FlyBase Gene Report: Dmel\sbr

General Information

Symbol

Dmel\sbr

Species

D. melanogaster

Name

small bristles

Annotation Symbol

CG1664

Feature Type

protein_coding_gene

FlyBase ID

FBgn0003321

Gene Model Status

Current

Stock Availability

16 publicly available

Gene Summary

Mediates the export of the majority of mRNAs from the nucleus to the cytoplasm (PubMed:11779805, PubMed:11780633, PubMed:11780634, PubMed:27016737). In ovarian follicle cells, plays a role in transposable element silencing regulation by enabling the nuclear export of flamenco (flam) transcripts and subsequent piRNA biogenesis (PubMed:33856346). (UniProt, Q9U1H9)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Red Book
Interactive Fly

Also Known As

l(1)ts403, NXF1, DmNXF1, nuclear export factor 1, NFX1

Key Links

Genomic Location

Cytogenetic map

9F4-9F5

Sequence location

X:10,832,752..10,847,092 [-]

Recombination map

1-33

RefSeq locus

NC_004354 REGION:10832752..10847092

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 (13 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with UniProtKB:Q9V3H8

(Zhao et al., 2019)

inferred from physical interaction with UniProtKB:Q9VV73

(Zhao et al., 2019)

inferred from physical interaction with UniProtKB:Q9VSK8

(Hurt et al., 2009)

inferred from physical interaction with UniProtKB:Q9VTL1

(Farny et al., 2008)

enables ribonucleoprotein complex binding

inferred from direct assay

(Kopytova et al., 2016)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR015245

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN000070434

(GO Reference Genome Project, 2011-)

Biological Process (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

involved_in mRNA export from nucleus

inferred from mutant phenotype

(Forler et al., 2004, Wilkie et al., 2001)

involved_in nuclear export

inferred from mutant phenotype

(Hurt et al., 2009)

involved_in poly(A)+ mRNA export from nucleus

inferred from mutant phenotype

(Herold et al., 2001)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in mRNA export from nucleus

traceable author statement

(Tekotte and Davis, 2002)

inferred from electronic annotation with InterPro:IPR015245

(InterPro Project Members, 2004-)

involved_in mRNA transport

inferred from electronic annotation with InterPro:IPR005637

(InterPro Project Members, 2004-)

involved_in poly(A)+ mRNA export from nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000070434

(GO Reference Genome Project, 2011-)

Cellular Component (5 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

located_in nuclear envelope

inferred from direct assay

(Forler et al., 2004)

inferred from direct assay

(Herold et al., 2001)

located_in nuclear membrane

inferred from direct assay

(Buszczak and Spradling, 2006)

located_in nucleoplasm

inferred from direct assay

(Buszczak and Spradling, 2006, Herold et al., 2001)

inferred from direct assay

(Forler et al., 2004)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

located_in cytoplasm

inferred from electronic annotation with InterPro:IPR015245

(InterPro Project Members, 2004-)

inferred from experiment

(Forler et al., 2004)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000070434

(GO Reference Genome Project, 2011-)

located_in nucleus

inferred from electronic annotation with InterPro:IPR005637

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

NXF1-NXT1 MRNA NUCLEAR EXPORT FACTOR COMPLEX

Protein Family (UniProt)

Belongs to the NXF family. (Q9U1H9)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

NXF1-NXT1 MRNA NUCLEAR EXPORT FACTOR COMPLEX -: The NXF1-NXT1 mRNA nuclear export factor complex mediates the export of bulk mRNA through direct interactions with both the mRNA cargo and nuclear pore proteins that contain characteristic phenylalanine-glycine repeating sequence motifs (FG-nucleoporins). (Adapted from ComplexPortal.)

