FlyBase Gene Report: Dmel\shep

FB2026_01 , released March 12, 2026

FB2026_01 , released March 12, 2026

Gene: Dmel\shep

General Information

Symbol

Dmel\shep

Species

D. melanogaster

Name

alan shepard

Annotation Symbol

CG32423

Feature Type

protein_coding_gene

FlyBase ID

FBgn0052423

Gene Model Status

Stock Availability

110 publicly available

Gene Summary

alan shepard (shep) encodes an evolutionarily conserved RNA/DNA binding protein that regulates alternative splicing and gypsy insulator activities. It regulates neural development during the embryonic and larval stages, and neuronal remodeling during metamorphosis. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
UniProtKB
Interactive Fly

Also Known As

anon- EST:Posey83

Key Links

Genomic Location

Cytogenetic map

Sequence location

3L:5,155,821..5,277,944 [-]

Recombination map

3-13

RefSeq locus

NT_037436 REGION:5155821..5277944

Sequence

Get Decorated FASTA

Genomic Maps

Other Genome Views

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

Function

Gene Ontology (GO) Annotations (16 terms)

Molecular Function (6 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (6 terms)

CV Term

Evidence

References

enables mRNA 3'-UTR binding

inferred from biological aspect of ancestor with PANTHER:PTN000610044

(GO Reference Genome Project, 2011-)

enables mRNA binding

inferred from sequence or structural similarity

(Lasko, 2000)

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables poly(A) binding

inferred from biological aspect of ancestor with PANTHER:PTN000610044

(GO Reference Genome Project, 2011-)

enables poly(U) RNA binding

inferred from biological aspect of ancestor with PANTHER:PTN000610044

(GO Reference Genome Project, 2011-)

enables RNA binding

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

(InterPro Project Members, 2004-)

Biological Process (7 terms)

Terms Based on Experimental Evidence (7 terms)

CV Term

Evidence

References

involved_in adult locomotory behavior

inferred from mutant phenotype

(Chen et al., 2014)

involved_in female courtship behavior

inferred from mutant phenotype

(Chen et al., 2014)

involved_in gravitaxis

inferred from mutant phenotype

(Armstrong et al., 2006)

involved_in metamorphosis

inferred from mutant phenotype

(Chen et al., 2014)

involved_in neuron remodeling

inferred from mutant phenotype

(Chen et al., 2014)

involved_in response to endoplasmic reticulum stress

inferred from high throughput mutant phenotype

(Chow et al., 2013)

involved_in response to gravity

inferred from mutant phenotype

(Armstrong et al., 2006)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in cytosol

inferred from high throughput direct assay

(Lye et al., 2014)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

is_active_in cytosol

inferred from biological aspect of ancestor with PANTHER:PTN000610044

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000610044

(GO Reference Genome Project, 2011-)

part_of ribonucleoprotein complex

inferred from electronic annotation with InterPro:IPR002343

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN002768817

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

Protein Family (UniProt)

-

Protein Signatures (InterPro)

Summaries

Gene Snapshot

alan shepard (shep) encodes an evolutionarily conserved RNA/DNA binding protein that regulates alternative splicing and gypsy insulator activities. It regulates neural development during the embryonic and larval stages, and neuronal remodeling during metamorphosis. [Date last reviewed: 2019-03-14]

Protein Function (UniProtKB)

Has a role in the perception of gravity.

(UniProt, Q8MSV2)

Summary (Interactive Fly)

RNA-binding protein - regulates insulator activity - regulates neuronal remodeling during metamorphosis, regulates gravitaxis

Interactive Fly

Gene Model and Products

Number of Transcripts

8

Number of Unique Polypeptides

6

Please see the JBrowse view of Dmel\shep 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 Q8MSV2)

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

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

Gene model reviewed during 5.40

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

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

Gene model reviewed during 5.46

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

A non-AUG start codon may be used for translation of one or more transcripts of this gene; based on the presence of conserved protein signatures within the 5' UTR without an in-frame AUG (FBrf0243886).

