FB2020_06, released Dec 22, 2020

Gene: Dmel\Nup98-96

Open Close
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
9 publicly available
Gene Snapshot
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]
Other Summaries
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
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (29 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (3 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-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:Q9VKJ3
(assigned by UniProt )
(Tang and Presgraves, 2009)
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:Q9W2E7
(assigned by UniProt )
(Kristó et al., 2017)
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 (17 terms)
Terms Based on Experimental Evidence (17 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)
involved_in transcriptional activation by promoter-enhancer looping
inferred from mutant phenotype
(assigned by UniProt )
(Pascual-Garcia 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 mutant phenotype
(assigned by UniProt )
(Kalverda et al., 2010)
inferred from direct assay
(assigned by UniProt )
(Pascual-Garcia et al., 2017, Panda et al., 2014)
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)
Protein Family (UniProt)
Belongs to the nucleoporin GLFG family. (Q9VCH5)
Protein Signatures (InterPro)
Summaries
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

Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
2

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
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
(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 mutant phenotype
(assigned by UniProt )
(Kalverda et al., 2010)
inferred from direct assay
(assigned by UniProt )
(Pascual-Garcia et al., 2017, Panda et al., 2014)
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
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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 8 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
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
Deletions and Duplications ( 15 )
Phenotypes
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
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\NUP98
12 of 15
Yes
Yes
0  
Hsap\NCOA5
1 of 15
No
No
Hsap\NUP58
1 of 15
No
No
Hsap\NUP62
1 of 15
No
No
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (5)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Nup98
12 of 15
Yes
Yes
Mmus\Ncoa5
1 of 15
No
No
Mmus\Nup62cl
1 of 15
No
No
Mmus\Nup62
1 of 15
No
No
Mmus\Nupl1
1 of 15
No
No
Rattus norvegicus (Norway rat) (2)
Rnor\Nup98
10 of 13
Yes
Yes
Rnor\Ncoa5
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (4)
Xtro\nup98
6 of 12
Yes
Yes
Xtro\LOC100145527
1 of 12
No
No
Xtro\ncoa5
1 of 12
No
No
Xtro\nup214
1 of 12
No
No
Danio rerio (Zebrafish) (5)
Drer\nup98
10 of 15
Yes
Yes
Drer\ncoa5
1 of 15
No
No
Drer\nup58
1 of 15
No
No
Drer\nup62l
1 of 15
No
No
Drer\si:ch211-216l23.2
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (4)
Cele\npp-10
10 of 15
Yes
Yes
Cele\npp-4
2 of 15
No
Yes
Cele\npp-11
2 of 15
No
No
Cele\plg-1
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (4)
Atha\AT1G10390
6 of 9
Yes
Yes
Atha\AT1G59660
5 of 9
No
Yes
Atha\SAR3
5 of 9
No
Yes
Atha\AT1G63540
1 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (6)
Scer\NUP100
8 of 15
Yes
Yes
Scer\NUP116
8 of 15
Yes
Yes
Scer\NUP145
8 of 15
Yes
Yes
Scer\NUP49
2 of 15
No
No
Scer\NSP1
1 of 15
No
No
Scer\NUP42
1 of 15
No
Yes
Schizosaccharomyces pombe (Fission yeast) (3)
Spom\nup189
9 of 12
Yes
Yes
Spom\nsp1
1 of 12
No
No
Spom\nup45
1 of 12
No
No
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
Dsuz\DS10_00011948
Drosophila simulans
Dsim\Nup98
Drosophila sechellia
Dsec\GM23537
Drosophila erecta
Dere\GG12402
Drosophila yakuba
Dyak\GE23921
Drosophila ananassae
Dana\GF18736
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
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Nup58
2 of 10
CG8086
1 of 10
CG18787
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 )
    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
        Show neighbor-neighbor interactions:
        Select Layout:
        Legend:
        Protein
        RNA
        Selected Interactor(s)
        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
        tandem affinity purification, Identification by mass spectrometry, anti tag coimmunoprecipitation, western blot
        (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)
        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 )
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        External Data
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3R
        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 (9)
        Genomic Clones (23)
        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.

          cDNA Clones, End Sequenced (ESTs)
          BDGP DGC clones
          Other clones
          RNAi and Array Information
          Linkouts
          DRSC - Results frm RNAi screens
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          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 ( 118 )
          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.
          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
          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
          Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
          Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
          Flygut - An atlas of the Drosophila adult midgut
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          InterPro - A database of protein families, domains and functional sites
          KEGG Genes - Molecular building blocks of life in the genomic space.
          modMine - A data warehouse for the modENCODE project
          Linkouts
          BioGRID - A database of protein and genetic interactions.
          DroID - A comprehensive database of gene and protein interactions.
          DRSC - Results frm RNAi screens
          FLIGHT - Cell culture data for RNAi and other high-throughput technologies
          FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          FlyMine - An integrated database for Drosophila genomics
          Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
          InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
          KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
          Synonyms and Secondary IDs (23)
          Reported As
          Symbol Synonym
          CG10198
          (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
          (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
          (Mehta et al., 2020, Swevers et al., 2018, Panda et al., 2015, Ashwal-Fluss et al., 2014, Mondal et al., 2014, Pascual-Garcia et al., 2014, Habermann et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Ranz et al., 2012, Finan et al., 2011, Friedman et al., 2011, Tian et al., 2011, Capelson et al., 2010, Kalverda and Fornerod, 2010, Kalverda et al., 2010, Müller et al., 2010, Doheny et al., 2008, Baeg et al., 2007, Barbash, 2007, Presgraves and Stephan, 2007, Stuart et al., 2007, Mendjan et al., 2006, Stroschein-Stevenson et al., 2006, Nybakken et al., 2005, Loop et al., 2004)
          Nup98-96
          (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)
          nup98-96
          (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 (99)