FlyBase Gene Report: Dmel\Rbp9

General Information

Symbol

Dmel\Rbp9

Species

D. melanogaster

Name

RNA-binding protein 9

Annotation Symbol

CG3151

Feature Type

protein_coding_gene

FlyBase ID

FBgn0010263

Gene Model Status

Current

Stock Availability

23 publicly available

Gene Summary

RNA-binding protein 9 (Rbp9) encodes a putative RNA binding protein involved in the establishment of the blood-brain barrier and control of germ cell proliferation. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Red Book
Interactive Fly

Also Known As

fs(2)B, fes, RRM10, female sterile(2)Bridges, RRM9

Key Links

Genomic Location

Cytogenetic map

23C3-23C3

Sequence location

2L:2,954,762..2,968,434 [+]

Recombination map

2-8

RefSeq locus

NT_033779 REGION:2954762..2968434

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 (10 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 mRNA binding

inferred from sequence or structural similarity

(Lasko, 2000)

non-traceable author statement

(Good, 1997)

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables protein-RNA adaptor activity

inferred from biological aspect of ancestor with PANTHER:PTN002364906

(GO Reference Genome Project, 2011-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR000504, InterPro:IPR002343, InterPro:IPR006548

(InterPro Project Members, 2004-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

involved_in establishment of blood-brain barrier

inferred from mutant phenotype

(Kim et al., 2010)

involved_in germ cell proliferation

inferred from mutant phenotype

(Jeong and Kim-Ha, 2004)

involved_in oogenesis

inferred from mutant phenotype

(Jeong and Kim-Ha, 2004)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

is_active_in cytoplasmic ribonucleoprotein granule

inferred from direct assay

(Grzejda et al., 2022)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

located_in nucleus

traceable author statement

(Good, 1997)

part_of ribonucleoprotein complex

inferred from electronic annotation with InterPro:IPR002343

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

LARGE CYTOPLASMIC STAUFEN RNP GRANULES

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

RNA-binding protein 9 (Rbp9) encodes a putative RNA binding protein involved in the establishment of the blood-brain barrier and control of germ cell proliferation. [Date last reviewed: 2019-03-14]

Gene Group (FlyBase)

LARGE CYTOPLASMIC STAUFEN RNP GRANULES -: Large cytoplasmic Staufen ribonucleoprotein (RNAP) granules are a neuronal biomolecular condensate scaffolded by the long non-coding RNA lncRNA:mimi. (Adapted from FBrf0254644).

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

fs(2)B: female sterile (2) of Bridges

External morphology and sexual behavior normal (Burnet, Connolly, Kearney, and Cook, 1973, J. Insect Physiol. 19: 2421-31). Males fertile; females sterile. After rearing on glucose diet mutant females are less receptive to copulation attempts and more vigorously courted than wild-type virgins (Cook and Connolly, 1976, J. Insect Physiol. 22: 1727-35). Germaria of ovaries of homozygous females larger than normal; cysts contain 3 times the normal number of cells; metaphase figures found throughout germarium. Just over half the oogonia undergo complete cleavage with the loss of ring canal connections to other cells; remaining cells in small clusters with tenuous connections (Johnson and King, 1972, Biol. Bull. 143: 525-47). Vitellaria subdivided into a series of sausage-shaped cell aggregates, each surrounded with an ill-defined follicular epithelium and filled with hundreds to thousands of mitotically active oogonia-like cells [King, Burnett, and Staley, 1957, Growth 21: 239-61 (fig.)]. These cells occasionally differentiate into cells resembling nurse cells, which may have polytene chromosomes, and rarely into oocytes. fs(2)B ovaries transplanted into wild-type hosts in late larval stages and reciprocal transplants develop autonomously (Clancy and Beadle, 1937, Biol. Bull. 72: 47-56; Klug, Bodenstein, and King, 1968, J. Exp. Zool. 167: 151-56). The cells of the corpus-allatum corpus-cardiacum complex of homozygous fs(2)B females appear to be prevented from releasing their hormone products and undergo degenerative changes; these effects reversable by vitellogenic activity of wild-type ovary implanted into the abdomen of the fs(2)B female (King, Aggarwal, and Bodenstein, 1966, J. Exp. Zool. 161: 151-76; Aggarwal and King, 1971, J. Morphol. 134: 437-46). Abdominal fat cells of fs(2)B females 1.5 times size of those in wild type. They resemble male fat cells in having more fat and less glycogen than those of normal females; return to normal size and composition following implantation of wild-type ovary (Butterworth and Bodenstein, 1968, J. Exp. Zool. 167: 207-18). fs(2)B ovaries show reduced levels of thymidylate synthetase (Carpenter, 1973, Genetics 75: 113-22). RK3.