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

FBtr0077172

3036

578

FBtr0077174

7989

499

FBtr0077173

4580

499

FBtr0301599

2776

379

FBtr0308859

5850

590

FBtr0333287

2541

379

FBtr0333288

7617

371

FBtr0333289

4661

377

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

FBpp0076875

60.7

578

9.32

FBpp0076877

53.0

499

8.47

FBpp0076876

53.0

499

8.47

FBpp0290814

41.3

379

7.90

FBpp0301014

62.2

590

9.20

FBpp0305482

41.3

379

7.90

FBpp0305483

40.3

371

7.90

FBpp0305484

41.0

377

7.90

Polypeptides with Identical Sequences

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

499 aa isoforms: shep-PB, shep-PD

379 aa isoforms: shep-PE, shep-PG

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

Q8MSV2

Mapped Features

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

-0.93

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

anlage in statu nascendi

(Fisher et al., 2012)

anterior endoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

head mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

embryonic stage 7 -- 8

anterior endoderm anlage

(Fisher et al., 2012)

(Fisher et al., 2012)

embryonic stage 9 -- 10

anterior endoderm

(Fisher et al., 2012)

crystal cell primordium

Comment: reported as crystal cell specific anlage

(Fisher et al., 2012)

(Fisher et al., 2012)

embryonic stage 9 -- 12

midline primordium | subset

(Kearney et al., 2004)

embryonic stage 9 -- 17

Comment: extended 3' UTR isoform

(Hilgers et al., 2011)

embryonic stage 11 -- 12

central brain primordium

(Fisher et al., 2012)

garland cell primordium

(Fisher et al., 2012)

midline primordium

(Fisher et al., 2012)

larval ventral midline glial cell

(Fisher et al., 2012)

procrystal cell

(Fisher et al., 2012)

embryonic ventral midline neuroblast

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 15 -- 17

larval central nervous system

(Schachtner et al., 2015)

Additional Descriptive Data

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

(Hilgers et al., 2011)

Expression pattern inferred from unspecified enhancer trap line.

(Kearney et al., 2004)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 14

larval central nervous system

(Matzat et al., 2012)

embryonic stage 15 -- 17

larval central nervous system

(Schachtner et al., 2015)

midline glial cell

(Schachtner et al., 2015)

third instar larval stage

(Chen et al., 2018)

larval glial cell

(Chen et al., 2018)

wandering third instar larval stage

larval multidendritic class IV neuron

(Schachtner et al., 2015)

larval chordotonal neuron

(Schachtner et al., 2015)

larval abdominal lch5 neuron

(Schachtner et al., 2015)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

High levels of shep protein are observed in neurons marked by elav and low levels are seen in glial cells marked by repo in third instar larvae. It is absent in neuroblasts marked by dpn.

(Chen et al., 2018)

shep protein is enriched in the embryonic CNS including the brain and ventral nerve cord, areas that are also positive for the neuron-specific protein elav. The overlap between shep and elav is partial in that shep is also expressed in glial cells. shep levels are low but detectable in non-CNS tissues

(Matzat et al., 2012)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytosol

inferred from high throughput direct assay

(Lye et al., 2014)

Expression Deduced from Reporters

Reporter: P{GT1}shep^BG01322

Stage

Tissue/Position (including subcellular localization)

Reference

olfactory receptor neuron | subset

(Tunstall et al., 2012)

Reporter: PBac{754.P.FSVS-0}shep^CPTI002796

Stage

Tissue/Position (including subcellular localization)

Reference

adult brain cell body rind

(Knowles-Barley, 2011.8.24)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\shep in JBrowse

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

View exonic expression by developmental stage for Dmel\shep

View exonic expression by tissue for Dmel\shep

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

FBgn0052423

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

38605/tissue=All

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

FBgn0052423

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052423

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

FBgn0052423

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

Flygut - An atlas of the Drosophila adult midgut

FBgn0052423

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\shep

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 53 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 12 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of shep

Transgenic constructs containing regulatory region of shep

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 8 )

