FlyBase Gene Report: Dmel\Nup98-96

General Information

Symbol

Dmel\Nup98-96

Species

D. melanogaster

Name

Nucleoporin 98-96kD

Annotation Symbol

CG10198

Feature Type

protein_coding_gene

FlyBase ID

FBgn0039120

Gene Model Status

Current

Stock Availability

13 publicly available

Gene Summary

Nucleoporin 98-96kD (Nup98-96) encodes a precursor protein that is cleaved into Nup98 and Nup96 proteins, two integral parts of the nuclear pore. In the male gonad, loss of Nup98-96 function results in premature differentiation of germ line cells at the expense of proliferation. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

Nup98, Nup96, l(3)95BCd, Nucleoporin 98

Key Links

Genomic Location

Cytogenetic map

95B1-95B5

Sequence location

3R:23,774,225..23,781,621 [-]

Recombination map

3-80

RefSeq locus

NT_033777 REGION:23774225..23781621

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (30 terms)

Molecular Function (6 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

enables chromatin DNA binding

inferred from mutant phenotype

(assigned by UniProt )

(Kalverda et al., 2010)

inferred from direct assay

(assigned by UniProt )

(Ilyin et al., 2017, Pascual-Garcia et al., 2017)

enables promoter-enhancer loop anchoring activity

inferred from mutant phenotype

(assigned by GO_Central )

(Pascual-Garcia et al., 2017)

enables promoter-specific chromatin binding

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2017, Pascual-Garcia et al., 2014)

enables protein binding

inferred from physical interaction with UniProtKB:P20659

(assigned by UniProt )

(Pascual-Garcia et al., 2014)

inferred from physical interaction with UniProtKB:Q86BS3,UniProtKB:Q9VGA4,UniProtKB:Q9VP57

(assigned by UniProt )

(Pascual-Garcia et al., 2014)

inferred from physical interaction with UniProtKB:Q9V3J8

(assigned by UniProt )

(Pascual-Garcia et al., 2014)

inferred from physical interaction with FLYBASE:Rae1; FB:FBgn0034646

(Tian et al., 2011)

inferred from physical interaction with UniProtKB:Q9W2E7

(assigned by UniProt )

(Kristó et al., 2017)

inferred from physical interaction with UniProtKB:A1Z8P9

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:P08970

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:P34021

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:Q08605

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:Q24478

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:Q9VS55

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

inferred from physical interaction with UniProtKB:Q9VKJ3

(assigned by UniProt )

(Tang and Presgraves, 2009)

enables serine hydrolase activity

inferred from high throughput direct assay

(Kumar et al., 2021)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables structural constituent of nuclear pore

inferred from sequence or structural similarity with SGD:S000001551

(FlyBase Curators, 2008--)

Biological Process (16 terms)

Terms Based on Experimental Evidence (16 terms)

CV Term

Evidence

References

involved_in cellular response to ecdysone

inferred from direct assay

(assigned by UniProt )

(Kalverda et al., 2010)

involved_in cellular response to heat

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010)

involved_in germ-line stem cell population maintenance

inferred from mutant phenotype

(Parrott et al., 2011)

involved_in heat shock-mediated polytene chromosome puffing

inferred from direct assay

(assigned by UniProt )

(Kalverda et al., 2010)

involved_in larval lymph gland hemopoiesis

inferred from mutant phenotype

(Mondal et al., 2014)

involved_in male germ-line stem cell population maintenance

inferred from genetic interaction with UniProtKB:Q9VCH5,UniProtKB:Q9VCH5,UniProtKB:Q9VWW4

(assigned by UniProt )

(Parrott et al., 2011)

inferred from genetic interaction with UniProtKB:Q9VCH5,UniProtKB:Q9VCH5,UniProtKB:Q9W0E9

(assigned by UniProt )

(Parrott et al., 2011)

inferred from genetic interaction with UniProtKB:Q9VCH5,UniProtKB:Q9VCH5,UniProtKB:Q9W0F1

(assigned by UniProt )

(Parrott et al., 2011)

inferred from genetic interaction with UniProtKB:A1YK24,UniProtKB:Q9VCH5,UniProtKB:Q9VWW4

(assigned by UniProt )

(Parrott et al., 2011)

inferred from genetic interaction with UniProtKB:A1YK24,UniProtKB:Q9VCH5,UniProtKB:Q9W0E9