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Rbp9 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 M9PBZ2)

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

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Stage-specific extension of 3' UTRs observed during embryogenesis (FBrf0215804); all variants may not be annotated.

Stop-codon suppression (UAA) postulated; FBrf0216884.

Gene model reviewed during 5.44

Gene model reviewed during 5.52

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Rbp9-RB

FBtr0077637

NM_134297

3409

444

Rbp9-RC

FBtr0077639

NM_134300

3425

444

Rbp9-RE

FBtr0077638

NM_134298

3395

439

Rbp9-RF

FBtr0077640

NM_134299

3407

439

Rbp9-RG

FBtr0100468

NM_001014462

6976

439

Rbp9-RH

FBtr0290237

NM_057588

3478

439

Rbp9-RI

FBtr0290238

NM_057589

3493

444

Rbp9-RJ

FBtr0330213

NM_001273045

3390

684

Rbp9-RK

FBtr0343782

NM_001298640

3187

444

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

Rbp9-PB

FBpp0077322

46.8

444

9.22

FBpp0077324

46.8

444

9.22

FBpp0077323

46.2

439

9.53

FBpp0077325

46.2

439

9.53

FBpp0099898

46.2

439

9.53

FBpp0288676

46.2

439

9.53

FBpp0288677

46.8

444

9.22

FBpp0303246

71.2

684

10.02

FBpp0310347

46.8

444

9.22

Q9VQJ0

NP_001285569

AHN54084

Polypeptides with Identical Sequences

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

444 aa isoforms: Rbp9-PB, Rbp9-PC, Rbp9-PI, Rbp9-PK

439 aa isoforms: Rbp9-PE, Rbp9-PF, Rbp9-PG, Rbp9-PH

Additional Polypeptide Data and Comments

Reported size (kDa)

444, 439 (aa); 50 (kD observed)

(Kim and Baker, 1993)

Comments

Antibodies against Rbp9 protein recognize both forms of the protein.

(Kim and Baker, 1993)

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\Rbp9 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).

-0.48

Transcript Expression

expression microarray

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

eye

(Xu et al., 2004)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 9 -- 17

organism

Comment: extended 3' UTR isoform

(Hilgers et al., 2011)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

(Kim and Baker, 1993)

pupal stage & adult stage

(Kim and Baker, 1993)

Additional Descriptive Data

Zygotic-specific isoforms of Rbp9 with long 3' UTR extensions were observed.

(Hilgers et al., 2011)

Eye-enriched transcripts determined by ratio of expression level in wild-type heads. versus expression level in so heads.

(Xu et al., 2004)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

pharate adult stage P8 -- adult stage

adult central nervous system

(Kim and Baker, 1993)

oogenesis & adult stage | female

female germline cell | subset

(Soshnev et al., 2013)

germarium region 2b

(Soshnev et al., 2013)

adult stage | female & oogenesis

germarium region 2a

(Soshnev et al., 2013)

oogenesis stage S1 -- S3 & adult stage | female

nurse cell

(Soshnev et al., 2013)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

western blot

Stage

Tissue/Position (including subcellular localization)

Reference

pupal stage & adult stage

(Kim and Baker, 1993)

adult stage

cell body of lamina

(Kim and Baker, 1993)

adult ventral nerve cord

(Kim and Baker, 1993)

antenna

(Kim and Baker, 1993)

cell body of adult brain

(Kim and Baker, 1993)

Additional Descriptive Data

Rbp9 is found in region 2a of the germarium, remains high in region 2b, diminishes in region 3 as egg chambers form, and becomes undetectable beyond stage 3 egg chambers.