Protein Function (UniProtKB)

(UniProt, Q9U1H9)

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

sbr: small bristles

Most alleles homozygous and hemizygous lethal; sbr1 viable but displays reduced viability in hemizygous females. Bristles small, with one or more missing, especially scutellars and especially in hemizygous females (Zhimulev and Ilyina, 1980, DIS 55: 146). sbr16 semilethal and male sterile; females sterile in heteroallelic combination with other lethal alleles. sbr9 is a temperature-sensitive lethal; semilethal with small body at 25, sbr1/sbr9 viable and normal at 30.

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\sbr 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 Q9U1H9)

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

PDB - An information portal to biological macromolecular structures

6IHJ

Comments on Gene Model

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

Gene model reviewed during 5.45

Gene model reviewed during 6.19

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

sbr-RA

FBtr0073411

NM_079921

3280

672

sbr-RB

FBtr0473367

NM_001369981

1910

536

sbr-RC

FBtr0473368

NM_001369982

2147

536

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

sbr-PA

FBpp0073267

76.2

672

9.38

FBpp0422971

60.5

536

8.53

QCD25236

sbr-PC

FBpp0422972

60.5

536

8.53

QCD25237

Polypeptides with Identical Sequences

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

536 aa isoforms: sbr-PB, sbr-PC

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Interacts with Nxt1 (PubMed:11780633, PubMed:31570835). Interacts with ZC3H3 (PubMed:19364924). Forms a complex with Nup358/RanBP2, RanGAP and Nxt1 (PubMed:14729961). Interacts with Nup54 and Nup58 (PubMed:33856346). Interacts with Orc3 and Hpr1 (PubMed:27016737).

(UniProt, Q9U1H9)

Domain

The leucine-rich repeats and the NTF2-domain are essential for the export of mRNA from the nucleus.

The C-terminal fragment, containing the TAP domain (also called UBA-like domain) and part of the NTF2-like domain, named the NPC-binding domain, mediates direct interactions with nucleoporin-FG-repeats and is necessary and sufficient for localization of NXF1 to the nuclear rim.

The RNA-binding domain is a non-canonical RNP-type domain.

(UniProt, Q9U1H9)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

6IHJ

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\sbr using the Feature Mapper tool.

External Data

Crossreferences

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

sbr_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).

0.61

Transcript Expression

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

organism

(Ivankova et al., 2010)

adult stage | female

ovary

(Ivankova et al., 2010)

adult abdomen | faint | restricted

Comment: ovaries excluded

(Ivankova et al., 2010)

adult head

(Ivankova et al., 2010)

adult abdomen

Comment: ovaries included

(Ivankova et al., 2010)

adult stage | male

testis

(Ivankova et al., 2010)

adult head

(Ivankova et al., 2010)

adult abdomen | faint | restricted

Comment: testes excluded

(Ivankova et al., 2010)

adult abdomen

Comment: testes included

(Ivankova et al., 2010)

adult stage

adult ventral nerve cord

(Ivankova et al., 2010)

adult salivary gland

(Ivankova et al., 2010)

RACE

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

head

(Ginanova et al., 2016)

oogenesis & adult stage | female

ovary

(Ginanova et al., 2016)

spermatogenesis & adult stage | male

testis

(Ginanova et al., 2016)

Additional Descriptive Data

5' and 3' RACE-PCR assays show smaller sbr transcripts being produced in the testis.

(Ginanova et al., 2016)

smb transcripts are differentially expressed in different tissues and at different time points.

(Ivankova et al., 2010)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

larval stage

brain | restricted

(Yakimova et al., 2016)

third instar larval stage

embryonic/larval Malpighian tubule

(Yakimova et al., 2016)

larval ventral nerve cord | restricted

(Yakimova et al., 2016)

Additional Descriptive Data

In the brains of first instar larvae, sbr is present in many dividing neuroblasts and the cells surrounding them. The number of cells expressing sbr is reduced by third instar.

