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NOL11 Gene

protein-coding   GIFtS: 49
GCID: GC17P065714

Nucleolar Protein 11

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Nucleolar Protein 111 2

External Ids:    HGNC: 245571   Entrez Gene: 259262   Ensembl: ENSG000001309357   OMIM: 6153665   UniProtKB: Q9H8H03   

Export aliases for NOL11 gene to outside databases

Previous GC identifers: GC17P063145 GC17P061098


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for NOL11 Gene:
NOL11 (nucleolar protein 11) is a protein-coding gene.

UniProtKB/Swiss-Prot: NOL11_HUMAN, Q9H8H0
Function: Ribosome biogenesis factor. May be required for both optimal rDNA transcription and small subunit (SSU)
pre-rRNA processing at sites A', A0, 1 and 2b




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000017.10  NC_018928.2  NT_010783.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the NOL11 gene promoter:
         POU2F2 (Oct-2.1)   Oct-B1   HFH-3   oct-B3   oct-B2   POU2F2   FOXI1   POU2F1   POU2F1a   POU2F2B   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNOL11 promoter sequence
   Search Chromatin IP Primers for NOL11

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat NOL11


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17q24.2   Ensembl cytogenetic band:  17q24.2   HGNC cytogenetic band: 17q24.2

NOL11 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NOL11 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P065714:  view genomic region     (about GC identifiers)

Start:
65,713,949 bp from pter      End:
65,740,647 bp from pter
Size:
26,699 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: NOL11_HUMAN, Q9H8H0 (See protein sequence)
Recommended Name: Nucleolar protein 11  
Size: 719 amino acids; 81124 Da
Subunit: Forms a complex with CIRH1A, UTP15, WDR43 and WDR75; within this complex, directly interacts with CIRH1A.
Interacts with FBL/fibrillarin in a transcription-dependent manner
Sequence caution: Sequence=BAH13045.1; Type=Erroneous translation; Note=Wrong choice of frame;
Sequence=CAB53709.1; Type=Frameshift; Positions=382, 383;
Secondary accessions: B7Z5V9 Q7L5S1 Q9UG18
Alternative splicing: 2 isoforms:  Q9H8H0-1   Q9H8H0-2   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay. No experimental confirmation available)

Explore the universe of human proteins at neXtProt for NOL11: NX_Q9H8H0

Explore proteomics data for NOL11 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys52, Lys125, Lys252, Lys344, Lys424, Lys676
  • Modification sites at PhosphoSitePlus

  • See NOL11 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_056277.2  
    ENSEMBL proteins: 
     ENSP00000253247   ENSP00000463662   ENSP00000463219   ENSP00000464015   ENSP00000463248  
     ENSP00000443765  

    NOL11 Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for NOL11

     
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    Search eBioscience for ELISAs for NOL11 
    antibodies-online kits for NOL11 (8 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    2 InterPro protein domains:
     IPR012584 NUC205
     IPR017986 WD40_repeat_dom

    Graphical View of Domain Structure for InterPro Entry Q9H8H0

    ProtoNet protein and cluster: Q9H8H0

    1 Blocks protein domain: IPB012584 NUC205


    Find genes that share domains with NOL11           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: NOL11_HUMAN, Q9H8H0
    Function: Ribosome biogenesis factor. May be required for both optimal rDNA transcription and small subunit (SSU)
    pre-rRNA processing at sites A', A0, 1 and 2b

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
    GO:0044822poly(A) RNA binding IDA--
         
    Find genes that share ontologies with NOL11           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for NOL11

    miRNA
    Products:
        
    miRTarBase miRNAs that target NOL11:
    hsa-mir-16-5p (MIRT031623), hsa-mir-4323 (MIRT052834), hsa-mir-766-3p (MIRT039042)

    Block miRNA regulation of human, mouse, rat NOL11 using miScript Target Protectors
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    Predesigned siRNA for gene silencing in human, mouse, rat NOL11

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    NOL11_HUMAN, Q9H8H0: Nucleus, nucleolus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----
    GO:0005730nucleolus IDA--
    GO:0034455t-UTP complex IDA--

    Find genes that share ontologies with NOL11           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for NOL11
    Interactions:

        Search GeneGlobe Interaction Network for NOL11

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    4 Interacting proteins for NOL11 (Q9H8H02, 3 ENSP000002532474) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MARK3P274482, 3MINT-63627 I2D: score=4 
    MYCP011063, ENSP000003672074I2D: score=1 STRING: ENSP00000367207
    DGCR8ENSP000002632094STRING: ENSP00000263209
    GNB1ENSP000003678724STRING: ENSP00000367872
    About this table

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0030490maturation of SSU-rRNA IMP--
    GO:1901838positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter IMP--

    Find genes that share ontologies with NOL11           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for NOL11



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for NOL11 gene: 
    NM_015462.3  

    Unigene Cluster for NOL11:

    Nucleolar protein 11
    Hs.463936  [show with all ESTs]
    Unigene Representative Sequence: BC064404
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000253247(uc002jgd.1 uc010deu.1) ENST00000581106 ENST00000581966
    ENST00000581375 ENST00000584942 ENST00000580833 ENST00000580914 ENST00000577687
    ENST00000583108 ENST00000583021 ENST00000584032 ENST00000535137(uc010wql.1)

    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat NOL11

    Additional mRNA sequence: 