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

shep^BG01322

partially lethal - majority live

shep^BG00836

partially lethal - majority live, with Scer\GAL4^elav-C155

shep^GD5125

viable, with Scer\GAL4^Mef2.PR

shep^GD5125

viable, with Scer\GAL4^pnr-MD237

shep^GD5125

viable, with Scer\GAL4^tin.CΔ4

shep^GD5125

Sterility

Allele

shep^EY04794

Other Phenotypes

Allele

abnormal eclosion

shep^BG00836

abnormal eclosion, with Scer\GAL4^elav-C155

shep^GD5125

abnormal gravitaxis

shep^c522

abnormal locomotor behavior | adult stage, with Scer\GAL4^elav-C155

shep^GD5125

abnormal neuroanatomy, with Scer\GAL4^elav-C155

shep^GD5125

abnormal neuroanatomy | pharate adult stage (with Df(3L)ED210)

shep^BG00836

abnormal neuroanatomy | pharate adult stage | recessive

shep^BG00836

decreased cell size | pharate adult stage | recessive

shep^BG00836

short lived, with Scer\GAL4^elav-C155

shep^GD5125

some die during P-stage

shep^BG00836

some die during P-stage, with Scer\GAL4^elav-C155

shep^GD5125

some die during pupal stage, with Scer\GAL4^elav-C155

shep^GD5125

visible, with Scer\GAL4^elav-C155

shep^GD5125

visible, with Scer\GAL4^nub-AC-62

shep^HMS02666

Phenotype manifest in

Allele

adult CCAP neuron | pharate adult stage

shep^BG00836

axon | pharate adult stage, with Scer\GAL4^CCAP.PP

shep^GD5125

axon | pharate adult stage (with Df(3L)ED210)

shep^BG00836

neuronal cell body | pharate adult stage, with Scer\GAL4^CCAP.PP

shep^GD5125

neuronal cell body | pharate adult stage (with Df(3L)ED210)

shep^BG00836

NMJ bouton | pharate adult stage (with Df(3L)ED210)

shep^BG00836

peptidergic neuron | pharate adult stage, with Scer\GAL4^CCAP.PP

shep^GD5125

peptidergic neuron | pharate adult stage (with Df(3L)ED210)

shep^BG00836

wing, with Scer\GAL4^elav-C155

shep^GD5125

wing, with Scer\GAL4^nub-AC-62

shep^HMS02666

wing vein | ectopic

shep^BG00836

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) (34)

10 of 14

Yes

Yes

1

9 of 14

No

Yes

9 of 14

No

Yes

2 of 14

No

No

3

2 of 14

No

No

3

2 of 14

No

No

2

1 of 14

No

No

3

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

2

1 of 14

No

No

1 of 14

No

No

1

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

2

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1

1 of 14

No

No

1

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

Hsap\RBM14-RBM4

1 of 14

No

No

1 of 14

No

No

1

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1

1 of 14

No

No

1 of 14

No

No

1

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (15)

10 of 14

Yes

Yes

9 of 14

No

Yes

9 of 14

No

Yes

2 of 14

No

No

2 of 14

No

No

2 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

Mus musculus (laboratory mouse) (18)

10 of 14

Yes

Yes

9 of 14

No

Yes

9 of 14

No

Yes

2 of 14

No

No

2 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

Xenopus tropicalis (Western clawed frog) (21)

6 of 13

Yes

Yes

5 of 13

No

Yes

5 of 13

No

Yes

2 of 13

No

No

2 of 13

No

No

2 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

Danio rerio (Zebrafish) (20)

10 of 14

Yes

Yes

10 of 14

Yes

Yes

9 of 14

No

Yes

8 of 14

No

Yes

Drer\LOC100333618

6 of 14

No

Yes

2 of 14

No

No

2 of 14

No

No

2 of 14

No

No

2 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

Drer\zgc:163098

1 of 14

No

No

Caenorhabditis elegans (Nematode, roundworm) (14)

7 of 14

Yes

Yes

2 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

1 of 14

No

No

Anopheles gambiae (African malaria mosquito) (16)

Agam\AgaP_AGAP005964

10 of 12

Yes

Yes

Agam\AgaP_AGAP000965

2 of 12

No

No

Agam\AgaP_AGAP001883

2 of 12

No

No

Agam\AgaP_AGAP009952

2 of 12

No

No

Agam\AgaP_AGAP000977

1 of 12

No

No

Agam\AgaP_AGAP001419

1 of 12

No

No

Agam\AgaP_AGAP001538

1 of 12

No

No

Agam\AgaP_AGAP002335

1 of 12

No

No

Agam\AgaP_AGAP003899

1 of 12

No

No

Agam\AgaP_AGAP004950

1 of 12

No

No

Agam\AgaP_AGAP005117

1 of 12

No

No

Agam\AgaP_AGAP005292

1 of 12

No

No

Agam\AgaP_AGAP006090

1 of 12

No

No

Agam\AgaP_AGAP006733

1 of 12

No

No

Agam\AgaP_AGAP006798

1 of 12

No

No

Agam\AgaP_AGAP011092

1 of 12

No

No

Arabidopsis thaliana (thale-cress) (49)