(Soshnev et al., 2013)

Rbp9 protein is localized to nerve cell bodies of the CNS in cryosections from pupae and adults. The nuclei of the brain and thoracic ganglion are the most heavily stained. Low levels are detected in the lamina cell body layer and antennae.

(Kim and Baker, 1993)

Marker for

Subcellular Localization

CV Term

Evidence

References

is_active_in cytoplasmic ribonucleoprotein granule

inferred from direct assay

(Grzejda et al., 2022)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Rbp9 in JBrowse

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

View exonic expression by developmental stage for Dmel\Rbp9

View exonic expression by tissue for Dmel\Rbp9

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

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

33498/tissue=All

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

FBgn0010263

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010263

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

FBgn0010263

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

CG3151

Flygut - An atlas of the Drosophila adult midgut

FBgn0010263

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 30 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 18 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Rbp9

Transgenic constructs containing regulatory region of Rbp9

Aberrations (Deficiencies and Duplications) ( 5 )

Inferred from experimentation ( 5 )

Gene partially disrupted in

Df(2L)C144

(Cook et al., 2010.1.8)

Gene disrupted in

Df(2L)16X42

(Kim-Ha et al., 1999)

Df(2L)ED206

(Grzejda et al., 2022)

Gene not disrupted in

Df(2L)3G

(Vázquez et al., 2008)

Df(2L)JS17

(BDGP Project Members, 1994-1999)

Inferred from location ( 9 )

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 | pupal stage, with Scer\GAL4^pnr-MD237

Rbp9^GD10278

lethal - all die before end of pupal stage | male, with Scer\GAL4^elav-C155

Rbp9^UAS.Tag:HA

partially lethal - majority die | pupal stage, with Scer\GAL4^pnr-MD237

Rbp9^GD10278

viable

viable, with Scer\GAL4^Mef2.PR

Rbp9^GD10278

Sterility

Allele

female semi-sterile

female sterile

female sterile, with Scer\GAL4^{VP16.nanos.UTR}

Rbp9^UASp.cJa

female sterile, with Scer\GAL4^VP16.otu

Rbp9^HMC04047

female sterile | recessive

Rbp9^B

Other Phenotypes

Allele

abnormal body color, with Scer\GAL4^pnr-MD237

Rbp9^GD10278

abnormal locomotor behavior | adult stage (with Df(2L)ED206)

Rbp9^P2690

abnormal locomotor behavior | adult stage | progressive

Rbp9^P2690

abnormal size | somatic clone, with Scer\GAL4^Tub.PU

Rbp9^JF03084

decreased cell number | somatic clone, with Scer\GAL4^Tub.PU

Rbp9^JF03084

paralytic | adult stage | progressive | heat sensitive

Rbp9^P2690

short lived (with Df(2L)ED206)

Rbp9^P2690

short lived | progressive

Rbp9^P2690

visible, with Scer\GAL4^pnr-MD237

Rbp9^GD10278

wild-type

Rbp9^+t17.1

Phenotype manifest in

Allele

adult midgut | somatic clone, with Scer\GAL4^Tub.PU

Rbp9^JF03084

cyst cell of ovary

egg chamber

egg chamber, with Scer\GAL4^{VP16.nanos.UTR}

Rbp9^UASp.cJa

embryonic/larval neuromuscular junction

Rbp9^P2690

fusome

Rbp9^Δ1

germarium

mesonotum, with Scer\GAL4^pnr-MD237

Rbp9^GD10278

NMJ bouton

Rbp9^P2690

nurse cell

ovariole

subperineurial glial sheath | adult stage

Rbp9^P2690

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) (110)

Hsap\ELAVL2

12 of 14

Yes

Hsap\ELAVL4

12 of 14

Yes

11 of 14

10 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

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1 of 14

1 of 14

1 of 14

1 of 14

1 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\RBMXL3

1 of 14

Yes

Hsap\RBMY1A1

1 of 14

Hsap\RBMY1B

1 of 14

Hsap\RBMY1C

1 of 14

Yes

Hsap\RBMY1D

1 of 14

Hsap\RBMY1E

1 of 14

Yes

Hsap\RBMY1F

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

144

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (54)

Rnor\Elavl2

12 of 14

Yes

Rnor\Elavl4

12 of 14

Yes

11 of 14

10 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

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1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mus musculus (laboratory mouse) (66)