    AK023702.1 AK025390.1 AK299483.1 AL110271.1 AY598333.1 BC001726.2 BC064404.1 

    24 DOTS entries:

    DT.101974984  DT.452084  DT.100794540  DT.102831116  DT.100794537  DT.120898753  DT.40223506  DT.100794538 
    DT.91855481  DT.92445483  DT.100676957  DT.100677434  DT.100760116  DT.100794543  DT.120898555  DT.120898627 
    DT.120898665  DT.120898765  DT.121321366  DT.95107089  DT.95107129  DT.40130497  DT.75177525  DT.99956353 

    Selected AceView cDNA sequences (see all 289):

    BC064404 AA765847 BM468199 BG283912 AI049580 AA769274 BQ878568 BM693021 
    BM917856 BM849609 AI684175 AI928962 BQ020400 CR626357 BM927977 BM469595 
    AI188629 AA291339 CB215893 AI701999 CR593930 W45184 BM709920 BC001726 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for NOL11    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b
    SP1:        -                                                           -           -                                                               
    SP2:                                                                    -           -                                                               
    SP3:                                                                                -                                                               
    SP4:                                                                                                                                                
    SP5:                                                                                                                                                


    ECgene alternative splicing isoforms for NOL11

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    NOL11 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTTTTGAAT
    NOL11 Expression
    About this image

    NOL11 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    NOL11 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.463936
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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of chordates.

    Orthologs for NOL11 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Nol111 , 5 nucleolar protein 111, 5 80.56(n)1
    77.44(a)1
      11 (70.19 cM)5
    689791  NM_001161329.11  NP_001154801.11 
     1071666635 
    chicken
    (Gallus gallus)
    Aves LOC1008594261 nucleolar protein 11-like 64.63(n)
    57.73(a)
      100859426  XM_003642338.2  XP_003642386.1 
    lizard
    (Anolis carolinensis)
    Reptilia NOL116
    nucleolar protein 11
    51(a)
    1 ↔ 1
    GL343250.1(948282-972253)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.159942 Xenopus laevis transcribed sequence with weak similarity more 73.06(n)    BJ041304.1 
    zebrafish
    (Danio rerio)
    Actinopterygii nol111 nucleolar protein 11 52.55(n)
    41.07(a)
      321700  NM_001030063.1  NP_001025234.1 


    ENSEMBL Gene Tree for NOL11 (if available)
    TreeFam Gene Tree for NOL11 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for NOL11 gene

    Find genes that share paralogs with NOL11           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for NOL11
    PGOHUM00000242076


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for NOL11 (see all 687)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs572416051,2
    C--61108760(+) AAAAA-/AAAAA 
    /AAAAAAA
    GAGCT
    1 -- int11NA 2
    rs775246931,2
    C,F--65712682(+) AAAAAA/CAGACA 1 -- us2k13Minor allele frequency- C:0.14WA NA EA 358
    rs583397351,2
    C--65713609(+) ACCTA-/CAGAGAT 1 -- us2k11Minor allele frequency- CA:0.00NA 2
    rs2004515521,2
    C--65713609(+) ACCTAC/G/TAGAGA 1 -- us2k10--------
    rs1121686601,2
    C--65726765(+) TTTTTA/TAATTT 1 -- int11Minor allele frequency- T:0.00CSA 1
    rs99060261,2
    C--65727372(+) gttttA/Tttttt 1 -- int1 trp30--------
    rs752443641,2
    C--65727373(+) TTTTTA/TTTTTT 1 -- int10--------
    rs1917785151,2
    --65727614(+) CGCCCG/TCCTCG 1 -- int10--------
    rs1843116811,2
    --65727619(+) GCCTCA/GGCCTC 1 -- int10--------
    rs1407532731,2
    --65727627(+) CTCCC-/AAAGTCGT 1 -- int10--------

    HapMap Linkage Disequilibrium report for NOL11 (65713949 - 65740647 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for NOL11:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1406871CNV Deletion17803354
    esv2209241CNV Deletion18987734
    esv2556372CNV Deletion19546169
    esv3806CNV Deletion18987735
    esv2716135CNV Deletion23290073
    esv7392CNV Loss19470904
    nsv510442CNV Loss20534489
    nsv511059CNV Complex20534489

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing NOL11
    DNA2.0 Custom Variant and Variant Library Synthesis for NOL11

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 615366    OMIM disorders: --


    Find genes that share disorders with NOL11           About GenesLikeMe


    Export disorders for NOL11 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for NOL11 gene, integrated from 10 sources (see all 22):
    (articles sorted by number of sources associating them with NOL11)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. NOL11, implicated in the pathogenesis of North American Indian childhood cirrhosis, is required for pre-rRNA transcription and processing. (PubMed id 22916032)1, 2 Freed E.F....Baserga S.J. (PLoS Genet. 2012)
    2. Suppression subtractive hybridization and expression profiling identifies a unique set of genes overexpressed in non-small-cell lung cancer. (PubMed id 15334068)1, 2 Petroziello J.... Carter P. (Oncogene 2004)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    5. Functional proteomic analysis of human nucleolus. (PubMed id 12429849)1, 2 Scherl A.... Diaz J.-J. (Mol. Biol. Cell 2002)
    6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    7. The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (J. Cell. Sci. 2012)
    8. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    9. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (Nat. Cell Biol. 2012)
    10. Integrative analysis of the ubiquitin proteome isolated using Tandem Ubiquitin Binding Entities (TUBEs). (PubMed id 22178446)1 Lopitz-Otsoa F....Rodriguez M.S. (J Proteomics 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 25926 HGNC: 24557 AceView: DKFZP586L0724 Ensembl:ENSG00000130935 euGenes: HUgn25926
    ECgene: NOL11 H-InvDB: NOL11

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for NOL11 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for NOL11 gene:
    Search GeneIP for patents involving NOL11

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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