FlyBase Gene Report: Dmel\SmB

General Information

Symbol

Dmel\SmB

Species

D. melanogaster

Name

Small ribonucleoprotein particle protein SmB

Annotation Symbol

CG5352

Feature Type

protein_coding_gene

FlyBase ID

FBgn0262601

Gene Model Status

Current

Stock Availability

12 publicly available

Gene Summary

Small ribonucleoprotein particle protein SmB (SmB) encodes an RNA binding protein that forms a heterodimeric sub-complex with the product of SmD3. They function as part of the heteroheptameric ring complex Sm core, which is involved in the formation of spliceosomal small nuclear RNPs (U1, U2, U4 and U5), which together catalyze pre-mRNA splicing. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

Sm B, Small ribonucleoprotein particle protein B

Key Links

Genomic Location

Cytogenetic map

31E1-31E1

Sequence location

2L:10,425,483..10,426,627 [-]

Recombination map

2-42

RefSeq locus

NT_033779 REGION:10425483..10426627

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 (19 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables RNA binding

inferred from electronic annotation with InterPro:IPR047575

(InterPro Project Members, 2004-)

inferred from sequence or structural similarity with UniProtKB:P14678

(Gene Ontology Curators, 2002-)

enables snRNP binding

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in germ cell development

inferred from mutant phenotype

(Anne, 2010)

involved_in gonad development

inferred from mutant phenotype

(Anne, 2010)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in mRNA splicing, via spliceosome

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

inferred by curator from GO:0071011,GO:0071013

(Herold et al., 2009)

Cellular Component (14 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

located_in Cajal body

inferred from direct assay

(Anne, 2010)

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

located_in nucleus

inferred from direct assay

(Anne, 2010, Anne et al., 2007)

located_in pole plasm

inferred from direct assay

(Anne, 2010, Gonsalvez et al., 2010)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

Terms Based on Predictions or Assertions (10 terms)

CV Term

Evidence

References

part_of catalytic step 2 spliceosome

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of small nuclear ribonucleoprotein complex

inferred from sequence or structural similarity with SGD:S000000831

(Mount and Salz, 2000)

part_of spliceosomal complex

inferred from sequence or structural similarity with SGD:S000000831

(Mount and Salz, 2000)

part_of U1 snRNP

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of U2 snRNP

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of U2-type prespliceosome

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of U4 snRNP

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of U4/U6 x U5 tri-snRNP complex

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

part_of U5 snRNP

inferred from biological aspect of ancestor with PANTHER:PTN000075760

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

U1 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

U2 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

U4-U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

U4-U6-U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

SPLICEOSOMAL SM PROTEINS

SPLICEOSOME COMPLEX A

SPLICEOSOME COMPLEX B

SPLICEOSOME COMPLEX C

SPLICEOSOME COMPLEX P

U7 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE

U7 SM PROTEINS

Protein Family (UniProt)

Belongs to the snRNP SmB/SmN family. (Q05856)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

