FlyBase Gene Report: Dmel\rump

General Information

Symbol

Dmel\rump

Species

D. melanogaster

Name

rumpelstiltskin

Annotation Symbol

CG9373

Feature Type

protein_coding_gene

FlyBase ID

FBgn0267790

Gene Model Status

Current

Stock Availability

13 publicly available

Gene Summary

rumpelstiltskin (rump) encodes the Drosophila hnRNP M homolog. It binds to nanos and osk mRNAs and plays a role in mRNA localization to the germ plasm by diffusion/entrapment during late stages of oogenesis. It also binds to exonic splicing enhancers on pre-mRNA targets, implicating it as a splicing factor. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Also Known As

S5, Hrp59, hnRNP M, p75

Key Links

Genomic Location

Cytogenetic map

85D18-85D19

Sequence location

3R:9,505,853..9,510,324 [-]

Recombination map

3-48

RefSeq locus

NT_033777 REGION:9505853..9510324

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 (17 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables mRNA 3'-UTR binding

inferred from direct assay

(Sinsimer et al., 2011, Jain and Gavis, 2008)

enables mRNA binding

inferred from direct assay

(Kiesler et al., 2005)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

enables mRNA 3'-UTR binding

traceable author statement

(Johnstone and Lasko, 2001)

enables mRNA binding

inferred from biological aspect of ancestor with PANTHER:PTN002345455

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity

(Lasko, 2000)

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR000504

(InterPro Project Members, 2004-)

Biological Process (7 terms)

Terms Based on Experimental Evidence (7 terms)

CV Term

Evidence

References

involved_in anterior/posterior axis specification, embryo

inferred from mutant phenotype

(Jain and Gavis, 2008)

involved_in anterior/posterior pattern specification

inferred from genetic interaction with FLYBASE:lost; FB:FBgn0263594

(Sinsimer et al., 2011)

involved_in intracellular mRNA localization

inferred from mutant phenotype

(Jain and Gavis, 2008)

involved_in mitotic cell cycle

inferred from high throughput mutant phenotype

(Ducat et al., 2008)

involved_in pole cell development

inferred from genetic interaction with FLYBASE:lost; FB:FBgn0263594

(Sinsimer et al., 2011)

involved_in pole plasm oskar mRNA localization

inferred from genetic interaction with FLYBASE:lost; FB:FBgn0263594

(Sinsimer et al., 2011)

involved_in segmentation

inferred from genetic interaction with FLYBASE:nanos; FB:FBgn0002962

(Becalska et al., 2011)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (6 terms)

Terms Based on Experimental Evidence (6 terms)

CV Term

Evidence

References

located_in chromatin

inferred from direct assay

(Prasanth et al., 2000)

located_in cytoplasm

inferred from direct assay

(Jain and Gavis, 2008)

located_in nucleoplasm

inferred from high throughput direct assay

(Lye et al., 2014)

located_in nucleus

inferred from direct assay

(Jain and Gavis, 2008)

located_in omega speckle

inferred from direct assay

(Prasanth et al., 2000)

part_of ribonucleoprotein complex

inferred from direct assay

(Sinsimer et al., 2011)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN002345455

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN002345455

(GO Reference Genome Project, 2011-)

part_of ribonucleoprotein complex

inferred from biological aspect of ancestor with PANTHER:PTN000543776

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\rump 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 Q9VHC7)

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

Gene model reviewed during 5.47

Gene model reviewed during 5.41

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

Multiphase exon postulated: exon reading frame differs in alternative transcripts; overlap >20aa.

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

rump-RA

FBtr0082123

NM_141642

2358

632

rump-RB

FBtr0304684

NM_001260075

2219

214

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

rump-PA

FBpp0081601

66.7

632

8.03

FBpp0293226

23.6

214

9.90

A0A0B4K6Z1

NP_001247004

AFH06322

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

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\rump using the Feature Mapper tool.

External Data

Crossreferences

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).

0.12

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism | ubiquitous

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

embryonic stage 7 -- 8

antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

anterior endoderm anlage

(Fisher et al., 2012)

dorsal ectoderm

(Fisher et al., 2012)

foregut anlage

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

hindgut anlage

(Fisher et al., 2012)

mesectoderm

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

ventral ectoderm

(Fisher et al., 2012)

ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(Fisher et al., 2012)

embryonic stage 9 -- 10

antennal primordium