(Yakimova et al., 2016)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nuclear envelope

inferred from direct assay

(Forler et al., 2004)

inferred from direct assay

(Herold et al., 2001)

located_in nuclear membrane

inferred from direct assay

(Buszczak and Spradling, 2006)

located_in nucleoplasm

inferred from direct assay

(Buszczak and Spradling, 2006, Herold et al., 2001)

inferred from direct assay

(Forler et al., 2004)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\sbr in JBrowse

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

View exonic expression by developmental stage for Dmel\sbr

View exonic expression by tissue for Dmel\sbr

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

43944/tissue=All

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

FBgn0003321

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003321

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

FBgn0003321

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

CG1664

Flygut - An atlas of the Drosophila adult midgut

FBgn0003321

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 26 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 10 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of sbr

Transgenic constructs containing regulatory region of sbr

Aberrations (Deficiencies and Duplications) ( 56 )

Inferred from experimentation ( 56 )

Gene not disrupted in

Df(1)B13

(Barbash et al., 2000, Zhang et al., 1999)

Df(1)C52

(Barbash et al., 2000)

Df(1)HC133

(Korey et al., 2001, Barbash et al., 2000, Zhang et al., 1999, Zhimulev et al., 1987, Zhimulev et al., 1981, Craymer and Roy, 1980)

Df(1)HF368

(Eeken et al., 1985)

Df(1)KA7

(Zhimulev et al., 1987, Geer et al., 1983, Zhimulev et al., 1981)

Df(1)m259-4

(Eeken et al., 1985)

Df(1)N71

(Zhimulev et al., 1987, Eeken et al., 1985, Geer et al., 1983, Zhimulev et al., 1981)

Df(1)N110

(Barbash et al., 2000, Zhang et al., 1999)

Df(1)RA37

(Zhimulev et al., 1987, Geer et al., 1983, Zhimulev et al., 1981)

Df(1)ras-P14

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)ras-TM5

(Zhang et al., 1999)

Df(1)ras-TM6

(Zhang et al., 1999)

Df(1)RJ7

(Barbash et al., 2000, Zhang et al., 1999)

Df(1)v65b

(Verni et al., 2004, Zhimulev et al., 1981)

Df(1)v-L1

(Zhimulev et al., 1987, Geer et al., 1983, Kramers et al., 1983, Zhimulev et al., 1981)

Df(1)v-L2

(Zhimulev et al., 1987, Geer et al., 1983, Zhimulev et al., 1981)

Df(1)v-L3

(Korey et al., 2001, Zhang et al., 1999, Zhimulev et al., 1987, Eeken et al., 1985, Geer et al., 1983, Kramers et al., 1983, Zhimulev et al., 1981)

Df(1)v-M5

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-M6

(Verni et al., 2004, Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-N48

(Zhang et al., 1999)

Df(1)v-P16

(Zhimulev et al., 1987)

Df(1)v-P22

(Zhimulev et al., 1987)

In(1)AC2^LAB^R

(Barbash et al., 2000, Zhang et al., 1999)

T(1;2)ras-TM3

(Zhang et al., 1999)

T(1;2)v^267-4

Gene disrupted in

Df(1)59D3

(Zhimulev et al., 1987)

Df(1)203C10

(Zhimulev et al., 1987)

Df(1)CH6

(Barbash et al., 2000, Zhang et al., 1999)

Df(1)ras59

(Zhang et al., 1999)

Df(1)ras203

(Barbash et al., 2000, Zhang et al., 1999)

Df(1)ras-v17

(Barbash et al., 2000, Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)ras-v-P26

(Zhimulev et al., 1987)

Df(1)sbr1

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)sbr8

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)sbr9

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)sbr10

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v64f

(Wilkie et al., 2001, Barbash et al., 2000, Zhang et al., 1999, Zhimulev et al., 1987, Zhimulev et al., 1981, Craymer and Roy, 1980)

Df(1)v-B151

(Zhimulev et al., 1987)

Df(1)v-L4

(Korey et al., 2001, Wilkie et al., 2001, Zhimulev et al., 1987, Eeken et al., 1985, Kramers et al., 1983, Zhimulev, 1982, Zhimulev et al., 1981)