(assigned by UniProt )

(Parrott et al., 2011)

inferred from genetic interaction with UniProtKB:A1YK24,UniProtKB:Q9VCH5,UniProtKB:Q9W0F1

(assigned by UniProt )

(Parrott et al., 2011)

involved_in negative regulation by host of viral transcription

inferred from mutant phenotype

(assigned by UniProt )

(Panda et al., 2014)

involved_in positive regulation of actin filament polymerization

inferred from mutant phenotype

(assigned by UniProt )

(Dopie et al., 2015)

involved_in positive regulation of defense response to virus by host

inferred from mutant phenotype

(assigned by UniProt )

(Panda et al., 2014)

involved_in positive regulation of gene expression

inferred from genetic interaction with FLYBASE:FoxK; FB:FBgn0036134

(Panda et al., 2015)

involved_in positive regulation of transcription by RNA polymerase II

inferred from mutant phenotype

(assigned by UniProt )

(Panda et al., 2014, Pascual-Garcia et al., 2014, Capelson et al., 2010, Kalverda et al., 2010)

involved_in positive regulation of transcription initiation from RNA polymerase II promoter

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010)

involved_in protein import into nucleus

inferred from mutant phenotype

(Chen and Xu, 2010)

involved_in regulation of nucleocytoplasmic transport

inferred from mutant phenotype

(Wu et al., 2019)

involved_in response to ecdysone

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2017)

involved_in RNA export from nucleus

inferred from mutant phenotype

(assigned by UniProt )

(Kristó et al., 2017)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (8 terms)

Terms Based on Experimental Evidence (7 terms)

CV Term

Evidence

References

located_in chromatin

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2014, Capelson et al., 2010)

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010, Kalverda et al., 2010)

located_in cytoplasm

inferred from direct assay

(assigned by UniProt )

(Panda et al., 2014)

part_of nuclear pore

inferred from direct assay

(assigned by UniProt )

(Panda et al., 2014)

inferred from physical interaction with FLYBASE:Rae1; FB:FBgn0034646

(Tian et al., 2011)

located_in nucleus

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2017, Panda et al., 2014)

inferred from mutant phenotype

(assigned by UniProt )

(Kalverda et al., 2010)

located_in polytene chromosome band

inferred from direct assay

(assigned by UniProt )

(Kalverda et al., 2010)

located_in polytene chromosome puff

inferred from direct assay

(assigned by UniProt )

(Capelson et al., 2010)

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010)

located_in polytene chromosome

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2014)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of nuclear pore central transport channel

inferred from sequence or structural similarity with SGD:S000001551

(FlyBase Curators, 2008--)

Gene Group (FlyBase)

NUCLEAR PORE COMPLEX

Protein Family (UniProt)

Belongs to the nucleoporin GLFG family. (Q9VCH5)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

NUCLEAR PORE COMPLEX -: The Nuclear Pore Complex (NPC) is a large protein complex embedded in the nuclear membrane that facilitates nucleocytoplasmic traffic. The NPC is composed of approximately 30 different proteins: the nucleoporins. The NPC displays 8-fold symmetry and each nucleoporin is present in multiple copies. From the central ring that forms the pore, filaments protrude into the cytoplasm (cytoplasmic filaments) and the nucleoplasm (nuclear basket). Many nucleoporins contain FG repeats which are thought to act as a diffusion barrier and docking sight for transport receptors (karyopherins). Export and import is controlled by the interaction of the karyopherins with localization and export sequences. (Adapted from FBrf0220062 and PMID:21495847).

Protein Function (UniProtKB)

Part of the nuclear pore complex (NPC) (PubMed:25197089). Required for MAD import as part of the Nup107-160 complex and required for nuclear export of Moe probably via its association with Rae1 (PubMed:20547758, PubMed:28554770). Plays a role in nuclear mRNA export (PubMed:28554770). Promotes cell antiviral response by upregulating FoxK-dependent antiviral gene transcription (PubMed:25197089, PubMed:25852164). In germline stem cells, involved in their maintenance and division together with the TGF-Beta and EGFR signaling pathways (PubMed:21949861). In larval lymph glands, has a role in the maintenance of hematopoiesis by regulating Pvr expression (PubMed:25201876).

