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KNOP1 Gene

protein-coding   GIFtS: 32
GCID: GC16M019714

Lysine-Rich Nucleolar Protein 1

(Previous name: chromosome 16 open reading frame 88)
(Previous symbol: C16orf88)
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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
Lysine-Rich Nucleolar Protein 11 2     Member A1
C16orf881 2 3     Testis-Specific Gene 1181
Testis-Specific Gene 118 Protein2 3     101F10.12
FAM191A2 3     Family With Sequence Similarity 191, Member A2
TSG1182 3     Protein C16orf882
Chromosome 16 Open Reading Frame 881     Protein FAM191A3
Family With Sequence Similarity 1911     

External Ids:    HGNC: 344041   Entrez Gene: 4005062   Ensembl: ENSG000001035507   UniProtKB: Q1ED393   

Export aliases for KNOP1 gene to outside databases


(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 KNOP1 Gene:
KNOP1 (lysine-rich nucleolar protein 1) is a protein-coding gene.


(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_000016.9  NT_187260.1  NC_018927.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for KNOP1
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidKNOP1 promoter sequence
   Search Chromatin IP Primers for KNOP1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat KNOP1


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

Entrez Gene cytogenetic band: 16p12.3   Ensembl cytogenetic band:  16p12.3   HGNC cytogenetic band: 16p12.3

KNOP1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
KNOP1 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M019714:  view genomic region     (about GC identifiers)

Start:
19,714,902 bp from pter      End:
19,729,557 bp from pter
Size:
14,656 bases      Orientation:
minus 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: KNOP1_HUMAN, Q1ED39 (See protein sequence)
Recommended Name: Lysine-rich nucleolar protein 1  
Size: 458 amino acids; 51589 Da
Subunit: Interacts with ZNF106 (By similarity)
Sequence caution: Sequence=AAC05805.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAH89430.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;
Secondary accessions: O43328 Q5FWF3

Explore the universe of human proteins at neXtProt for KNOP1: NX_Q1ED39

Explore proteomics data for KNOP1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See KNOP1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001013009.2  
    ENSEMBL proteins: 
     ENSP00000219837   ENSP00000455015   ENSP00000455369   ENSP00000454329  

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    antibodies-online kits for KNOP1 (2 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:
     IPR028125 KNOP1
     IPR028124 SMAP_dom

    Graphical View of Domain Structure for InterPro Entry Q1ED39

    ProtoNet protein and cluster: Q1ED39


    Find genes that share domains with KNOP1           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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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0044822poly(A) RNA binding IDA--
         
    Find genes that share ontologies with KNOP1           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for KNOP1

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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
    KNOP1_HUMAN, Q1ED39: Nucleus, nucleolus (By similarity)

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005730nucleolus IEA--

    Find genes that share ontologies with KNOP1           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 KNOP1
    Interactions:

        Search GeneGlobe Interaction Network for KNOP1

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for KNOP1 (ENSP000002198374) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SUMO2ENSP000004059654STRING: ENSP00000405965
    About this table

    (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 KNOP1



    (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 KNOP1 gene: 
    NM_001012991.2  

    Unigene Cluster for KNOP1:

    Lysine-rich nucleolar protein 1
    Hs.585209  [show with all ESTs]
    Unigene Representative Sequence: NM_001012991
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000219837(uc002dgq.3) ENST00000568230 ENST00000567367 ENST00000565844
    ENST00000564480
    miRNA
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat KNOP1
      QuantiFast Probe-based Assays in human, mouse, rat KNOP1

    Additional mRNA sequence: 

    BC047010.1 BC089430.1 BC117562.1 

    12 DOTS entries:

    DT.100788420  DT.97787378  DT.91708212  DT.120673419  DT.120673444  DT.100001368  DT.100788418  DT.91699047 
    DT.100788421  DT.120673440  DT.40131405  DT.97765274 

    Selected AceView cDNA sequences (see all 151):

    CN479616 BM791473 AI962507 BE207507 BX443268 CA503036 BC047010 AI870774 
    AI570400 BM823730 BM472218 AA337639 AI927643 AW014793 CR625565 BX337765 
    AI739000 BU187108 BF002510 BM825349 BQ052048 CA867390 CR594158 AI376366 

    GeneLoc Exon Structure


    (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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    KNOP1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    KNOP1 Expression
    About this image