Df(1)v-L7

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-L11

(Wilkie et al., 2001, Barbash et al., 2000, Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-L15

(Korey et al., 2001, Barbash et al., 2000, Zhimulev et al., 1987, Zhimulev et al., 1981, Craymer and Roy, 1980)

Df(1)v-M1

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-M7

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Df(1)v-P5

(Zhimulev et al., 1987, Zhimulev et al., 1981)

Gene not duplicated in

Dp(1;2)v⁺65b

(Zhimulev et al., 1987, Eeken et al., 1985, Geer et al., 1983, Kramers et al., 1983)

Dp(1;Y)dsh⁺y⁺

(Zhimulev et al., 1987)

In(1)AB^LAC2^R

(Zhang et al., 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

lethal, with Scer\GAL4^Mef2.PU

sbr^GD9182

lethal, with Scer\GAL4^pnr-MD237

sbr^GD9182

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

sbr^HMS02414

lethal | heat sensitive

lethal | heat sensitive (with sbr⁵)

sbr^ts148

lethal | heat sensitive (with sbr⁶)

sbr^ts148

lethal | heat sensitive (with sbr¹⁰)

sbr^ts148

lethal | heat sensitive (with sbr¹²)

sbr^ts148

lethal | heat sensitive (with sbr^mgln)

sbr^ts148

lethal | heat sensitive (with sbr^ts148)

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

sbr^GD9182

lethal | recessive

lethal - all die before end of larval stage

sbr¹⁶

lethal - all die before end of pupal stage, with Scer\GAL4^pnr-MD237

sbr^GD14541

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

sbr^GD9182

partially lethal, with Scer\GAL4^tin.CΔ4

sbr^GD9182

partially lethal | male

sbr²

partially lethal | recessive | heat sensitive

sbr¹⁰

partially lethal - majority die

partially lethal - majority die | heat sensitive

sbr⁹

viable

sbr¹

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

Sterility

Allele

female sterile

sbr¹⁷

female sterile, with Scer\GAL4^VP16.otu

sbr^HMS02414

female sterile | germline clone | recessive

sbr^mgln

male semi-fertile

sbr²

male sterile

sbr¹⁷

semi-sterile | recessive | heat sensitive

sbr¹⁰

Other Phenotypes

Allele

abnormal flight, with Scer\GAL4^Act88F.PU

sbr^KK100882

abnormal flight, with Scer\GAL4^Mef2.PU

sbr^KK100882

abnormal meiotic cell cycle | semidominant

sbr¹⁰

abnormal memory

sbr¹⁰

abnormal size | pharate adult stage, with Scer\GAL4^Mef2.PU

sbr^GD9182

decreased body size | heat sensitive

sbr⁹

flightless, with Scer\GAL4^Act88F.PU

sbr^GD9182

short lived, with Scer\GAL4^Ugt36A1.PK

some die during larval stage

sbr¹⁶

some die during pupal stage, with Scer\GAL4^pnr-MD237

sbr^GD14541

visible

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

sbr^HMS02414

visible (with sbr¹)

visible (with sbr⁵)

sbr¹

visible (with sbr^mgln)

sbr¹

visible | somatic clone

sbr^mgln

Phenotype manifest in

Allele

adult head bristle

adult pericardial cell, with Scer\GAL4^Ugt36A1.PK

axoneme

sbr¹⁷

egg chamber | germline clone

sbr^mgln

embryonic somatic muscle cell (with sbr⁵)

sbr^mgln

embryonic somatic muscle cell (with sbr¹²)

sbr^mgln

embryonic somatic muscle cell (with sbr^mgln)

indirect flight muscle cell | pharate adult stage, with Scer\GAL4^Mef2.PU

sbr^GD9182

larval intersegmental nerve

larval intersegmental nerve (with Df(1)v-L4)

sbr^mgln

larval intersegmental nerve (with sbr⁵)

