df(2L)fn12

(Ashburner et al., 1982, Woodruff and Ashburner, 1979)

Df(2L)fn15

(Ashburner et al., 1982)

Df(2L)fn26

(Ashburner et al., 1982)

Df(2L)fn27

(Ashburner et al., 1982)

Df(2L)fn36

(Ashburner et al., 1982)

Df(2L)GT4

(Gubb et al., 1990)

Df(2L)rN149-rv3

(Roote, 2000.6.13)

Df(2L)Sco^rv4

(Woodruff and Ashburner, 1979)

Df(2L)TE35B-1

(Gubb et al., 1985)

Df(2L)TE35B-2

(Gubb et al., 1985)

Df(2L)TE35B-3

(Gubb et al., 1985)

Df(2L)TE35B-4

(Gubb et al., 1985)

Df(2L)TE35B-6

(Gubb et al., 1985)

Df(2L)TE35B-7

(Gubb et al., 1985)

Df(2L)TE35B-8

(Gubb et al., 1985)

Df(2L)TE35B-9

(Gubb et al., 1985)

Df(2L)TE35B-10

(Gubb et al., 1985)

Df(2L)TE35B-11

(Gubb et al., 1985)

Df(2L)TE35B-12

(Gubb et al., 1985)

Df(2L)TE35B-15

(Gubb et al., 1985)

Df(2L)TE35B-407

(Roote, 1997.6.3)

Df(2L)TE35BC-1

(Gubb et al., 1984)

Df(2L)TE35BC-3

(Gubb et al., 1984)

Df(2L)TE35BC-4

(Gubb et al., 1984)

Df(2L)TE35BC-7

(Gubb et al., 1984)

Df(2L)TE35BC-8

(Gubb et al., 1984)

Df(2L)TE35BC-24

(Gubb et al., 1984)

Df(2L)TE35BC-28

(Gubb et al., 1984)

Df(2L)TE35BC-29

(Gubb et al., 1984)

Df(2L)TE35BC-31

(Gubb et al., 1984)

Df(2L)TE35BC-34

(Gubb et al., 1984)

Df(2L)TE35BC-35

(Gubb et al., 1984)

Df(2L)W

(Woodruff and Ashburner, 1979)

In(2L)75c^LC158.1^R

(Woodruff and Ashburner, 1979)

In(2L)75c

(Woodruff and Ashburner, 1979)

In(2L)TE35B-13

(Gubb et al., 1985)

T(2;3)Sco^rv7

(Woodruff and Ashburner, 1979)

T(Y;2)A80^DR15^P

(Woodruff and Ashburner, 1979)

T(Y;2)J165^DP58^P

(Woodruff and Ashburner, 1979)

T(Y;2)R15^DJ165^P

(Woodruff and Ashburner, 1979)

Tp(2;2)A446

(Fossett et al., 1994, Ashburner et al., 1982)

Disrupted in

Df(2L)64j

(Iyengar et al., 1999, Woodruff and Ashburner, 1979)

Df(2L)Adh-nBR101

(Fossett et al., 1994)

Df(2L)Adh-nBR130

(Fossett et al., 1994)

Df(2L)b74c6

(Alexandrova et al., 1996)

Df(2L)b75

(Gubb et al., 1990, Woodruff and Ashburner, 1979)

Df(2L)b80c1

(Iyengar et al., 1999, Ashburner et al., 1982)

Df(2L)b81l42

(Roote, 2000.7.3, Roote, 1997.6.3, Alexandrova et al., 1996, Roote, 1995.3.27)

Df(2L)b83l1

(Roote, 2000.7.3, Roote, 1997.6.3, Roote, 1995.3.27)

Df(2L)b84a9

(Roote, 2000.7.3, Iyengar et al., 1999, Roote, 1997.6.3, Roote, 1995.3.27)

Df(2L)b84h50

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

Df(2L)b85b1

(Roote, 2000.7.3, Roote, 1997.6.3, Roote, 1995.3.27)