    KNOP1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    KNOP1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.585209
        Custom PCR Arrays for KNOP1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KNOP1

    (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 KNOP1 gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia 2310008H09Rik5
    Knop11
    RIKEN cDNA 2310008H09 gene5
    lysine rich nucleolar protein 11
    72.8(n)1
    65.02(a)1
      7 (63.66 cM)5
    663561  NM_023197.31  NP_075686.21 
     1188422375 
    chicken
    (Gallus gallus)
    Aves KNOP16
    lysine-rich nucleolar protein 1
    47(a)
    1 ↔ 1
    14(14744187-14754407)
    lizard
    (Anolis carolinensis)
    Reptilia KNOP16
    lysine-rich nucleolar protein 1
    46(a)
    1 ↔ 1
    GL344346.1(25611-27000)
    zebrafish
    (Danio rerio)
    Actinopterygii knop16
    lysine-rich nucleolar protein 1
    25(a)
    1 ↔ 1
    1(55223065-55235466) ENSDARG00000077721


    ENSEMBL Gene Tree for KNOP1 (if available)
    TreeFam Gene Tree for KNOP1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for KNOP1 gene

    Find genes that share paralogs with KNOP1           About GenesLikeMe


    5 Pseudogenes.org Pseudogenes for KNOP1
    PGOHUM00000239432 PGOHUM00000251017 PGOHUM00000240640 PGOHUM00000243671 PGOHUM00000249796


    (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 KNOP1 (see all 222)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1819610111,2
    --19717263(+) CGGGAC/TTAACC 1 -- int10--------
    rs49964691,2
    C,H--19717367(+) GACTGG/TTTTAG 1 -- int14Minor allele frequency- T:0.00NS EA 412
    rs1406234181,2
    C--19717398(+) GCAGC-/TCAG  
            
    TCACA
    1 -- int10--------
    rs1442029921,2
    --19717481(+) GAAAAG/TGAGTT 1 -- int10--------
    rs47808201,2
    C,H--19717485(+) AGGAGC/TTTGCG 1 -- int113Minor allele frequency- T:0.00NA WA CSA EA 376
    rs1477602451,2
    --19717498(+) TCTCCA/GTTCCT 1 -- int10--------
    rs1426507641,2
    --19717582(+) CCCAAC/TGAGGA 1 -- int10--------
    rs1424424311,2
    --19717583(+) CCAACA/GAGGAT 1 -- int10--------
    rs1513202901,2
    --19717648(+) GCTTCA/GGGTAC 1 -- int10--------
    rs1865362981,2
    --19717650(+) TTCGGA/GTACAA 1 -- int10--------

    HapMap Linkage Disequilibrium report for KNOP1 (19714902 - 19729557 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for KNOP1: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing KNOP1
    DNA2.0 Custom Variant and Variant Library Synthesis for KNOP1

    (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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      --

    (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 KNOP1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with KNOP1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. (PubMed id 10493829)1, 2 Loftus B.J.... Adams M.D. (Genomics 1999)
    2. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    3. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (Sci. Signal. 2011)
    4. Comparative proteomic analysis identifies a role for SUMO in protein quality control. (PubMed id 21693764)1 Tatham M.H....Hay R.T. (Sci Signal 2011)
    5. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (Sci. Signal. 2010)
    6. System-wide changes to SUMO modifications in response to heat shock. (PubMed id 19471022)1 Golebiowski F....Hay R.T. (Sci Signal 2009)
    7. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (Proc. Natl. Acad. Sci. U.S.A. 2008)
    8. Quantitative phosphoproteome profiling of Wnt3a-mediated signaling network: indicating the involvement of ribonucleoside-diphosphate reductase M2 subunit phosphorylation at residue serine 20 in canonical Wnt signal transduction. (PubMed id 17693683)2 Tang L.-Y.... Zeng R. (Mol. Cell. Proteomics 2007)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 400506 HGNC: 34404 AceView: LOC400506 Ensembl:ENSG00000103550 euGenes: HUgn400506
    ECgene: KNOP1 H-InvDB: KNOP1

    (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 KNOP1 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 KNOP1 gene:
    Search GeneIP for patents involving KNOP1

    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
    Advanced Cell Diagnostics, Animal models from genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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