sbr^mgln

larval intersegmental nerve (with sbr^mgln)

sbr⁵

larval longitudinal connective

sbr^mgln

leg

macrochaeta

macrochaeta (with sbr¹)

macrochaeta (with sbr⁵)

sbr¹

macrochaeta (with sbr^mgln)

sbr¹

macrochaeta | somatic clone

sbr^mgln

meiosis & nuclear chromosome

sbr¹⁰

mesothoracic bristle

metathoracic bristle

muscle attachment site (with sbr⁶)

sbr^mgln

muscle attachment site (with sbr^mgln)

sbr⁶

muscle cell of A1-7 ventral longitudinal muscle 3 (with sbr⁵)

sbr^mgln

muscle cell of A1-7 ventral longitudinal muscle 3 (with sbr¹²)

sbr^mgln

muscle cell of A1-7 ventral longitudinal muscle 3 (with sbr^mgln)

muscle cell of A1-7 ventral longitudinal muscle 4 (with sbr⁵)

sbr^mgln

muscle cell of A1-7 ventral longitudinal muscle 4 (with sbr¹²)

sbr^mgln

muscle cell of A1-7 ventral longitudinal muscle 4 (with sbr^mgln)

myofibril | pharate adult stage, with Scer\GAL4^Mef2.PU

sbr^GD9182

primary spermatocyte cyst

sbr¹⁷

sarcomere, with Scer\GAL4^Mef2.PR

sbr^GD9182

scutellar bristle

wing

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

sbr^HMS02414

Z disc, with Scer\GAL4^Mef2.PR

sbr^GD9182

Z disc | pharate adult stage, with Scer\GAL4^Mef2.PU

sbr^GD9182

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) (26)

Hsap\NXF1

11 of 14

Yes

Hsap\NXF2B

10 of 14

Yes

Hsap\NXF2

10 of 14

Yes

Hsap\NXF3

10 of 14

Yes

Hsap\NXF5

9 of 14

Yes

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

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Hsap\LRRN4

1 of 14

Yes

Hsap\NISCH

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) (23)

Rnor\Nxf1

12 of 14

Yes

Rnor\Nxf2

11 of 14

Yes

Rnor\Nxf7

11 of 14

Yes

Rnor\Nxf3

10 of 14

Yes

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

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

Yes

Mus musculus (laboratory mouse) (21)

Mmus\Nxf1

11 of 14

Yes

Mmus\Nxf7

11 of 14

Yes

Mmus\Nxf2

10 of 14

Yes

Mmus\Nxf3

10 of 14

Yes

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

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (18)

Xtro\LOC100490733

8 of 13

Yes

Xtro\nxf1

8 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

Yes

Xtro\lrrc9

1 of 13

Yes

Xtro\lrrc23

1 of 13

Xtro\lrrc43

1 of 13

Yes

Xtro\lrrc56

1 of 13

Xtro\lrriq3

1 of 13

Yes

Xtro\lrtomt

1 of 13

Xtro\mnat1

1 of 13

Danio rerio (Zebrafish) (17)

Drer\nxf1b

12 of 14

Yes

Drer\nxf1a

11 of 14

Yes

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

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (8)

Cele\nxf-1

10 of 14

Yes

Cele\nxf-2

10 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (12)

Agam\AgaP_AGAP002193

12 of 12

Yes

5 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

Arabidopsis thaliana (thale-cress) (7)

Atha\AIR9

1 of 13

Yes

Atha\AT1G48540

1 of 13

Yes

Atha\AT2G25790

1 of 13

Yes

Atha\AT3G17920

1 of 13

Yes

Atha\AT3G50690

1 of 13

Yes

Atha\AT5G19680

1 of 13

Yes

Atha\AT5G22320

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (2)

Scer\MEX67

10 of 13

Yes

Scer\LEA1

1 of 13

Schizosaccharomyces pombe (Fission yeast) (2)