(UniProt, Q9VCH5)

Summary (Interactive Fly)

transcriptional regulator - viral-induced primary response gene - lymph gland hematopoietic development

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Nup98-96 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

Comments on Gene Model

The larger Nup98-RA transcript encodes a single, large precursor polyprotein that, in other eukaryotes, and thus presumably in flies, autoproteolytically cleaves itself between residues Phe1028 and Ser1029, yielding separate Nup98 and Nup96 proteins (FBrf0159638).

Gene model reviewed during 5.41

Gene model reviewed during 5.47

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Nup98-96-RA

FBtr0084460

NM_142930

6624

1960

Nup98-96-RC

FBtr0304567

NM_001260337

3987

1179

Nup98-96-RD

FBtr0334894

NM_001275956

6412

1960

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

RefSeq ID

GenBank

Nup98-96-PA

FBpp0083851

210.1

1960

6.50

NP_651187

AAF56190

Nup98-96-PC

FBpp0293109

121.6

1179

6.47

NP_001247266

AFH06584

Nup98-96-PD

FBpp0306915

210.1

1960

6.50

NP_001262885

AGB96265

Polypeptides with Identical Sequences

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

1960 aa isoforms: Nup98-96-PA, Nup98-96-PD

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Part of the nuclear pore complex (NPC) (PubMed:25310983). Interacts with Rae1 (PubMed:21874015, PubMed:28554770). Nuclear pore complex protein Nup98: Interacts with pzg and Chro (PubMed:25310983). Interacts with MBD-R2; the interaction allows Nup98 recruitment to chromatin (PubMed:25310983). Interacts with Trx (PubMed:25310983). Interacts with Wds (PubMed:25310983). Interacts with Mtor and Cp190 (PubMed:28366641). Upon ecdysone stimulation, interacts with EcR, CTCF, su(Hw) and Trl (PubMed:28366641).

(UniProt, Q9VCH5)

Post Translational Modification

Isoform A and isoform C are autoproteolytically cleaved to yield Nup98 and Nup96 or Nup98 only, respectively.

(UniProt, Q9VCH5)

Domain

Contains FG repeats. FG repeats are interaction sites for karyopherins (importins, exportins) and form probably an affinity gradient, guiding the transport proteins unidirectionally with their cargo through the NPC. FG repeat regions are highly flexible and lack ordered secondary structure. The overall conservation of FG repeats regarding exact sequence, spacing, and repeat unit length is limited.

(UniProt, Q9VCH5)

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\Nup98-96 using the Feature Mapper tool.

External Data

Crossreferences

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

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | male & spermatogenesis

cyst progenitor cell

(Chen et al., 2013)

male germline stem cell

(Chen et al., 2013)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in chromatin

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2014, Capelson et al., 2010)

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010, Kalverda et al., 2010)

located_in cytoplasm

inferred from direct assay

(assigned by UniProt )

(Panda et al., 2014)

part_of nuclear pore

inferred from direct assay

(assigned by UniProt )

(Panda et al., 2014)

inferred from physical interaction with FLYBASE:Rae1; FB:FBgn0034646

(Tian et al., 2011)

located_in nucleus

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2017, Panda et al., 2014)

inferred from mutant phenotype

(assigned by UniProt )

(Kalverda et al., 2010)

located_in polytene chromosome band

inferred from direct assay

(assigned by UniProt )

(Kalverda et al., 2010)

located_in polytene chromosome puff

inferred from direct assay

(assigned by UniProt )

(Capelson et al., 2010)

inferred from mutant phenotype

(assigned by UniProt )

(Capelson et al., 2010)

located_in polytene chromosome

inferred from direct assay

(assigned by UniProt )

(Pascual-Garcia et al., 2014)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Nup98-96 in GBrowse 2

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

View exonic expression by developmental stage for Dmel\Nup98-96

View exonic expression by tissue for Dmel\Nup98-96

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

42816/tissue=All

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

FBgn0039120

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039120

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

FBgn0039120

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

CG10198

Flygut - An atlas of the Drosophila adult midgut

FBgn0039120

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 8 )

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 Nup98-96

Transgenic constructs containing regulatory region of Nup98-96

Aberrations (Deficiencies and Duplications) ( 15 )

Inferred from experimentation ( 15 )

Gene not disrupted in

Df(3R)CA2

(Erickson et al., 1997)

Df(3R)CA

(Presgraves et al., 2003, Keller et al., 1998)

Df(3R)nau-4A

(Presgraves et al., 2003, Keller et al., 1998)