U1 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: The U1 small nuclear ribonucleoprotein particle (U1 snRNP) contains U1 snRNA and initiates spliceosome assembly by binding to the 5' splice site in pre-mRNA. (Adapted from PMID:11206553 and PMID:21441581).
U2 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: The U2 small nuclear ribonucleoprotein particle (U2 snRNP) contains U2 snRNA. It is recruited to the spliceosome after U1 snRNP and forms a stable interaction with the branch site and 3' splice site in pre-mRNA. (Adapted from PMID:23829528 and PMID:21441581).
U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: The U5 small nuclear ribonucleoprotein particle (U5 snRNP) contains U5 RNA and assembles with U4-U6 snRNP to form the U4-U6.U5 tri-snRNP. U5 snRNA interacts with the 5' and 3' exons. (Adapted from PMID:21441581).
U4-U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: The U4/U6 small nuclear ribonucleoprotein particle (U4/U6 snRNP) is a complex that contains base-paired U4 and U6 snRNAs. U4/U6 snRNP assembles with U5 to form the U4/U6.U5 tri-snRNP. (Adapted from PMID:21441581).
U4-U6-U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: U4/U6.U5 tri-snRNP is assembled from U5 and U4/U6 snRNPs. The complex contains U4 and U6 snRNAs base-paired with each other and U6 snRNA. This complex is recruited to the pre-catalytic splicing intermediate, complex B. (Adapted from PMID:21441581).
SPLICEOSOMAL SM PROTEINS -: The spliceosomal Sm proteins are common to all spliceosomal small nuclear ribonucleoproteins (snRNPs). Sm proteins assemble in a stepwise manner onto the Sm site element of the U1, U2, U4 and U5 spliceosomal snRNAs forming a ring-shaped core RNP structure. (Adapted from PMID:11226169).
SPLICEOSOME COMPLEX A -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex A, the pre-spliceosome, is composed of U1 and U2 snRNPs and proteins involved in recognition of the 5' splice site and branch point. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX B -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. After the assembly of complex A on pre-mRNA, the U4-U6 and U5 snRNPs are recruited as a preassembled tri-snRNP to form complex B. U5 snRNP binds exons at the 5' site. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX C -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex B undergoes a number of structural rearrangements and U4 and U1 snRNPs dissociate to generate complex C, the catalytic spliceosome. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX P -: Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex P, the post-spliceosomal complex, is formed after the catalytic removal of the intron by complex C. Complex P contains the lariat intron and spliced exons. (Adapted from PMID:24452469 and PMID:23118483).
U7 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -: The U7 snRNP involved in histone pre-mRNA 3' end processing consists of two core components: an U7 snRNA and an unusual heptameric Sm ring. (Adapted from FBrf0168021 and FBrf0208608).
U7 SM PROTEINS -: The U7 snRNP is involved in histone mRNA 3' end processing. Sm proteins are common to all small nuclear ribonucleoproteins (snRNPs), assembling in a stepwise manner onto snRNAs, forming a ring-shaped core RNP structure. (Adapted from FBrf0168021 and FBrf0208608).

Protein Function (UniProtKB)

Plays a role in pre-mRNA splicing as a core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome (By similarity). Involved in germline establishment and development (PubMed:20570937, PubMed:20659974).

(UniProt, Q05856)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\SmB 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 Q05856)

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 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

SmB-RB

FBtr0304118

NM_001201851

776

199

Additional Transcript Data and Comments

Reported size (kB)

0.8 (longest cDNA)

(Brunet et al., 1993)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

SmB-PB

FBpp0293061

21.0

199

11.77

Q05856

NP_001188780

ADV37030

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)

199 (aa); 25 (kD observed); 25 (kD predicted)

(Brunet et al., 1993)

Comments

External Data

Subunit Structure (UniProtKB)

Component of the osk mRNP (PubMed:20570937). Interacts with stau and yps (PubMed:20570937). Interacts with csul (via the N-terminal region) (PubMed:17164419). Interacts with vls (PubMed:17164419). Interacts (methylated) with tud (PubMed:17164419). Interacts with Smn; this interaction may be favored by SmB methylation (PubMed:16753561). Interacts with the SMN complex (PubMed:18621711). Interacts with msk and Snup; these interactions are RNA-dependent (PubMed:23885126).

(UniProt, Q05856)

Post Translational Modification

Symmetrically dimethylated on arginine residues present in the RG repeats by csul (or csul-vls complex) and Art7; methylation is not required for assembly and biogenesis of snRNPs, but required for pole plasm localization. There seems to be a specific role of two subsets of arginine residues in the C-terminal region: the subset containing Arg-112, Arg-130 and Arg-145 is required during embryogenesis for gonad formation, whereas the subset containing Arg-174, Arg-181, Arg-189 and Arg-196 is involved in pole cell formation by controlling polar granule maintenance at the posterior pole of the oocyte.

(UniProt, Q05856)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\SmB using the Feature Mapper tool.

External Data

Crossreferences

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

SmB_1

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).