Spom\mex67

10 of 12

Yes

Spom\sds22

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:sbr. 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) (11)

nxf2

6 of 13

Nxf3

6 of 13

nxf4

3 of 13

atk

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 ( 5 )

Allele

Disease

Interaction

References

sbr¹

ameliorates tauopathy

modeled by Hsap\MAPT^R406W.UAS

(Cornelison et al., 2019)

sbr^HM05135

exacerbates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

exacerbates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

sbr^HMS00273

ameliorates tauopathy

modeled by Hsap\MAPT^R406W.UAS

(Zuniga et al., 2023)

sbr^GD14541

exacerbates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

exacerbates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

sbr^KK100882

exacerbates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

exacerbates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

ameliorates tauopathy

modeled by Hsap\MAPT^R406W.UAS

(Cornelison 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?

NXF1; nuclear RNA export factor 1

11 of 14

602647

NXF2B; nuclear RNA export factor 2B

10 of 14

NXF2; nuclear RNA export factor 2

10 of 14

300315

NXF3; nuclear RNA export factor 3

10 of 14

300316

NXF5; nuclear RNA export factor 5

9 of 14

300319

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

sbr - CG2063

anti tag coimmunoprecipitation, anti tag western blot

(Farny et al., 2008)

sbr - CG2685

anti tag coimmunoprecipitation, anti tag western blot

(Farny et al., 2008)

sbr - Fs(2)Ket

experimental knowledge based

(Guruharsha et al., 2011)

sbr - Hpr1

anti bait coimmunoprecipitation, western blot

(Kopytova et al., 2016)

sbr - Nemp

experimental knowledge based

(Guruharsha et al., 2011)

sbr - Nup153

anti tag coimmunoprecipitation, western blot

(Kozlova et al., 2006)

sbr - Nup214

pull down, molecular weight estimation by staining, anti tag coimmunoprecipitation, western blot, two hybrid

(Zhao et al., 2019, Kozlova et al., 2006)

sbr - Nup358

anti tag coimmunoprecipitation, western blot, pull down, molecular weight estimation by staining, experimental knowledge based

(Zhao et al., 2019, Guruharsha et al., 2011, Kozlova et al., 2006)

sbr - Nup54

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

(Munafò et al., 2021)

sbr - Nup58

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

(Munafò et al., 2021)

sbr - Nup62

anti tag coimmunoprecipitation, western blot

(Kozlova et al., 2006)

sbr - Nxt1

anti tag coimmunoprecipitation, Identification by mass spectrometry, experimental knowledge based, pull down, molecular weight estimation by staining, x-ray crystallography, anti tag western blot, cross-linking study, two hybrid

(ElMaghraby et al., 2019, Zhao et al., 2019, Guruharsha et al., 2011, Farny et al., 2008)

sbr - Orc3

anti tag coimmunoprecipitation, anti tag western blot, anti bait coimmunoprecipitation, western blot

(Kopytova et al., 2016)

sbr - PCID2

anti tag coimmunoprecipitation, anti tag western blot, anti bait coimmunoprecipitation, western blot

(Popova et al., 2016, Farny et al., 2008)

sbr - RanGAP

experimental knowledge based

(Guruharsha et al., 2011)

sbr - ZC3H3

anti tag coimmunoprecipitation, anti tag western blot

(Hurt et al., 2009, Farny et al., 2008)

sbr - nonA

anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation

(Kozlova et al., 2006)

sbr - nxf2

anti tag coimmunoprecipitation, western blot, pull down, molecular weight estimation by staining, split luciferase complementation, luminiscence technology, cross-linking study, Identification by mass spectrometry

(Zhao et al., 2019)

RNA-protein

Physical Interaction

Assay

References

sbr - lncRNA:flam

nucleic acid uv cross-linking assay, clip-seq

(Munafò et al., 2021)

sbr - βTub56D

pull down, western blot

(Popova et al., 2016)

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, Q9U1H9 )

Linkouts

BioGRID - A database of protein and genetic interactions.

