Human Gene NUP93 (ENST00000308159.10_4) from GENCODE V47lift37

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Description: nucleoporin 93, transcript variant 1 (from RefSeq NM_014669.5)
Gencode Transcript: ENST00000308159.10_4
Gencode Gene: ENSG00000102900.13_12
Transcript (Including UTRs)
Position: hg19 chr16:56,764,041-56,884,198 Size: 120,158 Total Exon Count: 22 Strand: +
Coding Region
Position: hg19 chr16:56,782,160-56,878,521 Size: 96,362 Coding Exon Count: 21

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr16:56,764,041-56,884,198)			mRNA (may differ from genome)		Protein (819 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: NUP93_HUMAN DESCRIPTION: RecName: Full=Nuclear pore complex protein Nup93; AltName: Full=93 kDa nucleoporin; AltName: Full=Nucleoporin Nup93; FUNCTION: Part of the nucleoporin complex; required for correct nuclear pore assembly. SUBUNIT: Component of the p62 complex, a complex composed of NUP62 and NUP54. Forms a complex with NUP53, NUP155, NUP205 and lamin B; the interaction with NUP53 is direct. SUBCELLULAR LOCATION: Nucleus, nuclear pore complex. Nucleus membrane; Peripheral membrane protein (By similarity). Note=Localizes at the nuclear basket and at or near the nuclear entry to the gated channel of the pore. SIMILARITY: Belongs to the nucleoporin interacting component (NIC) family. SEQUENCE CAUTION: Sequence=BAA07680.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
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Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

MalaCards Disease Associations


	MalaCards Gene Search: NUP93 Diseases sorted by gene-association score: nephrotic syndrome, type 12* (1300), glomerulosclerosis, focal segmental, 1* (247), familial idiopathic steroid-resistant nephrotic syndrome with diffuse mesangial sclerosis* (175), nephrotic syndrome (12) * = Manually curated disease association

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D001564 Benzo(a)pyrene C023514 2,6-dinitrotoluene D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide C547126 AZM551248 D000082 Acetaminophen D003300 Copper D004997 Ethinyl Estradiol C558013 NSC 689534 D010634 Phenobarbital D012643 Selenium more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 19.34 RPKM in Testis Total median expression: 310.19 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-39.00	97	-0.402	Picture	PostScript	Text
3' UTR	-1801.20	5677	-0.317	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR007231 - Nucleoporin_int_Nup93/Nic96

Pfam Domains:
PF04097 - Nup93/Nic96

SCOP Domains:
48371 - ARM repeat

ModBase Predicted Comparative 3D Structure on Q8N1F7


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser	Genome Browser
Gene Details	Gene Details		Gene Details	Gene Details	Gene Details
Gene Sorter	Gene Sorter		Gene Sorter	Gene Sorter	Gene Sorter
	RGD	Ensembl		WormBase	SGD
				Protein Sequence	Protein Sequence
				Alignment	Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005515 protein binding GO:0017056 structural constituent of nuclear pore Biological Process: GO:0006406 mRNA export from nucleus GO:0006998 nuclear envelope organization GO:0015031 protein transport GO:0016032 viral process GO:0016973 poly(A)+ mRNA export from nucleus GO:0051028 mRNA transport GO:0051292 nuclear pore complex assembly GO:0060391 positive regulation of SMAD protein import into nucleus GO:0060395 SMAD protein signal transduction GO:0072001 renal system development GO:0072015 glomerular visceral epithelial cell development GO:0090521 glomerular visceral epithelial cell migration GO:1903206 negative regulation of hydrogen peroxide-induced cell death Cellular Component: GO:0005634 nucleus GO:0005635 nuclear envelope GO:0005643 nuclear pore GO:0016020 membrane GO:0031965 nuclear membrane GO:0034399 nuclear periphery