Df(3R)nau-11a4

(Presgraves et al., 2003, Keller et al., 1998)

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal, with Scer\GAL4^pnr-MD237

Nup98-96^GD6897

lethal | recessive

Nup98-96³³⁹

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

Nup98-96^GD6897

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

Nup98-96^GD6897

viable, with Scer\GAL4^tin.CΔ4

Nup98-96^GD6897

Other Phenotypes

Allele

abnormal neuroanatomy | third instar larval stage, with Hsim\VP16^AD.nrv2, Scer\GAL4^{DBD.wrapper.932i}

short lived | heat sensitive, with Scer\GAL4^tin.CΔ4

Nup98-96^GD6897

Phenotype manifest in

Allele

embryonic/larval cell body glial cell | third instar larval stage, with Hsim\VP16^AD.nrv2, Scer\GAL4^{DBD.wrapper.932i}

embryonic/larval lymph gland, with Scer\GAL4^HCH.Hand, Scer\GAL4^Hml.Δ

Nup98-96^NIG.10198R

embryonic/larval lymph gland, with Scer\GAL4^Hml.Δ

Nup98-96^NIG.10198R

female fusome

Nup98-96²²⁸⁸

female fusome (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

female germline cell | adult stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

male fusome | adult stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

male fusome | third instar larval stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

male germline cell, with Scer\GAL4^VP16.nos.UTR

Nup98-96^GD6897

male germline cell | adult stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

male germline stem cell | third instar larval stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

nurse cell spectrosome

Nup98-96²²⁸⁸

nurse cell spectrosome (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

primary gonial cell | third instar larval stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

spermatogonium | third instar larval stage (with Df(3R)mbc-R1)

Nup98-96²²⁸⁸

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\NUP98

12 of 15

Yes

Hsap\NCOA5

1 of 15

Hsap\NUP58

1 of 15

Hsap\NUP62

1 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (5)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Nup98

12 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

Rattus norvegicus (Norway rat) (2)

Rnor\Nup98

10 of 13

Yes

Rnor\Ncoa5

1 of 13

Xenopus tropicalis (Western clawed frog) (4)

Xtro\nup98

6 of 12

Yes

Xtro\LOC100145527

1 of 12

Xtro\ncoa5

1 of 12

Xtro\nup214

1 of 12

Danio rerio (Zebrafish) (5)

Drer\nup98

10 of 15

Yes

Drer\ncoa5

1 of 15

Drer\nup58

1 of 15

Drer\nup62l

1 of 15

Drer\si:ch211-216l23.2

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (4)

Cele\npp-10

10 of 15

Yes

Cele\npp-4

2 of 15

Yes

Cele\npp-11

2 of 15

Cele\plg-1

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (4)

Atha\AT1G10390

6 of 9

Yes

Atha\AT1G59660

5 of 9

Yes

Atha\SAR3

5 of 9

Yes

Atha\AT1G63540

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (6)

Scer\NUP100

8 of 15

Yes

Scer\NUP116

8 of 15

Yes

Scer\NUP145

8 of 15

Yes

Scer\NUP49

2 of 15

Scer\NSP1

1 of 15

Scer\NUP42

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\nup189

9 of 12

Yes

Spom\nsp1

1 of 12

Spom\nup45

1 of 12

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091900M6 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA10149

Drosophila persimilis

Dper\GL24268

Drosophila willistoni

Dwil\GK13519

Drosophila virilis

Dvir\GJ24642

Drosophila mojavensis

Dmoj\GI24505

Drosophila grimshawi

Dgri\GH10992

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091500FZ )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17007790

Glossina morsitans

Tsetse fly

Gmor\GMOY000519

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_11647

Mayetiola destructor

Hessian fly

Mdes\Mdes012161

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL007586

Anopheles darlingi

American malaria mosquito

Adar\ADAC006370

Anopheles gambiae

Malaria mosquito

Agam\AGAP002351

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ002761

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W006I )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA001818

Danaus plexippus

Monarch butterfly

Dple\DPOGS200783-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS208101-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL004924

Apis florea

Little honeybee

Aflo\2297565844

Apis mellifera

Western honey bee

Amel\GB43238

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP22907

Bombus terrestris

Buff-tailed bumblebee

Bter\15210521

Linepithema humile

Argentine ant

Lhum\LH14813

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:000106

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG015889

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG030036

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG029478

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG031264

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_02139

Tribolium castaneum

Red flour beetle

Tcas\TC013629

Pediculus humanus

Human body louse

Phum\PHUM598450

Rhodnius prolixus

Kissing bug

Rpro\RPRC006102

Cimex lectularius

Bed bug

Clec\CLEC003267

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI001279

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI53840

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_00199

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X010J )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR002936