1.15

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

larval stage -- adult stage

Malpighian tubule

(Natalizio and Matera, 2013)

oogenesis stage S10

oocyte | posterior

• cell cortex

Comment: posterior enrichment detected only upon mild proteinase K digestion of egg chambers

(Gonsalvez et al., 2010)

pole plasm

(Anne, 2010)

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

located_in Cajal body

inferred from direct assay

(Anne, 2010)

part_of catalytic step 2 spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

located_in nucleus

inferred from direct assay

(Anne, 2010, Anne et al., 2007)

located_in pole plasm

inferred from direct assay

(Anne, 2010, Gonsalvez et al., 2010)

part_of precatalytic spliceosome

inferred from high throughput direct assay

(Herold et al., 2009)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\SmB in JBrowse

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

View exonic expression by developmental stage for Dmel\SmB

View exonic expression by tissue for Dmel\SmB

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

34426/tissue=All

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

FBgn0262601

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010083

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

FBgn0262601

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

CG5352

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 5 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 22 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of SmB

Transgenic constructs containing regulatory region of SmB

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene duplicated in

Dp(2;3)GV-CH321-75P02

(Hsieh et al., 2019)

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

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

SmB^HMC02939

lethal, with Scer\GAL4^pnr-MD237

SmB^GD11620

lethal | female limited, with Scer\GAL4^dome-PG14

SmB^HMC02939

lethal | recessive

SmB^SH0509

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

SmB^GD11620

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

SmB^GD11620

partially lethal - majority die

SmB^{MI07584-GFSTF.0}

viable, with Scer\GAL4^tin.CΔ4

SmB^GD11620

Sterility

Allele

female sterile, with Scer\GAL4^VP16.otu

SmB^HMC02939

male sterile, with Scer\GAL4^VP16.bam

SmB^HM05097

Other Phenotypes

Allele

abnormal cell migration | oogenesis, with Scer\GAL4^c306

SmB^HM05097

abnormal cell polarity | oogenesis, with Scer\GAL4^c306

SmB^HM05097

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

SmB^HM05097

abnormal locomotor behavior | adult stage | recessive

SmB^{MI07584-GFSTF.0}

abnormal size | third instar larval stage, with Scer\GAL4^Cg.PA

SmB^HMC02939

decreased cell number | adult stage

SmB^{MI07584-GFSTF.0}

decreased cell number | adult stage, with Scer\GAL4^ChAT.7.4

SmB^HM05097

short lived | recessive

SmB^{MI07584-GFSTF.0}

Phenotype manifest in

Allele

border follicle cell, with Scer\GAL4^c306

SmB^HM05097

cell body rind of adult mushroom body calyx

SmB^{MI07584-GFSTF.0}

cholinergic neuron | adult stage

SmB^{MI07584-GFSTF.0}

cholinergic neuron | adult stage, with Scer\GAL4^ChAT.7.4

SmB^HM05097

embryonic/larval fat body | third instar larval stage, with Scer\GAL4^Cg.PA

SmB^HMC02939

lamina

SmB^{MI07584-GFSTF.0}

lamina, with Scer\GAL4^ChAT.7.4

SmB^HM05097

mitochondrion | third instar larval stage, with Scer\GAL4^Cg.PA

SmB^HMC02939

sarcomere, with Scer\GAL4^Mef2.PR

SmB^GD11620

spermatogonium, with Scer\GAL4^VP16.bam

SmB^HM05097

spermatozoon, with Scer\GAL4^VP16.bam

SmB^HM05097

Z disc, with Scer\GAL4^Mef2.PR

SmB^GD11620

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) (19)

Hsap\SNRPB

12 of 14

Yes

Hsap\SNRPN

12 of 14

Yes

Hsap\SNURF

10 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 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

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (22)

Rnor\Snrpb

12 of 14

Yes

Rnor\Snrpn

11 of 14

Yes

2 of 14

2 of 14

2 of 14

2 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

Yes

Mus musculus (laboratory mouse) (18)

Mmus\Snrpb

12 of 14

Yes

Mmus\Snrpn

12 of 14

Yes

2 of 14

2 of 14

2 of 14

2 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

Xenopus tropicalis (Western clawed frog) (11)

Xtro\snrpb

10 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

Xtro\snrpd2

1 of 13

Xtro\snrpe

1 of 13

Xtro\snrpg

1 of 13

Danio rerio (Zebrafish) (13)

Drer\snrpb

13 of 14

Yes

2 of 14

2 of 14

2 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

Caenorhabditis elegans (Nematode, roundworm) (15)