Df(2L)b88g83

(Roote, 2000.7.3, Roote, 1997.6.3, Roote, 1995.3.27)

Df(2L)b8312

(Roote, 1995.3.27)

Df(2L)Exel7059

(Ryder, 2004.4.26)

Df(2L)fn30

(Ashburner et al., 1982)

Df(2L)fn31

(Ashburner et al., 1982)

Df(2L)GT5

(Gubb et al., 1990)

Df(2L)k07245^Lk05605^R-mr1

(Roote, 2000.6.13)

Df(2L)k07245^Lk05605^R-mr3

(Roote, 2000.6.13)

Df(2L)k07245^Lk05605^R-mr7

(Roote, 2000.6.13)

Df(2L)k07245^Lk05605^R-mr10

(Roote, 2000.6.13)

Df(2L)k07245^Lk05605^R-mr12

(Roote, 2000.6.13)

Df(2L)TE35B-5

(Gubb et al., 1985)

Df(2L)TE35BC-6

(Gubb et al., 1984)

Df(2L)TE35BC-23

(Gubb et al., 1984)

In(2L)b88e45

(Roote, 2000.6.5, Roote, 1997.6.3, Roote, 1995.3.27)

Tp(2;3)dp

(Roote, 1997.6.3)

Not duplicated in

Dp(2;3)17

(Roote, 1997.6.3)

Phenotypes

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

Lethality

Allele

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

Rpb3^GD4735

lethal, with Scer\GAL4^pnr-MD237

Rpb3^GD4735

lethal | recessive

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

Rpb3^GD4735

viable, with Scer\GAL4^tin.CΔ4

Rpb3^GD4735

Phenotype manifest in

Allele

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\POLR2C

15 of 15

Yes

Hsap\POLR1C

2 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\Polr2c

13 of 15

Yes

Mmus\Polr1c

2 of 15

Rattus norvegicus (Norway rat) (2)

Rnor\Polr2c

11 of 13

Yes

Rnor\Polr1c

2 of 13

Xenopus tropicalis (Western clawed frog) (2)

Xtro\polr2c

9 of 12

Yes

Xtro\polr1c

2 of 12

Danio rerio (Zebrafish) (2)

Drer\polr2c

14 of 15

Yes

Drer\polr1c

2 of 15

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\rpb-3

15 of 15

Yes

Cele\rpac-40

2 of 15

Arabidopsis thaliana (thale-cress) (4)

Atha\NRPE3B

9 of 9

Yes

Atha\NRPB3

8 of 9

Yes

Atha\ATRPAC42

1 of 9

Atha\RPAC43

1 of 9

Saccharomyces cerevisiae (Brewer's yeast) (2)

Scer\RPB3

14 of 15

Yes

Scer\RPC40

1 of 15

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\rpb3

11 of 12

Yes

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190CON )

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\GA20659

Drosophila persimilis

Dper\GL21238

Drosophila willistoni

Dwil\GK15011

Drosophila virilis

Dvir\GJ18149

Drosophila mojavensis

Dmoj\GI12561

Drosophila grimshawi

Dgri\GH11119

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915086Y )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17013939

Glossina morsitans

Tsetse fly

Gmor\GMOY009823

Mayetiola destructor

Hessian fly

Mdes\Mdes008904

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL008755

Anopheles darlingi

American malaria mosquito

Adar\ADAC003778

Anopheles gambiae

Malaria mosquito

Agam\AGAP010321

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W09FY )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA004994

Danaus plexippus

Monarch butterfly

Dple\DPOGS202328-PA

Apis florea

Little honeybee

Aflo\2337433268

Apis mellifera

Western honey bee

Amel\LOC552458

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP12009

Bombus terrestris

Buff-tailed bumblebee

Bter\15213611

Linepithema humile

Argentine ant

Lhum\LH13691

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:002d3c

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG011026

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_10466

Tribolium castaneum

Red flour beetle

Tcas\TC010438

Pediculus humanus

Human body louse

Phum\PHUM249080

Rhodnius prolixus

Kissing bug

Rpro\RPRC007327

Cimex lectularius

Bed bug

Clec\CLEC005155

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI001769

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_11528

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0989 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR007707