68734

DroID - A comprehensive database of gene and protein interactions.

FBgn0003321

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

43944

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.

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-33

Cytogenetic map

9F4-9F5

Sequence location

X:10,832,752..10,847,092 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

9F4-9F5

Limits computationally determined from genome sequence between P{EP}sesB^EP319&P{EP}Imp^EP760 and P{EP}EP1321^EP1321&P{EP}CG2061^EP1537

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

9F5-9F10

(Wilkie, 2000.2.18, Wilkie, 1999.12.21)

Experimentally Determined Recombination Data

Location

1-33

(FlyBase, 2016)

1-33.8

(Comeron et al., 2012)

1-32.82

(Geer et al., 1983)

1-32.53--32.67

(Zhimulev et al., 1981)

1-32.8

(Fahmy and Fahmy, 1959)

Left of (cM)

(Zhimulev et al., 1981)

Right of (cM)

Notes

sbr^mgln maps 0.28cM from v.

(Korey et al., 2001)

No crossovers with ras in 669 flies.

(Fahmy and Fahmy, 1959)

Stocks and Reagents

Stocks (16)

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

5649

24462

28924

y¹ v¹; P{TRiP.HM05135}attP2

26603

w^* P{EP}sbr^G812/FM6, w^*

23660

y¹ w^* sbr^mgln/FM7i, P{ActGFP}JMR3

602242

y¹ w^* TI{CRIMIC.TG4.2}sbr^{CR71081-TG4.2}/FM7h

33117

y¹ w^* Mi{MIC}sbr^MI01374 CG15209^MI01374

105730

108350

v103715

v46117

w¹¹¹⁸ P{GD14541}v46117

More stocks available...

Genomic Clones (12)

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

cDNA Clones (18)

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

LD11064

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.

FBgn0003321

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0003321

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Ginanova et al., 2016, Kopytova et al., 2016, Golubkova et al., 2015)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R⁺ cells.

(Boutros et al., 2004)

Depletion of sbr in SL2 cells (using RNAi) inhibits cell growth and results in a rapid and robust accumulation of polyadenylated RNAs within the nucleus.

(Herold et al., 2001)

Neurons show pathfinding defects and body wall muscles have defective morphology in mutant embryos. Mutant adults have smaller and thinner bristles than normal with a reduced diameter.

(Korey et al., 2001)

Candidate gene for cyst length quantitative trait locus.

(Macdonald and Goldstein, 1999)

Most alleles homozygous and hemizygous lethal.

Relationship to Other Genes

Source for database merge of

Source for merge of: sbr CG1664

(Bayraktaroglu, 2000.8.7, FlyBase, 1996-)

Additional comments

Source for merge of sbr CG1664 was Swiss-Prot update ( date:020819 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (28)

Reported As

Symbol Synonym

CG1664

(Khoroshko et al., 2026, Çiçek et al., 2016, Hosono et al., 2015, Ding et al., 2014, Ni et al., 2011.7.19, Zhang et al., 2011, Ivankova et al., 2010, Ni et al., 2010.12.1, Zhang et al., 2010, Keleman et al., 2009.8.5, Perkins et al., 2009, Herold et al., 2003, Korey, 2002.2.25, Wilkie, 2001.5.25)

CG17335

CT4634

(Hynes and Zhao, 2000)

DNXF-1

(Roth et al., 2003)

Dm nxf1

(Golubkova et al., 2009)

DmNXF1

(Korey et al., 2001, Wilkie et al., 2001)

NFX1

(Gamez et al., 2020, Kozlova et al., 2006)

NXF1

(Kurshakova et al., 2024, Sadasivan et al., 2022, Hurt et al., 2009, Farny et al., 2008, Mendjan et al., 2006, Forler et al., 2004, Hieronymus and Silver, 2004, Rehwinkel et al., 2004, Herold et al., 2003, Braun et al., 2002, Gatfield and Izaurralde, 2002, Tekotte and Davis, 2002, Gatfield et al., 2001, Herold et al., 2001, Le Hir et al., 2001)