Cele\snr-2

13 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 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

Anopheles gambiae (African malaria mosquito) (15)

Agam\AgaP_AGAP005523

11 of 12

Yes

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 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

Arabidopsis thaliana (thale-cress) (23)

Atha\AT5G44500

11 of 13

Yes

Atha\smB

11 of 13

Yes

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

Saccharomyces cerevisiae (Brewer's yeast) (15)

Scer\SMB1

10 of 13

Yes

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

Schizosaccharomyces pombe (Fission yeast) (15)

Spom\smb1

10 of 12

Yes

2 of 12

2 of 12

2 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

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:SmB. 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) (15)

Sbat

3 of 13

CG6610

2 of 13

SmD2

2 of 13

SmE

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

Human Disease Associations

FlyBase Human Disease Model Reports

Alzheimer disease, susceptibility to (postulated), SNRPN-related

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 1 )

Allele

Disease

Evidence

References

SmB^{MI07584-GFSTF.0}

model of tauopathy

CEA

(Hsieh et al., 2019)

Potential Models Based on Orthology ( 1 )

Human Ortholog

Disease

Evidence

References

SNRPB; small nuclear ribonucleoprotein polypeptides B and B1

model of cerebrocostomandibular syndrome

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 4 )

Allele

Disease

Interaction

References

SmB^UASp.Venus

ameliorates tauopathy

modeled by Hsap\MAPT^V337M.UAS

(Shulman et al., 2014)

SmB^HM05097

exacerbates tauopathy

modeled by Hsap\MAPT^V337M.UAS

(Hsieh et al., 2019, Shulman et al., 2014)

SmB^KK102021

exacerbates tauopathy

modeled by Hsap\MAPT^V337M.UAS

(Hsieh et al., 2019, Shulman et al., 2014)

SmB^{MI07584-GFSTF.0}

exacerbates tauopathy

modeled by Hsap\MAPT^V337M.UAS

(Hsieh et al., 2019)

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?

SNRPB; small nuclear ribonucleoprotein polypeptides B and B1

12 of 14

182282

CEREBROCOSTOMANDIBULAR SYNDROME; CCMS

cerebrocostomandibular syndrome

SNRPN; small nuclear ribonucleoprotein polypeptide N

12 of 14

182279

SNURF; SNRPN upstream open reading frame

10 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

protein-protein

Physical Interaction

Assay

References

SmB - Deaf1

two hybrid, anti tag coimmunoprecipitation, anti tag western blot

(Tang et al., 2023, Hu et al., 2017.6.13)

SmB - Hez

two hybrid

(Lanfranco et al., 2017)

SmB - PAN3

two hybrid, anti tag coimmunoprecipitation, anti tag western blot

(Tang et al., 2023, Hu et al., 2017.6.13)

SmB - Sbat

two hybrid

(Lanfranco et al., 2017)

SmB - Sf3b5

anti tag coimmunoprecipitation, peptide massfingerprinting

(Stegeman et al., 2016)

SmB - SmD2

anti tag coimmunoprecipitation, western blot

(Xiong et al., 2015)

SmB - Smn

anti tag coimmunoprecipitation, western blot, Identification by mass spectrometry, anti tag western blot

(Gray et al., 2018, Gonsalvez et al., 2006)

SmB - Snup

anti bait coimmunoprecipitation, western blot

(Natalizio and Matera, 2013)

SmB - Spt20

anti tag coimmunoprecipitation, peptide massfingerprinting

(Stegeman et al., 2016)

SmB - Spt3

anti tag coimmunoprecipitation, peptide massfingerprinting

(Stegeman et al., 2016)

SmB - Ubx

anti tag coimmunoprecipitation, anti tag western blot, proximity-dependent biotin identification, Identification by mass spectrometry

(Carnesecchi et al., 2020)

SmB - l(3)05822

two hybrid

(Hu et al., 2017.6.13)

SmB - msk

anti tag coimmunoprecipitation, western blot

(Natalizio and Matera, 2013)

SmB - sina

two hybrid

(Hu et al., 2017.6.13)

