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Aliases for NOL9 Gene

Aliases for NOL9 Gene

  • Nucleolar Protein 9 2 3 4 5
  • Polynucleotide 5-Kinase 2 3
  • Polynucleotide 5-Hydroxyl-Kinase NOL9 3
  • EC 2.7.1.- 4
  • Grc3 3
  • NET6 3

External Ids for NOL9 Gene

Previous GeneCards Identifiers for NOL9 Gene

  • GC01M006520
  • GC01M005729

Summaries for NOL9 Gene

GeneCards Summary for NOL9 Gene

NOL9 (Nucleolar Protein 9) is a Protein Coding gene. Among its related pathways are rRNA processing in the nucleus and cytosol and Gene Expression. GO annotations related to this gene include RNA binding and polynucleotide 5-hydroxyl-kinase activity.

UniProtKB/Swiss-Prot for NOL9 Gene

  • Polynucleotide 5-kinase involved in rRNA processing. The kinase activity is required for the processing of the 32S precursor into 5.8S and 28S rRNAs, more specifically for the generation of the major 5.8S(S) form. In vitro, has both DNA and RNA 5-kinase activities. Probably binds RNA.

Gene Wiki entry for NOL9 Gene

Additional gene information for NOL9 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NOL9 Gene

Genomics for NOL9 Gene

Regulatory Elements for NOL9 Gene

Enhancers for NOL9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H006404 1 ENCODE 103 +149.8 149763 0 ZNF493 ZFP64 ARID4B FEZF1 ZNF121 GLIS2 ZNF302 ZNF143 KLF7 ZNF548 THAP3 NOL9 RPL22 PHF13 CAMTA1 NPHP4 CAMTA1-DT ZBTB48 LOC102724450 GC01M006398
GH01H006598 1.8 FANTOM5 ENCODE dbSUPER 21.6 -47.6 -47614 6 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 THAP3 KLHL21 RPL22 NOL9 HES3 LOC102725193 ZBTB48 PHF13 PIR47122 PIR44711
GH01H007401 1.5 FANTOM5 Ensembl ENCODE 22.4 -848.0 -847973 2 PKNOX1 SIN3A FEZF1 BRCA1 ZNF2 ZNF143 FOS DEK SP3 TSHZ1 NOL9 LOC102725193 THAP3 LOC101928836 GC01M007403
GH01H006197 1.1 ENCODE 21.6 +355.3 355255 3 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 PHF13 THAP3 NOL9 RNF207 ZBTB48 GC01M006194
GH01H006487 1.6 Ensembl ENCODE dbSUPER 13.6 +64.0 64041 5 HDGF ARID4B FEZF1 DMAP1 ZNF2 ZNF143 SP3 REST KAT8 SSRP1 PLEKHG5 THAP3 TNFRSF25 NOL9 KLHL21 PHF13 ESPN
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NOL9 on UCSC Golden Path with GeneCards custom track

Promoters for NOL9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000000701 498 1401 FOXA2 ARID4B SIN3A DMAP1 YY1 ZNF207 ZNF143 SP3 SP5 ZHX2

Genomic Location for NOL9 Gene

Chromosome:
1
Start:
6,521,347 bp from pter
End:
6,554,598 bp from pter
Size:
33,252 bases
Orientation:
Minus strand

Genomic View for NOL9 Gene

Genes around NOL9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NOL9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NOL9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NOL9 Gene

Proteins for NOL9 Gene

  • Protein details for NOL9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5SY16-NOL9_HUMAN
    Recommended name:
    Polynucleotide 5-hydroxyl-kinase NOL9
    Protein Accession:
    Q5SY16
    Secondary Accessions:
    • Q2NL84
    • Q4VBY3
    • Q6P472
    • Q7L4D6
    • Q96EE0
    • Q9H5L4

    Protein attributes for NOL9 Gene

    Size:
    702 amino acids
    Molecular mass:
    79323 Da
    Quaternary structure:
    • Interacts with PELP1, WDR18 and SENP3.
    SequenceCaution:
    • Sequence=BAB15611.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

neXtProt entry for NOL9 Gene

Post-translational modifications for NOL9 Gene

  • Ubiquitination at posLast=651651 and Lys670
  • Modification sites at PhosphoSitePlus

Other Protein References for NOL9 Gene

No data available for DME Specific Peptides for NOL9 Gene

Domains & Families for NOL9 Gene

Gene Families for NOL9 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for NOL9 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for NOL9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q5SY16

UniProtKB/Swiss-Prot:

NOL9_HUMAN :
  • Belongs to the Clp1 family. NOL9/GRC3 subfamily.
Family:
  • Belongs to the Clp1 family. NOL9/GRC3 subfamily.
genes like me logo Genes that share domains with NOL9: view

Function for NOL9 Gene

Molecular function for NOL9 Gene

UniProtKB/Swiss-Prot Function:
Polynucleotide 5-kinase involved in rRNA processing. The kinase activity is required for the processing of the 32S precursor into 5.8S and 28S rRNAs, more specifically for the generation of the major 5.8S(S) form. In vitro, has both DNA and RNA 5-kinase activities. Probably binds RNA.