NXF1-p15

(Forler et al., 2004)

Nxf1

(Munafò et al., 2021, Wang et al., 2021, Sato and Siomi, 2020, Soleimani et al., 2020, ElMaghraby et al., 2019, Yamashiro and Siomi, 2018, Dennis et al., 2016, Kopytova et al., 2016, Popova et al., 2016, Czech et al., 2013, Handler et al., 2013)

PABPr

(Volk and Volohonsky, 2003)

SBR

(Masselink et al., 2019)

Sbr

(Keegan and Hughes, 2021, Nikonova et al., 2019, Fu et al., 2017)

dNXF1

(Goodman et al., 2019)

dNxf1

(Zhao et al., 2019)

dTap

(Zeng et al., 2003)

l(1)9Fd

l(1)G1

l(1)ts

(The Moscow Regional Drosophila melanogaster Stock Center, Dubna)

nfx1

(Yakimova et al., 2016)

nxf1

(Batki et al., 2019, Mamon et al., 2013, Ivankova et al., 2010, Herold et al., 2000)

sbr

(Avila et al., 2024, Azpurua et al., 2021, Kao et al., 2021, Mamon et al., 2021, van der Graaf et al., 2021, Araki et al., 2020, Cornelison et al., 2019, Foley et al., 2019, Gene Disruption Project members, 2018-, Lee et al., 2018, Mamon et al., 2017, Gene Disruption Project members, 2016-, Ginanova et al., 2016, Snee et al., 2016, Freibaum et al., 2015, Sreedharan et al., 2015, Czech et al., 2013, Handler et al., 2013, Handler et al., 2013, Neumüller et al., 2013, Qurashi et al., 2011, Ivankova et al., 2010, Bartkuhn et al., 2009, Golubkova et al., 2009, Boylan et al., 2008, Gandre-Babbe and van der Bliek, 2008, Snee et al., 2008, Zhou et al., 2008, K'ergaard and Mamon, 2007, Monzo et al., 2007, Van Vactor, 2007.11.4, Buszczak and Spradling, 2006, Monzo et al., 2006, Munro et al., 2006, Rehwinkel et al., 2004, Nikitina et al., 2003, Tretyakova et al., 2001, Wilkie et al., 2001)

sbt

(Fahmy and Fahmy, 1959)

Name Synonyms

Nxf1

(ElMaghraby et al., 2019)

locus 1

(Dybas et al., 1983)

nuclear export factor 1

(Yakimova et al., 2016, Herold et al., 2000)

shorter-bristles

(Fahmy and Fahmy, 1959)

small bristles

(Qurashi et al., 2011, Ivankova et al., 2010, Snee et al., 2008, K'ergaard and Mamon, 2007, Monzo et al., 2006, Wilkie et al., 2001)

Secondary FlyBase IDs

FBgn0030236
FBgn0030238

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 88 )

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.

43944

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.

Q9U1H9

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

Q9U1H9

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

A0A4D6K0P9

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.

Q9U1H9

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

43944/tissue=All

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

FBgn0003321

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

FBgn0003321

FlyMine - An integrated database for Drosophila genomics

FBgn0003321

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

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

dme:Dmel_CG1664

MARRVEL_MODEL - MARRVEL (model organism gene)

43944

PDB - An information portal to biological macromolecular structures

6IHJ

Linkouts

BioGRID - A database of protein and genetic interactions.

68734

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

FBgn0003321

DroID - A comprehensive database of gene and protein interactions.

FBgn0003321

DRSC - Results frm RNAi screens

FBgn0003321

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

sbr_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003321

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0003321

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

CG1664

Flygut - An atlas of the Drosophila adult midgut

FBgn0003321

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

FBgn0003321

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

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

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

43944

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

References (195)

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

0.61

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