SmB - snf

anti tag coimmunoprecipitation, peptide massfingerprinting

(Stegeman et al., 2016)

SmB - stau

anti tag coimmunoprecipitation, western blot

(Gonsalvez et al., 2010)

SmB - yps

anti bait coimmunoprecipitation, western blot

(Gonsalvez et al., 2010)

RNA-protein

Physical Interaction

Assay

References

SmB - ATPsynF

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - Arpc4

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - CG3776

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - Ciz1

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - dj-1β

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - mir-33

anti tag coimmunoprecipitation, primer specific pcr

(Xiong et al., 2015)

SmB - osk

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Gonsalvez et al., 2010)

SmB - scaRNA:ΨU2-55

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - snRNA:LU

anti bait coimmunoprecipitation, quantitative reverse transcription pcr

(Lu et al., 2014)

SmB - snRNA:U1:21D

anti bait coimmunoprecipitation, autoradiography, quantitative reverse transcription pcr, anti tag coimmunoprecipitation, northern blot

(Lu et al., 2014, Gonsalvez et al., 2010, Rajendra et al., 2007)

SmB - snRNA:U1:82Eb

anti tag coimmunoprecipitation, northern blot, anti bait coimmunoprecipitation, autoradiography, quantitative reverse transcription pcr

(Gonsalvez et al., 2010, Rajendra et al., 2007)

SmB - snRNA:U1:95Ca

anti tag coimmunoprecipitation, northern blot, anti bait coimmunoprecipitation, quantitative reverse transcription pcr, autoradiography

(Gonsalvez et al., 2010, Rajendra et al., 2007)

SmB - snRNA:U1:95Cb

anti bait coimmunoprecipitation, autoradiography, anti tag coimmunoprecipitation, northern blot, quantitative reverse transcription pcr

(Gonsalvez et al., 2010, Rajendra et al., 2007)

SmB - snRNA:U1:95Cc

anti tag coimmunoprecipitation, northern blot, anti bait coimmunoprecipitation, quantitative reverse transcription pcr, autoradiography

(Gonsalvez et al., 2010, Rajendra et al., 2007)

SmB - snRNA:U2:14B

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U2:34ABa

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U2:34ABb

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U2:34ABc

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U2:38ABa

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U2:38ABb

anti tag coimmunoprecipitation, northern blot

(Rajendra et al., 2007)

SmB - snRNA:U4:38AB

anti tag coimmunoprecipitation, primer specific pcr

(Xiong et al., 2015)

SmB - snRNA:U7

pull down, peptide massfingerprinting

(Sabath et al., 2013)

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Subunit Structure (UniProtKB)

(UniProt, Q05856 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0262601

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

34426

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Spliceosome

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

Class of Gene

gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-42

Cytogenetic map

31E1-31E1

Sequence location

2L:10,425,483..10,426,627 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

31E1-31E1

Left limit from in situ hybridisation (FBrf0157097) Right limit from in situ hybridisation (FBrf0157097); Limits computationally determined from genome sequence between P{lacW}RnrL^k06709 and P{lacW}KdelR^k00311

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

31E1-31E2

(Oh et al., 2003)

31F1-31F2

(determined by in situ hybridisation)

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

2-42

(FlyBase, 2016)

2-35.5

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (12)

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

Bloomington

13130

w¹¹¹⁸; P{GT1}SmB^BG02775/CyO

28887

y¹ v¹; P{TRiP.HM05097}attP2

44544

y¹ v¹; P{TRiP.HMC02939}attP40

43739

y¹ w^*; Mi{MIC}SmB^MI07584

65727

w¹¹¹⁸; PBac{IT.GAL4}SmB^2166-G4/CyO

64594

y¹ sc^* v¹ sev²¹; P{TRiP.HMC05629}attP2

Kyoto

122076

w^*; P{lacW}SmB^SH0509

NIG-Fly

5352R-3

P{NIG.5352R}3

HMC02939

y¹ v¹; P{TRiP.HMC02939}attP40

2LG-0097

y² VhaAC39-1^cho-1 v¹; P{U6-SmB.NIG.sgRNA}attP40/CyO

VDRC

v110713

P{KK102021}VIE-260B

v40587

w¹¹¹⁸; P{GD11620}v40587

Genomic Clones (24)

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

cDNA Clones (32)

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

LD14049

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.