Ixodes scapularis

Black-legged tick

Isca\ISCW023353

Stegodyphus mimosarum

African social velvet spider

Smim\KFM80578.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur01g01740

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_313021

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0EGB )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_017618gn

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Polr2c

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000021895

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000009812

Gallus gallus

Domestic chicken

Ggal\POLR2C

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (2)

Gene Symbol

Score

Source

Alignment

4 of 10

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 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?

POLR2C; RNA polymerase II subunit C

15 of 15

180663

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

Rpb3 - CG8117

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

Rpb3 - Gdn1

anti bait coimmunoprecipitation, western blot

(Jishage et al., 2018)

Rpb3 - Rpb4

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

Rpb3 - TfIIFβ

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

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.

60828

DroID - A comprehensive database of gene and protein interactions.

FBgn0026373

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

34796

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

RpII33

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

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

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

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-49

Cytogenetic map

34D1-34D6

Sequence location

2L:13,833,337..13,834,306 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

34D1-34D6

Limits computationally determined from genome sequence between P{lacW}Sos^k05224&P{lacW}RpII33^k05605 and P{lacW}l(2)34Fa^k00811&P{PZ}wb⁰⁹⁴³⁷

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

34D-34E

(Garesse, 1999.3.8)

34D6-34D7

(determined by in situ hybridisation)

(Ashburner et al., 1999, Spradling et al., 1999)

34D6-34D7

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

2-49

(FlyBase, 2016)

2-45.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (6)

Bloomington

3429

Rpb3¹ b¹ Adhⁿ⁴/CyO

10575

y¹ w^67c23; P{lacW}Rpb3^k05605/CyO

34567

y¹ sc^* v¹ sev²¹; P{TRiP.HMS01040}attP2

Kyoto

114344

y^d2 w¹¹¹⁸ P{ey-FLP.N}2 P{5xglBS-lacZ.38-1}TPN1; P{lacW}Rpb3^k05605 P{neoFRT}40A/CyO y⁺

VDRC

v105479

P{KK107693}VIE-260B

v14000

w¹¹¹⁸; P{GD4735}v14000/TM3

Genomic Clones (20)

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

cDNA Clones (130)

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

Other clones

DPiM_GH07456

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.

FBgn0026373

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0026373

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

34796

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Sienski et al., 2015, Ni et al., 2008)

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: RpII33 CG7885

(Guan, 1999.11)

Source for identity of: Rpb3 RpII33

(FlyBase, 2009-)

Source for database merge of

Source for merge of: RpII33 l(2)34Dg

(Ashburner et al., 1999, Spradling et al., 1999)

Additional comments

Renamed from 'RpII33' to 'Rpb3' to reflect clear usage/preference in the literature.

(FlyBase, 2009-)

Other Comments

RNAi screen using dsRNA made from templates generated with primers directed against this gene results in aberrantly long spindles with misaligned chromosomes when assayed in S2 cells in the presence of Cdc27 dsRNA. This phenotype cannot be observed when the screen is performed without Cdc27 dsRNA.

(Goshima et al., 2007)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 71 )

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.

34796

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0026373

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

FBgn0026373

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

RpII33_1

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

CG7885

Flygut - An atlas of the Drosophila adult midgut

FBgn0026373

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

34796

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

TC010438

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

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

Dmel_CG7885

modMine - A data warehouse for the modENCODE project

FBgn0026373

Linkouts

BioGRID - A database of protein and genetic interactions.

60828

DroID - A comprehensive database of gene and protein interactions.

