Human Gene NONO (ENST00000276079.13) from GENCODE V44
  Description: Homo sapiens non-POU domain containing octamer binding (NONO), transcript variant 2, mRNA. (from RefSeq NM_007363)
RefSeq Summary (NM_007363): This gene encodes an RNA-binding protein which plays various roles in the nucleus, including transcriptional regulation and RNA splicing. A rearrangement between this gene and the transcription factor E3 gene has been observed in papillary renal cell carcinoma. Alternatively spliced transcript variants have been described. Pseudogenes exist on Chromosomes 2 and 16. [provided by RefSeq, Feb 2009].
Gencode Transcript: ENST00000276079.13
Gencode Gene: ENSG00000147140.17
Transcript (Including UTRs)
   Position: hg38 chrX:71,283,635-71,301,168 Size: 17,534 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg38 chrX:71,290,638-71,300,076 Size: 9,439 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chrX:71,283,635-71,301,168)mRNA (may differ from genome)Protein (471 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
neXtProtOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Non-POU domain-containing octamer-binding protein; Short=NonO protein; AltName: Full=54 kDa nuclear RNA- and DNA-binding protein; AltName: Full=55 kDa nuclear protein; AltName: Full=DNA-binding p52/p100 complex, 52 kDa subunit; AltName: Full=NMT55; AltName: Full=p54(nrb); Short=p54nrb;
FUNCTION: DNA- and RNA binding protein, involved in several nuclear processes. Binds the conventional octamer sequence in double stranded DNA. Also binds single-stranded DNA and RNA at a site independent of the duplex site (By similarity). Involved in pre-mRNA splicing, probably as a heterodimer with SFPQ. Interacts with U5 snRNA, probably by binding to a purine-rich sequence located on the 3' side of U5 snRNA stem 1b. The SFPQ-NONO heteromer associated with MATR3 may play a role in nuclear retention of defective RNAs. The SFPQ-NONO heteromer may be involved in DNA unwinding by modulating the function of topoisomerase I/TOP1. The SFPQ-NONO heteromer may be involved in DNA nonhomologous end joining (NHEJ) required for double-strand break repair and V(D)J recombination and may stabilize paired DNA ends. In vitro, the complex strongly stimulates DNA end joining, binds directly to the DNA substrates and cooperates with the Ku70/G22P1-Ku80/XRCC5 (Ku) dimer to establish a functional preligation complex. NONO is involved in transcriptional regulation. The SFPQ-NONO-NR5A1 complex binds to the CYP17 promoter and regulates basal and cAMP-dependent transcriptional avtivity. NONO binds to an enhancer element in long terminal repeats of endogenous intracisternal A particles (IAPs) and activates transcription (By similarity). Together with PSPC1, required for the formation of nuclear paraspeckles.
SUBUNIT: Monomer and component of the SFPQ-NONO complex, which is probably a heterotetramer of two 52 kDa (NONO) and two 100 kDa (SFPQ) subunits. NONO is a component of spliceosome and U5.4/6 snRNP complexes. Interacts with PSPC1 and SNRPA/U1A. Part of complex consisting of SFPQ, NONO and MATR3. Part of a complex consisting of SFPQ, NONO and NR5A1. Part of a complex consisting of SFPQ, NONO and TOP1. Interacts with SPI1 (By similarity). Interacts with RNF43. Forms heterodimers with PSPC1; this involves formation of a coiled coil domain by helices from both proteins.
INTERACTION: Self; NbExp=3; IntAct=EBI-350527, EBI-350527; Q8WXF1:PSPC1; NbExp=6; IntAct=EBI-350527, EBI-1392258;
SUBCELLULAR LOCATION: Nucleus. Nucleus, nucleolus. Nucleus speckle. Note=Detected in punctate subnuclear structures often located adjacent to splicing speckles, called paraspeckles.
TISSUE SPECIFICITY: Heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas. Also found in a number of breast tumor cell lines.
PTM: The N-terminus is blocked.
DISEASE: Note=A chromosomal aberration involving NONO may be a cause of papillary renal cell carcinoma (PRCC). Translocation t(X;X)(p11.2;q13.1) with TFE3.
SIMILARITY: Contains 2 RRM (RNA recognition motif) domains.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="";