FBgn0262601

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0262601

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

RNAi screen using dsRNA made from templates generated with primers directed against this gene results in a long metaphase spindle with misaligned chromosomes when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA.

(Goshima et al., 2007)

1 allele of l(2)SH0509 recovered in a P-insertion screen.

(Oh et al., 2003)

SmB nucleotide sequence is highly conserved with that for the murine and human SmB polypeptides.

(Brunet et al., 1993)

Encodes a protein with 65% identity (80% similarity) to human and murine SmB polypeptides. Like these mammalian proteins is precipitated by human anti-Sm autoantibodies and by the Y12 anti-Sm murine monoclonal antibody.

(Brunet, 1993.5.11)

Relationship to Other Genes

Source for database merge of

Source for merge of: SmB l(2)SH0509

(Anne, 2010)

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (16)

Reported As

Symbol Synonym

(Deshpande et al., 1996)

CG5352

(National Institute of Genetics Fly Stocks, 2022-, Matera et al., 2019, Çiçek et al., 2016, Stegeman et al., 2016, Wu et al., 2016, Horan et al., 2015, Rosa-Ferreira et al., 2015, Cammarato et al., 2011, Ni et al., 2010.12.1, Herold et al., 2009, Keleman et al., 2009.8.5, Perkins et al., 2009, Goshima et al., 2007, Quinones-Coello, 2007, Mount and Salz, 2000)

SYM10

(Gonsalvez et al., 2006)

Sm B

(Azzouz and Schumperli, 2003, Labourier and Rio, 2001, Brunet et al., 1993)

SmB

(Victor Atoki et al., 2025, Tang et al., 2023, Miao et al., 2022, National Institute of Genetics Fly Stocks, 2022-, Bolus et al., 2020, Chen et al., 2019, Foley et al., 2019, Matera et al., 2019, Yu et al., 2019, Zhou et al., 2019, Gray et al., 2018, Hu et al., 2017.6.13, Solis et al., 2017, Clandinin and Owens, 2016-, Stegeman et al., 2016, Horan et al., 2015, Khan et al., 2015, Xiong et al., 2015, Lu et al., 2014, Shulman et al., 2014, Kwon et al., 2013, Xiong et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Lesch and Page, 2012, Friedman et al., 2011, Anne, 2010, Gonsalvez et al., 2010, Herold et al., 2009, Kroiss et al., 2009, Anne and Mechler, 2008, Gonsalvez and Matera, 2008, Gonsalvez et al., 2008, Kroiss et al., 2008, Anne et al., 2007, Goshima et al., 2007, Quinones-Coello, 2007, Rajendra et al., 2007, Gonsalvez et al., 2006, Liebl et al., 2006, Muraro and Moffat, 2006, Cryderman et al., 2005, Stanyon et al., 2004)

SmB1

(Sabath et al., 2013)

Smb

(Carnesecchi et al., 2020)

dSmB

(Natalizio and Matera, 2013)

l(2)SH0509

l(2)SH2 0509

(Oh et al., 2002.3.22)

smb

(Wu et al., 2016)

snRNP B

(Paterson et al., 1991)

Name Synonyms

Small ribonucleoprotein particle protein B

(Cammarato et al., 2011)

Small ribonucleoprotein particle protein SmB

lethal (2) SH0509

polypeptide B

(Raisin-Tani and Leopold, 2002)

Secondary FlyBase IDs

FBgn0010083
FBgn0065747

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 44 )

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.

34426

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.

Q05856

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

Q05856

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.

Q05856

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

34426/tissue=All

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

FBgn0262601

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

FBgn0262601

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

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

dme:Dmel_CG5352

MARRVEL_MODEL - MARRVEL (model organism gene)

34426

Linkouts

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

FBgn0262601

DroID - A comprehensive database of gene and protein interactions.

FBgn0262601

DRSC - Results frm RNAi screens

FBgn0262601

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

SmB_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010083

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0262601

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

CG5352

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

FBgn0262601

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

TC030631

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Spliceosome

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

34426

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

References (100)

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

1.15

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