Mmus\Elavl2

12 of 14

Yes

Mmus\Elavl3

11 of 14

Mmus\Elavl4

11 of 14

Yes

10 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

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1 of 14

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1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (61)

Xtro\elavl4

10 of 13

Yes

9 of 13

9 of 13

9 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Danio rerio (Zebrafish) (69)

Drer\elavl4

12 of 14

Yes

11 of 14

11 of 14

10 of 14

9 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

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1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Drer\si:ch1073-335m2.2

1 of 14

Drer\snrnp35

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (43)

Cele\exc-7

11 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

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1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (69)

Agam\AgaP_AGAP000965

7 of 12

Yes

5 of 12

5 of 12

2 of 12

1 of 12

1 of 12

Yes

Agam\AgaP_AGAP000921

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

1 of 12

1 of 12

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1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

Agam\AgaP_AGAP013440

1 of 12

Agam\EIF3G_ANOGA

1 of 12

Agam\NCBP2_ANOGA

1 of 12

Arabidopsis thaliana (thale-cress) (147)

Atha\AT2G35410

2 of 13

Yes

Atha\AT4G36960

2 of 13

Yes

Atha\AT5G51300

2 of 13

Yes

Atha\CP31B

2 of 13

Yes

Atha\CP33

2 of 13

Yes

Atha\PAB1

2 of 13

Yes

Atha\PAB6

2 of 13

Yes

Atha\PAB7

2 of 13

Yes

Atha\RBP31

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

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1 of 13

1 of 13

1 of 13

Yes

Atha\AT2G33410

1 of 13

Atha\AT2G37220

1 of 13

Atha\AT2G37510

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT3G46020

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT4G14300

1 of 13

Atha\AT4G19610

1 of 13

Atha\AT4G20030

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT5G19350

1 of 13

Atha\AT5G19960

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT5G55550

1 of 13

Atha\AT5G55670

1 of 13

Atha\AT5G59860

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\GR-RBP5

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (23)

Scer\NAM8

2 of 13

Yes

Scer\NGR1

2 of 13

Yes

Scer\TIF35

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Scer\NOP15

1 of 13

Scer\NPL3

1 of 13

Scer\NSR1

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Scer\SBP1

1 of 13

Yes

Scer\SGN1

1 of 13

Scer\SNP1

1 of 13

Schizosaccharomyces pombe (Fission yeast) (23)

Spom\mug28

2 of 12

Yes

Spom\SPAC328.05

2 of 12

Yes

Spom\tif35

2 of 12

Yes

Spom\crp79

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Rbp9. 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) (57)

fne

11 of 13

elav

9 of 13

ssx

5 of 13

maca

4 of 13

Sxl

4 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

hfp

2 of 13

lark

2 of 13

mod

2 of 13

pAbp

2 of 13

Rox8

2 of 13

Spx

2 of 13

TBPH

2 of 13

trv

2 of 13

B52

1 of 13

bol

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

LS2

1 of 13

msi

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

SF2

1 of 13

SLIRP1

1 of 13

snRNP-U1-70K

1 of 13

sqd

1 of 13

Syp

1 of 13

tra2

1 of 13

tsu

1 of 13

U2af50

1 of 13

x16

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 1 )

Allele

Disease

Interaction

References

Rbp9^Δ1

ameliorates nervous system disease

modeled by Atpα^CJ5

(Talsma et al., 2014)

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?

ELAVL2; ELAV like RNA binding protein 2

12 of 14

601673

ELAVL4; ELAV like RNA binding protein 4

12 of 14

168360

ELAVL3; ELAV like RNA binding protein 3

11 of 14

603458

ELAVL1; ELAV like RNA binding protein 1

10 of 14

603466

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

RNA-protein

Physical Interaction

Assay

References

Rbp9 - bam

nucleic acid uv cross-linking assay, autoradiography

(Kim-Ha et al., 1999)

Rbp9 - lncRNA:mimi

anti tag coimmunoprecipitation, nucleic acid uv cross-linking assay, quantitative reverse transcription pcr, Identification by mass spectrometry

(Grzejda et al., 2022)

protein-protein

Physical Interaction

Assay

References

Rbp9

two hybrid

(Toba and White, 2008)

Rbp9 - elav

two hybrid

(Toba and White, 2008)

Rbp9 - fne

two hybrid

(Toba and White, 2008)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase 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

Rbp9

suppressible

cup

(Keyes and Spradling, 1997)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

elav

suppressible

Rbp9

(Zaharieva et al., 2015)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

59718

DroID - A comprehensive database of gene and protein interactions.