2 of 13

Yes

No

2 of 13

Yes

No

2 of 13

Yes

No

2 of 13

Yes

No

2 of 13

Yes

No

2 of 13

Yes

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

Yes

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

1 of 13

No

No

Saccharomyces cerevisiae (Brewer's yeast) (6)

1 of 13

Yes

No

1 of 13

Yes

No

1 of 13

Yes

No

1 of 13

Yes

Yes

1 of 13

Yes

No

1 of 13

Yes

No

Schizosaccharomyces pombe (Fission yeast) (4)

7 of 12

Yes

Yes

1 of 12

No

No

Spom\SPAC23A1.09

1 of 12

No

No

Spom\SPAC328.05

1 of 12

No

No

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:shep. 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) (29)

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 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

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

ameliorates amyotrophic lateral sclerosis type 10

modeled by Hsap\TARDBP^{M337V.UAS.Tag:MYC}

(Markmiller et al., 2018)

ameliorates amyotrophic lateral sclerosis type 6

modeled by Hsap\FUS^{R521C.UAS.Tag:HA}

(Markmiller et al., 2018)

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?

RBMS2; RNA binding motif single stranded interacting protein 2

10 of 14

RBMS1; RNA binding motif single stranded interacting protein 1

9 of 14

RBMS3; RNA binding motif single stranded interacting protein 3

9 of 14

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

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

electrophoretic mobility shift assay, autoradiography

(Chen et al., 2019)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

electrophoretic mobility shift assay, autoradiography

(Chen et al., 2019)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

coimmunoprecipitation, quantitative reverse transcription pcr

(Olesnicky et al., 2018)

protein-protein

Physical Interaction

Assay

References

anti bait coimmunoprecipitation, western blot

(Matzat et al., 2012)

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Olesnicky et al., 2018)

shep - mod(mdg4)

pull down, anti tag western blot, anti bait coimmunoprecipitation, western blot, two hybrid

(Matzat et al., 2012)

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Olesnicky et al., 2018)

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

(Matzat et al., 2012)

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Olesnicky et al., 2018)

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Olesnicky et al., 2018)

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

enhanceable

(Chen et al., 2019)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

64073

DroID - A comprehensive database of gene and protein interactions.

FBgn0052423

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

38605

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene_with_edited_transcript

(Rodriguez et al., 2012)

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

3L

Recombination map

3-13

Cytogenetic map

Sequence location

3L:5,155,821..5,277,944 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

64C7-64C11

; Limits computationally determined from genome sequence between P{PZ}l(3)rG166^rG166 and P{PZ}sinu⁰⁶⁵²⁴

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-13

(FlyBase, 2016)

3-12.5

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (110)

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

12129

P{VT025931-GAL4}attP2

12399

P{VT025924-GAL4}attP2

12400

P{VT025925-GAL4}attP2

12401

P{VT025935-GAL4}attP2

12402

P{VT025936-GAL4}attP2

12403

P{VT025944-GAL4}attP2

12659

P{VT025921-GAL4}attP2

12920

P{VT025937-GAL4}attP2

13137

P{VT025929-GAL4}attP2

13138

P{VT025938-GAL4}attP2

32423R-2

v330222

P{VSH330222}attP40

More stocks available...

Genomic Clones (94)

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

cDNA Clones (138)

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.

FBgn0052423

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0052423

Antibody Information

Laboratory Generated Antibodies

monoclonal

(Na et al., 2016)

polyclonal

(Chen et al., 2014, Matzat et al., 2012)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identified as a candidate gene for hypoxia-specific selection (via an experimental evolution paradigm) that is also differentially expressed between control and hypoxia-adapted larvae.

(Jha et al., 2016)

Nonsense-mediated mRNA decay (NMD) down-regulates a distinct splice isoform(s) of this gene.