-  Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

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: NONO
Diseases sorted by gene-association score: mental retardation, x-linked, syndromic 34* (1269), renal cell carcinoma, papillary* (145), renal cell carcinoma (9), pyomyositis (7), syndromic intellectual disability (6)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 98.27 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 2271.61 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -53.00153-0.346 Picture PostScript Text
3' UTR -304.801092-0.279 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
IPR012975 - NOPS
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom

Pfam Domains:
PF08075 - NOPS (NUC059) domain
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3SDE - X-ray MuPIT

ModBase Predicted Comparative 3D Structure on Q15233
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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000976 transcription regulatory region sequence-specific DNA binding
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001047 core promoter binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0042802 identical protein binding

Biological Process:
GO:0000398 mRNA splicing, via spliceosome
GO:0002218 activation of innate immune response
GO:0002376 immune system process
GO:0006281 DNA repair
GO:0006310 DNA recombination
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006397 mRNA processing
GO:0006974 cellular response to DNA damage stimulus
GO:0007623 circadian rhythm
GO:0008380 RNA splicing
GO:0042752 regulation of circadian rhythm
GO:0045087 innate immune response
GO:0045892 negative regulation of transcription, DNA-templated
GO:0048511 rhythmic process
GO:1903377 negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0016020 membrane
GO:0016363 nuclear matrix
GO:0016607 nuclear speck
GO:0042382 paraspeckles
GO:0090575 RNA polymerase II transcription factor complex

