FlyBase Gene Report: Dmel\SF2

General Information

Symbol

Dmel\SF2

Species

D. melanogaster

Name

Splicing factor 2

Annotation Symbol

CG6987

Feature Type

protein_coding_gene

FlyBase ID

FBgn0283477

Gene Model Status

Current

Stock Availability

10 publicly available

Gene Summary

Splicing factor 2 (SF2) encodes a protein involved in alternative mRNA splicing, RNA export from the nucleus and the regulation of the RNA metabolism. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

dASF, ASF/SF2, SRp30, dSF2/ASF, ASF

Key Links

Genomic Location

Cytogenetic map

89B13-89B13

Sequence location

3R:16,338,943..16,341,988 [-]

Recombination map

3-58

RefSeq locus

NT_033777 REGION:16338943..16341988

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 (15 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

enables DNA binding

inferred from direct assay

(Lynch and Maniatis, 1996)

enables mRNA binding

inferred from direct assay

(Bradley et al., 2015)

enables protein binding

inferred from physical interaction with FLYBASE:tra2; FB:FBgn0003742

(Amrein et al., 1994)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables mRNA binding

inferred from sequence or structural similarity

(Lasko, 2000)

enables RNA binding

inferred from biological aspect of ancestor with PANTHER:PTN000567445

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR000504

(InterPro Project Members, 2004-)

Biological Process (7 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

involved_in regulation of alternative mRNA splicing, via spliceosome

inferred from mutant phenotype

(Bradley et al., 2015)

involved_in regulation of gene expression

inferred from mutant phenotype

(Bradley et al., 2015)

involved_in regulation of mRNA 3'-end processing

inferred from mutant phenotype

(Bradley et al., 2015)

involved_in regulation of transcriptional start site selection at RNA polymerase II promoter

inferred from mutant phenotype

(Bradley et al., 2015)

involved_in RNA export from nucleus

inferred from mutant phenotype

(Hautbergue et al., 2017)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in alternative mRNA splicing, via spliceosome

inferred from biological aspect of ancestor with PANTHER:PTN001234186

(GO Reference Genome Project, 2011-)

involved_in mRNA splicing, via spliceosome

inferred by curator from GO:0071011,GO:0071013

(Herold et al., 2009)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

located_in nucleus

inferred from direct assay

(Allemand et al., 2002, Lynch and Maniatis, 1996)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

is_active_in nuclear speck

inferred from biological aspect of ancestor with PANTHER:PTN000567445

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

CANONICAL SERINE AND ARGININE RICH SPLICING FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Splicing factor 2 (SF2) encodes a protein involved in alternative mRNA splicing, RNA export from the nucleus and the regulation of the RNA metabolism. [Date last reviewed: 2019-09-12]

Gene Group (FlyBase)

CANONICAL SERINE AND ARGININE RICH SPLICING FACTORS -: Canonical serine and arginine rich splicing factors contain 1-2 RNA-binding motifs and an RS domain. They are involved in the recruitment of spliceosomal components, interacting with pre-mRNA exonic sequences to regulate splice site selection. (Adapted from FBrf0243536.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\SF2 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 Q9V3W7)

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

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

Gene model reviewed during 5.55

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

SF2-RA

FBtr0083272

NM_144354

1392

255

SF2-RB

FBtr0304727

NM_001260210

2576

255

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

SF2-PA

FBpp0082724

28.3

255

10.32

FBpp0293269

28.3

255

10.32

Q9V3W7

NP_001247139

AFH06457

Polypeptides with Identical Sequences

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

255 aa isoforms: SF2-PA, SF2-PB

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

Q9V3W7

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\SF2 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).

-0.47

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 | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

anterior midgut primordium

(Fisher et al., 2012)

central brain primordium

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

larval nervous system

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

larval ventral nerve cord

(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)

day 7 of adulthood -- day 49 of adulthood

adult heart

(Cammarato et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

located_in nucleus

inferred from direct assay

(Allemand et al., 2002, Lynch and Maniatis, 1996)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

Expression Deduced from Reporters

Reporter: P{ST.lexA::HG}SE167

Stage

Tissue/Position (including subcellular localization)

Reference

wandering third instar larval stage

larval central nervous system