FBgn0010263

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

33498

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

HuR (ELAVL1) binds and stabilizes mRNA

Class of Gene

gene_with_edited_transcript

(Graveley et al., 2011)

gene_with_stop_codon_read_through

(Jungreis et al., 2011)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-8

Cytogenetic map

23C3-23C3

Sequence location

2L:2,954,762..2,968,434 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

23C3-23C3

Limits computationally determined from genome sequence between P{PZ}lilli⁰⁰⁶³² and P{PZ}toc⁰¹³⁶¹

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

23C-23C

(Kim, 1993.4.12)

22E1-23D6

(determined by in situ hybridisation)

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

2-8

(FlyBase, 2016)

2-6.6

(Comeron et al., 2012)

2-5

Left of (cM)

Right of (cM)

Rrp1

(Huang et al., 1998)

Notes

Stocks and Reagents

Stocks (23)

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

Bloomington

605304

w^*; Rbp9^Δ1/CyO

12836

w¹¹¹⁸; P{GT1}Rbp9^BG02784

25776

w^*; P{lacW}Rbp9^P2567/CyO

25777

w^*; P{lacW}Rbp9^P2775/CyO

28669

y¹ v¹; P{TRiP.JF03084}attP2

42796

y¹ v¹; P{TRiP.GL01167}attP2

77873

y¹ w^*; PBac{UAS-HA.Rbp9}VK00013

56436

y¹ w^*; Mi{MIC}Rbp9^MI11550

605297

w^*; TI{TI}Rbp9^GFP/CyO, y⁺

3151R-1

v101412

v33939

w¹¹¹⁸; P{GD10278}v33939

More stocks available...

Genomic Clones (30)

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

cDNA Clones (50)

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

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.

FBgn0010263

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0010263

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Kim and Baker, 1993)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Area matching Drosophila rbp9 gene, Acc. No. S55886.

(Davies, 2001.3.15)

Rbp9 is required during the cystocyte differentiation stage in females for the maintenance of germline sexual identity.

(Lee et al., 2000)

Rbp9 protein binds bam mRNA to down-regulate bam protein expression. The concentrated localization of Rbp9 protein in the oocyte of the early egg chambers may be required for proper oocyte determination or positioning.

(Kim-Ha et al., 1999)

Rbp9 stimulates cystocyte differentiation by regulating the expression of bam.

(Kim-Ha et al., 1999)

Mutants show a female sterility phenotype, due to defective oogenesis, rather than neuronal defects.

(Kim-Ha et al., 1999)

The consensus Rbp9 binding site, UUUXUUUU, is present in two copies in the 3' untranslated region of emc mRNA. UV crosslinking demonstrates a specific interaction between the two, and Northern analysis revealed that Rbp9 functions as a regulator of mRNA stability.

(Park et al., 1998)

Mutants display germline hyperplastic phenotype.

(Mechler, 1994)

Rbp9 is molecularly characterised and expression pattern determined. Results suggest Rbp9 may be involved in the development of the nervous system perhaps by acting as a regulator of nervous system-specific RNA processing decisions.

(Kim and Baker, 1993)

A sequence comparison and numerical analysis of the RRM-containing (RNA recognition motif) proteins suggests that functionally related RRM-containing proteins have significant sequence similarities in their RRMs.