Descriptions from all associated GenBank mRNAs


	D42085 - Homo sapiens KIAA0095 mRNA. AF086282 - Homo sapiens full length insert cDNA clone ZD46B07. BC034346 - Homo sapiens nucleoporin 93kDa, mRNA (cDNA clone MGC:21106 IMAGE:4750923), complete cds. AK292262 - Homo sapiens cDNA FLJ78686 complete cds, highly similar to Homo sapiens nucleoporin 93kDa (NUP93), mRNA. AB385278 - Synthetic construct DNA, clone: pF1KA0095, Homo sapiens NUP93 gene for nucleoporin 93kDa, complete cds, without stop codon, in Flexi system. AK056637 - Homo sapiens cDNA FLJ32075 fis, clone OCBBF1000146, highly similar to Nuclear pore complex protein Nup93. AK294176 - Homo sapiens cDNA FLJ58756 complete cds, highly similar to Nuclear pore complex protein Nup93. AK123594 - Homo sapiens cDNA FLJ41600 fis, clone CTONG2026920. JD456712 - Sequence 437736 from Patent EP1572962. AK125165 - Homo sapiens cDNA FLJ43175 fis, clone FCBBF3008311. JD152433 - Sequence 133457 from Patent EP1572962. JD408191 - Sequence 389215 from Patent EP1572962. JD408192 - Sequence 389216 from Patent EP1572962. JD320077 - Sequence 301101 from Patent EP1572962. JD080427 - Sequence 61451 from Patent EP1572962. JD380088 - Sequence 361112 from Patent EP1572962. JD430102 - Sequence 411126 from Patent EP1572962. JD523734 - Sequence 504758 from Patent EP1572962. JD201246 - Sequence 182270 from Patent EP1572962. JD430103 - Sequence 411127 from Patent EP1572962. JD557286 - Sequence 538310 from Patent EP1572962. JD529075 - Sequence 510099 from Patent EP1572962. JD169110 - Sequence 150134 from Patent EP1572962. JD041124 - Sequence 22148 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q8N1F7 (Reactome details) participates in the following event(s): R-HSA-75096 Docking of the TAP:EJC Complex with the NPC R-HSA-165043 Rev multimer-bound HIV mRNA:Crm1:Ran:GTP complex associates with the NPC R-HSA-180622 Vpr binds nucleoporins R-HSA-180710 Rev:importin beta:B23 recruited to the nuclear pore R-HSA-2990882 CDK1 phosphorylates NUP98 R-HSA-75098 mRNP complex dissociates from cytosolic face of NPC R-HSA-165047 Translocation of nuclear RNA transport complex to cytoplasm R-HSA-180732 Translocation of Rev:importin-beta:B23 to the nucleus R-HSA-2990880 NEK6/NEK7 phosphorylates NUP98 R-HSA-170796 NPC transports GCK1:GKRP from cytosol to nucleoplasm R-HSA-5578744 Importin-8 imports AGO2:miRNA into the nucleus R-HSA-6783483 tRNA:XPOT:RAN:GTP translocates from the nucleus to the cytosol R-HSA-3000348 RANBP2 SUMOylates SP100 with SUMO2 R-HSA-3000399 RANBP2 SUMOylates SP100 with SUMO1 R-HSA-3000411 RANBP2 SUMOylates PML with SUMO2 R-HSA-4570493 RANBP2 (NUP358) SUMOylates HNRNPC with SUMO1 R-HSA-4615872 RANBP2 SUMOylates HDAC4 with SUMO1 R-HSA-4615987 RANBP2 SUMOylates HDAC4 with SUMO2,3 R-HSA-5228508 RANBP2 SUMOylates PML with SUMO1 R-HSA-5228525 RANBP2 SUMOylates TOP2A with SUMO1 R-HSA-192627 Viral mRNA Export R-HSA-192925 Export of Spliced Viral mRNA R-HSA-5252041 NPC transports Hikeshi:HSP70s:ATP from cytosol to nucleoplasm R-HSA-159236 Transport of Mature mRNA derived from an Intron-Containing Transcript R-HSA-165054 Rev-mediated nuclear export of HIV RNA R-HSA-180910 Vpr-mediated nuclear import of PICs R-HSA-180746 Nuclear import of Rev protein R-HSA-3301854 Nuclear Pore Complex (NPC) Disassembly R-HSA-72202 Transport of Mature Transcript to Cytoplasm R-HSA-162599 Late Phase of HIV Life Cycle R-HSA-177243 Interactions of Rev with host cellular proteins R-HSA-176033 Interactions of Vpr with host cellular proteins R-HSA-2980766 Nuclear Envelope Breakdown R-HSA-170822 Regulation of Glucokinase by Glucokinase Regulatory Protein R-HSA-168276 NS1 Mediated Effects on Host Pathways R-HSA-1169408 ISG15 antiviral mechanism R-HSA-5578749 Transcriptional regulation by small RNAs R-HSA-6784531 tRNA processing in the nucleus R-HSA-3108214 SUMOylation of DNA damage response and repair proteins R-HSA-4570464 SUMOylation of RNA binding proteins R-HSA-4551638 SUMOylation of chromatin organization proteins R-HSA-4615885 SUMOylation of DNA replication proteins R-HSA-168325 Viral Messenger RNA Synthesis R-HSA-3371453 Regulation of HSF1-mediated heat shock response R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA R-HSA-162587 HIV Life Cycle R-HSA-162909 Host Interactions of HIV factors R-HSA-68875 Mitotic Prophase R-HSA-70171 Glycolysis R-HSA-168253 Host Interactions with Influenza Factors R-HSA-1169410 Antiviral mechanism by IFN-stimulated genes R-HSA-211000 Gene Silencing by RNA R-HSA-72306 tRNA processing R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins R-HSA-168273 Influenza Viral RNA Transcription and Replication R-HSA-3371556 Cellular response to heat stress R-HSA-8953854 Metabolism of RNA R-HSA-162906 HIV Infection R-HSA-68886 M Phase R-HSA-70326 Glucose metabolism R-HSA-168254 Influenza Infection R-HSA-913531 Interferon Signaling R-HSA-74160 Gene expression (Transcription) R-HSA-2990846 SUMOylation R-HSA-168255 Influenza Life Cycle R-HSA-2262752 Cellular responses to stress R-HSA-5663205 Infectious disease R-HSA-69278 Cell Cycle (Mitotic) R-HSA-71387 Metabolism of carbohydrates R-HSA-1280215 Cytokine Signaling in Immune system R-HSA-597592 Post-translational protein modification R-HSA-8953897 Cellular responses to external stimuli R-HSA-1643685 Disease R-HSA-1640170 Cell Cycle R-HSA-1430728 Metabolism R-HSA-168256 Immune System R-HSA-392499 Metabolism of proteins

Other Names for This Gene


	Alternate Gene Symbols: B3KPQ8, ENST00000308159.1, ENST00000308159.2, ENST00000308159.3, ENST00000308159.4, ENST00000308159.5, ENST00000308159.6, ENST00000308159.7, ENST00000308159.8, ENST00000308159.9, KIAA0095, NM_014669, NUP93_HUMAN, Q14705, Q8N1F7, uc317ofw.1, uc317ofw.2 UCSC ID: ENST00000308159.10_4 RefSeq Accession: NM_014669.5 Protein: Q8N1F7 (aka NUP93_HUMAN or NU93_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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