Ixodes scapularis

Black-legged tick

Isca\ISCW013985

Ixodes scapularis

Black-legged tick

Isca\ISCW003758

Stegodyphus mimosarum

African social velvet spider

Smim\KFM59064.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM59065.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur01g06540

Tetranychus urticae

Two-spotted spider mite

Turt\tetur01g06520

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_120178

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_118557

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_331066

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_198208

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_267989

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_110849

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_119724

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_333113

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_62439

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_99133

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_59478

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G00HN )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Nup98

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Nup98_2

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000000557

Gallus gallus

Domestic chicken

Ggal\NUP98

Gallus gallus

Domestic chicken

Ggal\ENSGALG00000026603

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (6)

Gene Symbol

Score

Source

Alignment

2 of 10

1 of 10

1 of 10

fon

1 of 10

Neos

1 of 10

Nup62

1 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

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 ( 2 )

Allele

Disease

Interaction

References

Nup98-96^KK100388

ameliorates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

ameliorates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

Nup98-96^GD6897

ameliorates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

ameliorates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

Disease Associations of Human Orthologs (via DIOPT v8.0 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?

NUP98; nucleoporin 98 and 96 precursor

12 of 15

601021

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

esyN Network Diagram

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Nup98-96 - CTCF

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - Chro

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2014)

Nup98-96 - Cp190

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - EcR

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - Lkb1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Nup98-96 - MBD-R2

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2014)

Nup98-96 - Mtor

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - Pdk1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Nup98-96 - Pten

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

Nup98-96 - Rae1

anti tag coimmunoprecipitation, western blot, tandem affinity purification, Identification by mass spectrometry

(Kristó et al., 2017, Tian et al., 2011)

Nup98-96 - Trl

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - br

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2014)

Nup98-96 - cnn

anti bait coimmunoprecipitation, peptide massfingerprinting

(Habermann et al., 2012)

Nup98-96 - mof

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Mendjan et al., 2006)

Nup98-96 - su(Hw)

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2017)

Nup98-96 - trx

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2014)

Nup98-96 - wds

anti bait coimmunoprecipitation, western blot

(Pascual-Garcia et al., 2014)

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

View in Interactions Browser

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Nup98-96

suppressible

bip1

(Mondal et al., 2014)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Subunit Structure (UniProtKB)

(UniProt, Q9VCH5 )

Linkouts

BioGRID - A database of protein and genetic interactions.

67753

DroID - A comprehensive database of gene and protein interactions.

FBgn0039120

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

Nup98-96

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

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

FBgn0039120

External Data

Linkouts

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

RNA transport

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

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-80

Cytogenetic map

95B1-95B5

Sequence location

3R:23,774,225..23,781,621 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

95B1-95B5

Limits computationally determined from genome sequence between P{PZ}l(3)04684⁰⁴⁶⁸⁴ and P{PZ}Atg6⁰⁰⁰⁹⁶

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-80

(FlyBase, 2016)

3-82.0

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (13)

Bloomington

92790

w¹¹¹⁸; P{UAS-Nup96.myc}2

92791

w¹¹¹⁸; P{UAS-Nup98.myc}3

4951

Nup98-96³³⁹/TM3, Sb¹

92789

w¹¹¹⁸; P{UAS-lacI-Nup98-myc}8

28562

y¹ v¹; P{TRiP.HM05048}attP2

92792

w¹¹¹⁸; P{UAS-lacI-Nup98-myc}5/TM3, Sb¹

53714

P{neoFRT}82B e¹ Nup98-96^F1.13/TM6B, Tb¹

107965

v109279

v31198

w¹¹¹⁸; P{GD6897}v31198

v31199

w¹¹¹⁸; P{GD6897}v31199

v318656

PBac{fTRG00763.sfGFP-TVPTBF}VK00002

More stocks available...

Genomic Clones (23)

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

cDNA Clones (65)

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 GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0039120

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039120

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

42816

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Parrott et al., 2011)

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: l(3)95BCd Nup98

(Presgraves et al., 2003)

Source for merge of: CG10198 CG10201

(FlyBase, 1996-)

Additional comments

FlyBase Curator comment: Correspondence with author Lan Xu revealed that 'nup145' = CG10198.