(Kim and Baker, 1993)

Relationship to Other Genes

Source for database merge of

Source for merge of: Rbp10 CG3151

(Misra, 2000.7.28)

Source for merge of: Rbp9 fs(2)B

(Donnelly et al., 2004)

Source for merge of: Rbp9 CG15402

(FlyBase Genome Annotators, 2002-2003)

Additional comments

Annotations CG3151 and CG15402 merged as CG3151 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Nomenclature History

Source for database identify of

Source for identity of: Rbp9 CG5808

(Kodira, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (23)

Reported As

Symbol Synonym

CG15402

(Spellman and Rubin, 2002)

CG3151

(National Institute of Genetics Fly Stocks, 2022-, Çiçek et al., 2016, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Perkins et al., 2009, Gandhi et al., 2007, Spellman and Rubin, 2002)

RBP9

(Chan et al., 2013, Colombrita et al., 2013, Soller et al., 2010, Tsoi, 1998.6.19, Kim, 1992.11.20)

RBP9-2

(Hughes, 1999)

RRM10

(Kim, 1993.3.10)

RRM9

(Kim, 1993.3.10)

Rbp10

Rbp9

(Kagemann et al., 2025, Samuels et al., 2025, Hughes et al., 2024, Saha et al., 2023, Berry et al., 2022, Lee et al., 2022, National Institute of Genetics Fly Stocks, 2022-, Kao et al., 2021, Kim et al., 2021, Lee et al., 2021, Pang et al., 2021, Pennemann et al., 2021, Xie et al., 2021, Carrasco et al., 2020, Kurmangaliyev et al., 2020, Rust et al., 2020, Wei et al., 2020, Foley et al., 2019, Lopez-Gonzalez et al., 2019, Baxley et al., 2017, Marcogliese et al., 2017, McClelland et al., 2017, Clandinin and Owens, 2016-, Aradska et al., 2015, Hsu et al., 2015, Yan and Perrimon, 2015, Zaharieva et al., 2015, Soshnev et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Li et al., 2012, Jungreis et al., 2011, Shulman et al., 2011, Cook et al., 2010.1.8, Kim et al., 2010, Toba et al., 2010, Toba and White, 2008, Vanzo et al., 2007, Kim et al., 2006, Jeong and Kim-Ha, 2004, Jeong and Kim-Ha, 2003, Spellman and Rubin, 2002, Kim-Ha, 2000, Kim-Ha, 1999.12.2)

Rpb9

(Vázquez et al., 2008)

fes

(Mulligan, 2003, Berg, 1994, Gateff, 1978)

fs(2)B

(Flatt et al., 2005, Kai et al., 2005, Donnelly et al., 2004, Gigliotti et al., 2000, de Cuevas et al., 1997, Keyes and Spradling, 1997, Sharakhov et al., 1997, Mechler, 1994, Watson et al., 1994, Malceva and Zhimulev, 1993, Gateff and Mechler, 1989)

rbp

(Tchurikov et al., 1998)

rbp9

(Grzejda et al., 2022, Zanini et al., 2012, Hilgers et al., 2011, Tastan et al., 2010, Samson, 2008, Sofola et al., 2007, Wittwer et al., 2001, Mount, 2000.4.7, Ghabrial et al., 1998, Good, 1997, Kim, 1993.4.12, Kim and Baker, 1993, Yao et al., 1993)

rbp9a

(Tchurikov et al., 1998)

rrm10

(Kim and Baker, 1993)

rrm9

(Kim and Baker, 1993)

Name Synonyms

Arrest

(Li et al., 2012)

RNA binding protein 9

(Samson, 2008)

RNA-binding protein 10

RNA-binding protein 9

(Soshnev et al., 2013)

female sterile

(Berg, 1994)

female sterile (2) Bridges

(Flatt et al., 2005)

female sterile(2)Bridges

(Berg, 1994)

Secondary FlyBase IDs

FBgn0010253
FBgn0031482

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 99 )

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.

33498

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.

M9PBZ2

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

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.

M9PBZ2

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

33498/tissue=All

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

FBgn0010263

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

FBgn0010263

FlyMine - An integrated database for Drosophila genomics

FBgn0010263

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

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

dme:Dmel_CG3151

MARRVEL_MODEL - MARRVEL (model organism gene)

33498

Linkouts

BioGRID - A database of protein and genetic interactions.

59718

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

FBgn0010263

DroID - A comprehensive database of gene and protein interactions.

FBgn0010263

DRSC - Results frm RNAi screens

FBgn0010263

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010263

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0010263

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

CG3151

Flygut - An atlas of the Drosophila adult midgut

FBgn0010263

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

FBgn0010263

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

33498

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

HuR (ELAVL1) binds and stabilizes mRNA

References (164)

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

-0.48

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