FBgn0026373

DRSC - Results frm RNAi screens

FBgn0026373

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

FBgn0026373

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG7885-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0026373

FlyMine - An integrated database for Drosophila genomics

FBgn0026373

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

34796

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

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

RpII33

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

Synonyms and Secondary IDs (32)

Reported As

Symbol Synonym

152117_at

(Kristensen et al., 2005)

BG:DS00941.10

(Ashburner et al., 1999, Ashburner et al., 1999.10.12)

CG7885

(Schertel et al., 2013, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Hughes et al., 2008, Aoyagi and Wassarman, 2000)

D-rpII33

(Lefai et al., 2000)

Pol II

(Jishage et al., 2018, Bonn et al., 2012, Sienski et al., 2012, Pinto et al., 2011, Hendrix et al., 2008, Petesch and Lis, 2008, Kim et al., 2004, Boehm et al., 2003, Armstrong et al., 2002)

Pol II RPII33

(Henikoff et al., 2009)

PolII

(Shao and Zeitlinger, 2017, Monfort and Furlong, 2015.1.15, Chen et al., 2008, Piel et al., 2008, Zhang et al., 2004)

PolIIo

(Demakova et al., 2007, Kotlikova et al., 2006)

RNA Pol II

(Blythe and Wieschaus, 2015, Mito et al., 2005, Meehan et al., 2001)

RNA pol II

(Gilfillan et al., 2006, Farkas et al., 2000)

RNA polII

(Leclerc et al., 2000)

RNAP

(Ma, 2005)

RPB3

(Jishage et al., 2018, Chlamydas et al., 2016, Schauer et al., 2013, Pankotai et al., 2010, Isogai et al., 2007, Garesse, 1999.3.8)

Rbp3

(Sienski et al., 2015, Bonn et al., 2012, Yao et al., 2008)

RpII33

(Neves and Eisenman, 2019, Bischof and FlyORF project members, 2014.6.20, Schertel et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Friedman et al., 2011, Avet-Rochex et al., 2010, Ayroles et al., 2009, Fisher et al., 2008, Goshima et al., 2007)

Rpll33

(Orian et al., 2003)

br17

(Gubb et al., 1985)

l(2)34Dg

(Ashburner et al., 1999, Ashburner et al., 1999.10.12, Iyengar et al., 1999, Roote, 1998.5.15, Roote, 1997.6.6, The Moscow Regional Drosophila melanogaster Stock Center, Dubna, Alexandrova et al., 1996, Spradling et al., 1995, BDGP Project Members, 1994-1999, Lindsley and Zimm, 1992, Gubb et al., 1990)

l(2)br17

(Gubb et al., 1984, Ashburner et al., 1982, Woodruff and Ashburner, 1979)

l(2)k05605

(Spradling et al., 1999, Chen et al., 1998)

l34Dg

(Fossett et al., 1994)

pol II

(Zhang and Gilmour, 2006)

polII

(Gu et al., 2002, Lis, 1998)

rpII33

(Lefai et al., 2000, Lefai et al., 2000)

rpb3

(Core et al., 2012)

Name Synonyms

RNA Polymerase II

(Petesch and Lis, 2008)

RNA polymerase II

(Zhao et al., 2020, Ratnaparkhi and Courey, 2008, Silverman et al., 2008, Redhouse and White, 2007, Yao et al., 2006, Heinkoff et al., 2004, Shore et al., 2003, Chao and Price, 2001, Mizuguchi et al., 2001, Morcillo and MacIntyre, 2001, Chao et al., 2000, Kal et al., 2000, Pham et al., 1999, Reim et al., 1999, Schock et al., 1999, Visa et al., 1988)

RNA polymerase II 33kD subunit

RNA polymerase II subunit 3

lethal 17 in the black-reduced region

(Woodruff and Ashburner, 1979)

lethal(2)34Dg

Secondary FlyBase IDs

FBgn0001964

Datasets (1)

Study focus (1)

Experimental Role

Project

Project Type

Title

bait_protein

Furlong_BiTS-ChIP-Seq

genome binding

ChIP-Seq profiling of histone modifications in purified embryonic mesodermal cells.

References (157)

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

Report Sections