(Chen and Xu, 2010)

Source for merge of CG10198 CG10201 was a shared cDNA ( date:010720 ).

(FlyBase, 1996-)

Other Comments

S2 cells treated with dsRNA directed against Nup98 show decreased uptake of S.aureus by phagocytosis compared to control cells.

(Stuart et al., 2007)

S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

(Stroschein-Stevenson et al., 2006)

Identified as a potential component of the hh signalling pathway in a genome-wide RNAi screen. dsRNA made from templates generated with primers directed affects the extent of expression of a hh signaling reporter construct in Clone 8 cells.

(Nybakken et al., 2005)

This gene is alternatively transcribed, giving rise to a minor 3.5kb Nup98 transcript and a major 7.3kb Nup98-Nup96 transcript. Which may autoproteolytically cleaves itself yielding separate Nup98 and Nup96 proteins.

(Presgraves et al., 2003)

Nup98 causes epistatic inviability in hybrids between D.melanogaster and D.simulans.

(Presgraves et al., 2003)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 121 )

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.

42816

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

Q9VCH5

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

Other crossreferences

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

FBgn0039120

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

42816/tissue=All

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

FBgn0039120

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039120

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

FBgn0039120

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

CG10198

Flygut - An atlas of the Drosophila adult midgut

FBgn0039120

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

FBgn0039120

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

42816

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

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

Dmel_CG10198

MARRVEL_MODEL - MARRVEL (model organism gene)

42816

modMine - A data warehouse for the modENCODE project

FBgn0039120

Linkouts

BioGRID - A database of protein and genetic interactions.

67753

DroID - A comprehensive database of gene and protein interactions.

FBgn0039120

DRSC - Results frm RNAi screens

FBgn0039120

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0039120

FlyMine - An integrated database for Drosophila genomics

FBgn0039120

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

Interactive Fly

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

RNA transport

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

Nup98-96

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

Synonyms and Secondary IDs (24)

Reported As

Symbol Synonym

CG10198

(Kumar et al., 2021, Hosono et al., 2015, Müller et al., 2010, Keleman et al., 2009.8.5, Perkins et al., 2009, Sabri et al., 2007, Stuart et al., 2007, Nybakken et al., 2005, Giot et al., 2003, Presgraves et al., 2003)

CG10201

NUP98

(Morin-Poulard et al., 2021, Chen et al., 2013, Stenberg and Larsson, 2011)

NUP98-NUP96

(Raices and D'Angelo, 2012)

Nup

(Mensch et al., 2013)

Nup 96

(Clark and Aquadro, 2010)

Nup 98

(Clark and Aquadro, 2010)

Nup-98

(Kallappagoudar et al., 2010)

Nup96

(Sawamura, 2012, Nei and Nozawa, 2011, Capelson et al., 2010, Presgraves, 2010, Barbash, 2007, Presgraves and Stephan, 2007, Pennisi, 2006, Albert and Schluter, 2005, Orr, 2005, Orr et al., 2004, Presgraves et al., 2003, Swanson, 2003)

Nup96-98

(Neumann et al., 2010)

Nup98-96

(Layalle et al., 2021, Vorobyeva and Mazina, 2019, Wu et al., 2019, Hirai et al., 2018, Pascual-Garcia et al., 2017, Sarov et al., 2016, Freibaum et al., 2015)

Nup98-Nup96

(Presgraves et al., 2003)

Nup98/96

(Sarkar et al., 2006)

l(3)95BCd

(Bloomington Drosophila Stock Center, 1999.6.28, Keller et al., 1998, Erickson et al., 1997)

nup145

(Chen and Xu, 2010)

nup98

(Munafò et al., 2021)

nup98-96

(Munafò et al., 2021, Hampoelz et al., 2019, Parrott et al., 2011)

Name Synonyms

Nucleoporin 96

(Presgraves, 2010)

Nucleoporin 98

(Ranz et al., 2012)

Nucleoporin 98-96

Nucleoporin 98-96kD

Nup98

nucleoporin 98-96

(Coutinho-Budd et al., 2017)

nucleoporin98-96

(Parrott et al., 2011)

Secondary FlyBase IDs

FBgn0021781
FBgn0039119

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (106)

Report Sections

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