Enzyme Numbers (IUBMB) for NOL9 Gene

Phenotypes From GWAS Catalog for NOL9 Gene

Gene Ontology (GO) - Molecular Function for NOL9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0005524 ATP binding TAS 21063389
GO:0016301 kinase activity IEA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with NOL9: view
genes like me logo Genes that share phenotypes with NOL9: view

Animal Model Products

CRISPR Products

miRNA for NOL9 Gene

miRTarBase miRNAs that target NOL9

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for NOL9
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NOL9 Gene

Localization for NOL9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NOL9 Gene

Nucleus. Nucleus, nucleolus. Note=Colocalizes with pre-60S rRNP particles.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NOL9 gene
Compartment Confidence
nucleus 5
cytoskeleton 4
cytosol 3
plasma membrane 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Intermediate filaments (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NOL9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus TAS 21063389
GO:0016020 membrane IDA 19946888
GO:0045111 intermediate filament cytoskeleton IDA --
genes like me logo Genes that share ontologies with NOL9: view

Pathways & Interactions for NOL9 Gene

genes like me logo Genes that share pathways with NOL9: view

Gene Ontology (GO) - Biological Process for NOL9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000448 cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
GO:0000460 maturation of 5.8S rRNA IMP 21063389
GO:0006364 rRNA processing TAS --
GO:0016310 phosphorylation IEA --
genes like me logo Genes that share ontologies with NOL9: view

No data available for SIGNOR curated interactions for NOL9 Gene

Drugs & Compounds for NOL9 Gene

No Compound Related Data Available

Transcripts for NOL9 Gene

Unigene Clusters for NOL9 Gene

Nucleolar protein 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for NOL9
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for NOL9 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12
SP1: - - -
SP2:
SP3: -
SP4:

Relevant External Links for NOL9 Gene

GeneLoc Exon Structure for
NOL9
ECgene alternative splicing isoforms for
NOL9

Expression for NOL9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NOL9 Gene

Protein differential expression in normal tissues from HIPED for NOL9 Gene

This gene is overexpressed in Liver (20.9), Testis (9.2), and Fetal testis (8.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NOL9 Gene



Protein tissue co-expression partners for NOL9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NOL9 Gene:

NOL9

SOURCE GeneReport for Unigene cluster for NOL9 Gene:

Hs.59425

Evidence on tissue expression from TISSUES for NOL9 Gene

  • Kidney(4.2)
  • Nervous system(4.2)
  • Skin(4.1)
genes like me logo Genes that share expression patterns with NOL9: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NOL9 Gene

Orthologs for NOL9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NOL9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NOL9 33 34
  • 99.29 (n)
dog
(Canis familiaris)
Mammalia NOL9 33 34
  • 81.6 (n)
cow
(Bos Taurus)
Mammalia NOL9 33 34
  • 79.35 (n)
mouse
(Mus musculus)
Mammalia Nol9 33 16 34
  • 71.31 (n)
rat
(Rattus norvegicus)
Mammalia Nol9 33
  • 71.08 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 59 (a)
OneToMany
-- 34
  • 56 (a)
OneToMany
-- 34
  • 52 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia NOL9 34
  • 49 (a)
OneToOne
chicken
(Gallus gallus)
Aves NOL9 33 34
  • 61.64 (n)
lizard
(Anolis carolinensis)
Reptilia NOL9 34
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nol9 33
  • 58.26 (n)
Str.6309 33
zebrafish
(Danio rerio)
Actinopterygii nol9 33 34
  • 51.27 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG8414 34
  • 13 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea nol-9 34
  • 21 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G11010 33
  • 48.3 (n)
rice
(Oryza sativa)
Liliopsida Os01g0184000 33
  • 46.84 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 25 (a)
OneToOne
Species where no ortholog for NOL9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NOL9 Gene

ENSEMBL:
Gene Tree for NOL9 (if available)
TreeFam:
Gene Tree for NOL9 (if available)

Paralogs for NOL9 Gene

Pseudogenes.org Pseudogenes for NOL9 Gene

genes like me logo Genes that share paralogs with NOL9: view

No data available for Paralogs for NOL9 Gene

Variants for NOL9 Gene

Sequence variations from dbSNP and Humsavar for NOL9 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000029656 -- 6,526,544(+) GAGGC(-/G)GCCCT intron-variant
rs1000090635 -- 6,532,366(+) CCTGA(A/T)GATCT intron-variant
rs1000147584 -- 6,532,699(+) CGGAA(C/G)TGAAC reference, missense
rs1000161554 -- 6,536,157(+) CTGGC(C/T)AAAGT intron-variant
rs1000322475 -- 6,544,098(+) TCCAG(C/T)CTGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NOL9 Gene

Variant ID Type Subtype PubMed ID
nsv545268 CNV loss 21841781
nsv545269 CNV loss 21841781
nsv7880 CNV gain+loss 18304495
nsv831536 CNV loss 17160897
nsv831647 CNV loss 17160897

Variation tolerance for NOL9 Gene

Residual Variation Intolerance Score: 34.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.03; 37.30% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NOL9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NOL9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NOL9 Gene

Disorders for NOL9 Gene

Relevant External Links for NOL9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NOL9

No disorders were found for NOL9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NOL9 Gene

Publications for NOL9 Gene

  1. Nol9 is a novel polynucleotide 5'-kinase involved in ribosomal RNA processing. (PMID: 21063389) Heindl K … Martinez J (The EMBO journal 2010) 2 3 4 60
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 60
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  5. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A … Diaz JJ (Molecular biology of the cell 2002) 3 4 60

Products for NOL9 Gene

Sources for NOL9 Gene

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