-  Descriptions from all associated GenBank mRNAs
  JD019319 - Sequence 343 from Patent EP1572962.
AK297144 - Homo sapiens cDNA FLJ56109 complete cds, highly similar to Non-POU domain-containing octamer-binding protein.
L14599 - Human mRNA, complete cds.
JD263100 - Sequence 244124 from Patent EP1572962.
AK291140 - Homo sapiens cDNA FLJ76817 complete cds, highly similar to Homo sapiens non-POU domain containing, octamer-binding (NONO), mRNA.
BC003129 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:3380 IMAGE:2957871), complete cds.
JD203636 - Sequence 184660 from Patent EP1572962.
BC028299 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:34914 IMAGE:5108266), complete cds.
JD031360 - Sequence 12384 from Patent EP1572962.
BC012141 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:20251 IMAGE:4643202), complete cds.
BC025352 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone IMAGE:4902684).
BC025280 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone IMAGE:4545568).
BC002364 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:8677 IMAGE:2964534), complete cds.
U89867 - Human nuclear matrix protein 55 (nmt55) mRNA, complete cds.
U02493 - Human 54 kDa protein mRNA, complete cds.
BC069616 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:97167 IMAGE:7262410), complete cds.
BC069639 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone MGC:97178 IMAGE:7262422), complete cds.
JD344514 - Sequence 325538 from Patent EP1572962.
LF322104 - JP 2014500723-A/129607: Polycomb-Associated Non-Coding RNAs.
MA557681 - JP 2018138019-A/129607: Polycomb-Associated Non-Coding RNAs.
CU680240 - Synthetic construct Homo sapiens gateway clone IMAGE:100019558 5' read NONO mRNA.
AB463144 - Synthetic construct DNA, clone: pF1KB5400, Homo sapiens NONO gene for non-POU domain containing, octamer-binding protein, without stop codon, in Flexi system.
KU178234 - Homo sapiens non-POU domain containing octamer-binding isoform 1 (NONO) mRNA, partial cds.
KU178235 - Homo sapiens non-POU domain containing octamer-binding isoform 2 (NONO) mRNA, complete cds, alternatively spliced.
KJ891709 - Synthetic construct Homo sapiens clone ccsbBroadEn_01103 NONO gene, encodes complete protein.
CR456761 - Homo sapiens full open reading frame cDNA clone RZPDo834C104D for gene NONO, non-POU domain containing, octamer-binding; complete cds, incl. stopcodon.
LF322103 - JP 2014500723-A/129606: Polycomb-Associated Non-Coding RNAs.
MA557680 - JP 2018138019-A/129606: Polycomb-Associated Non-Coding RNAs.
LF322102 - JP 2014500723-A/129605: Polycomb-Associated Non-Coding RNAs.
MA557679 - JP 2018138019-A/129605: Polycomb-Associated Non-Coding RNAs.
JD167819 - Sequence 148843 from Patent EP1572962.
BC010049 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone IMAGE:3833574), with apparent retained intron.
KJ901606 - Synthetic construct Homo sapiens clone ccsbBroadEn_11000 NONO gene, encodes complete protein.
LF322101 - JP 2014500723-A/129604: Polycomb-Associated Non-Coding RNAs.
MA557678 - JP 2018138019-A/129604: Polycomb-Associated Non-Coding RNAs.
BC004113 - Homo sapiens non-POU domain containing, octamer-binding, mRNA (cDNA clone IMAGE:3835400), partial cds.
LF322097 - JP 2014500723-A/129600: Polycomb-Associated Non-Coding RNAs.
MA557674 - JP 2018138019-A/129600: Polycomb-Associated Non-Coding RNAs.
AK055406 - Homo sapiens cDNA FLJ30844 fis, clone FEBRA2002601, weakly similar to 54 KDA NUCLEAR RNA-BINDING PROTEIN.
JD081832 - Sequence 62856 from Patent EP1572962.
JD439919 - Sequence 420943 from Patent EP1572962.
JD404268 - Sequence 385292 from Patent EP1572962.
JD240992 - Sequence 222016 from Patent EP1572962.
JD206073 - Sequence 187097 from Patent EP1572962.
JD180397 - Sequence 161421 from Patent EP1572962.
JD226293 - Sequence 207317 from Patent EP1572962.
JD511196 - Sequence 492220 from Patent EP1572962.
JD428203 - Sequence 409227 from Patent EP1572962.
JD311063 - Sequence 292087 from Patent EP1572962.
JD264725 - Sequence 245749 from Patent EP1572962.
JD305404 - Sequence 286428 from Patent EP1572962.
JD313774 - Sequence 294798 from Patent EP1572962.
JD506143 - Sequence 487167 from Patent EP1572962.
JD324970 - Sequence 305994 from Patent EP1572962.
JD387408 - Sequence 368432 from Patent EP1572962.
JD251700 - Sequence 232724 from Patent EP1572962.
L32558 - Homo sapiens (clone tec14) mRNA, partial cds.
JD168819 - Sequence 149843 from Patent EP1572962.
JD248879 - Sequence 229903 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_antisensePathway - RNA polymerase III transcription

-  Other Names for This Gene
  Alternate Gene Symbols: D3DVV4, ENST00000276079.1, ENST00000276079.10, ENST00000276079.11, ENST00000276079.12, ENST00000276079.2, ENST00000276079.3, ENST00000276079.4, ENST00000276079.5, ENST00000276079.6, ENST00000276079.7, ENST00000276079.8, ENST00000276079.9, NM_007363, NONO_HUMAN, NRB54, O00201, P30807, Q12786, Q15233, Q9BQC5, uc004dzn.1, uc004dzn.2, uc004dzn.3, uc004dzn.4, uc004dzn.5, uc004dzn.6
UCSC ID: ENST00000276079.13
RefSeq Accession: NM_007363
Protein: Q15233 (aka NONO_HUMAN)
CCDS: CCDS14410.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.