(Hansen et al., 2009)

Area matching Drosophila EST AA949873.

(Davies, 2001.3.15)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG32423 anon- EST:Posey83

(FlyBase Genome Annotators, 2005)

Source for merge of: CG32423 BcDNA:RH63980

(FlyBase, 1996-)

Source for merge of: CG10668 CG10649 CG10647

(FlyBase Genome Annotators, 2002-2003)

Source for merge of: CG32423 anon-WO0118547.198 anon-WO0172774.41

(FlyBase, 1996-)

Source for merge of: CG32423 BcDNA:LD40028

(FlyBase, 1996-)

Additional comments

Annotations CG10668, CG10649 and CG10647 merged as CG32423 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Source for merge of CG32423 BcDNA:RH63980 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Source for merge of CG32423 anon-WO0118547.198 anon-WO0172774.41 was sequence comparison ( date:051113 ).

(FlyBase, 1996-)

Source for merge of CG32423 BcDNA:LD40028 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

The full name of this gene, 'alan shepard' commemorates one astronaut. The symbol of this gene, 'shep' commemorates another, William 'Shep' Shepherd.

(Beckingham, 2007.1.19)

The 'alan' gene is named after Alan Shepard, the first American in space.

(Bjorum, 2006.3.3)

Synonyms and Secondary IDs (16)

Reported As

Symbol Synonym

BcDNA:LD40028

BcDNA:RH63980

CG10647

CG10649

CG10668

(Freeman et al., 2003)

Shep

(Berry et al., 2022, Cattenoz et al., 2021, Jevitt et al., 2020, Meyer-Nava et al., 2020, Wang et al., 2018, Dale et al., 2014, Matzat et al., 2012, Shimada et al., 2011)

alan

(Bjorum and Beckingham, 2007)

alan-shepard

anon-EST:Posey83

(Ashburner, 2004.6.30)

anon-WO0118547.198

anon-WO0172774.41

cg10668

(Lasko, 2000)

shep

(Li et al., 2025, Titlow et al., 2023, Beaver et al., 2022, Joseph et al., 2022, Chen et al., 2021, McLaughlin et al., 2021, Pennemann et al., 2021, Sapiro et al., 2020, Berson et al., 2019, Chen and Lei, 2019, Chen et al., 2019, FlyBase Genome Annotators, 2019-, Harbison et al., 2019, Meltzer et al., 2019, Markmiller et al., 2018, Chen et al., 2017, Corrales et al., 2017, Vallejos Baier et al., 2017, Jha et al., 2016, Na et al., 2016, Brooks et al., 2015, Duff et al., 2015, Gene Disruption Project members, 2015-, Horan et al., 2015, Li et al., 2015, Ashwal-Fluss et al., 2014, Chen et al., 2014, Chow et al., 2013, Smibert et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Matzat et al., 2012, Rodriguez et al., 2012, Smibert et al., 2012, Tunstall et al., 2012, Hilgers et al., 2011, Cook et al., 2010.2.12, Reis et al., 2010, Hansen et al., 2009, Beckingham, 2007.1.19)

Name Synonyms

Alan shepard

(Nguyen et al., 2016)

alan shepard

(Dyson et al., 2025, Jha et al., 2016, Holloway et al., 2008, Bjorum, 2006.3.3)

Secondary FlyBase IDs

FBgn0027668
FBgn0035595
FBgn0035597
FBgn0035599
FBgn0046389
FBgn0062176
FBgn0062425
FBgn0063142

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 106 )

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.

38605

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.

Q8MSV2

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

Q8MSV2

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.

Q8MSV2

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0052423

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

38605/tissue=All

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

FBgn0052423

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

FBgn0052423

FlyMine - An integrated database for Drosophila genomics

FBgn0052423

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

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

dme:Dmel_CG32423

MARRVEL_MODEL - MARRVEL (model organism gene)

38605

Linkouts

BioGRID - A database of protein and genetic interactions.

64073

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

FBgn0052423

DroID - A comprehensive database of gene and protein interactions.

FBgn0052423

DRSC - Results frm RNAi screens

FBgn0052423

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052423

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0052423

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

Flygut - An atlas of the Drosophila adult midgut

FBgn0052423

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

TC005341

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

Interactive Fly

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

38605

References (135)