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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

NAP1L3 Gene

protein-coding   GIFtS: 48
GCID: GC0XM092925

Nucleosome Assembly Protein 1-Like 3

  See related disease
at  

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

Aliases
Nucleosome Assembly Protein 1-Like 31 2
MB202
NPL32
BNAP3

External Ids:    HGNC: 76391   Entrez Gene: 46752   Ensembl: ENSG000001863107   OMIM: 3001175   UniProtKB: Q994573   

Export aliases for NAP1L3 gene to outside databases

Previous GC identifers: GC0XM088209 GC0XM089906 GC0XM090961 GC0XM091697 GC0XM092732 GC0XM082748


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for NAP1L3 Gene:
This gene is intronless and encodes a member of the nucleosome assembly protein (NAP) family. This gene is linked
closely to a region of genes responsible for several X-linked mental retardation syndromes. (provided by RefSeq,
Dec 2010)

GeneCards Summary for NAP1L3 Gene: 
NAP1L3 (nucleosome assembly protein 1-like 3) is a protein-coding gene. Diseases associated with NAP1L3 include mental retardation. An important paralog of this gene is NAP1L6.




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000023.10  NC_018934.2  NT_011651.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NAP1L3 gene promoter:
         TBP   Bach1   GR-beta   GCNF   STAT5A   GATA-1   IRF-2   GCNF-1   GCNF-2   ATF   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNAP1L3 promoter sequence
   Search SABiosciences Chromatin IP Primers for NAP1L3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NAP1L3


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

Entrez Gene cytogenetic band: Xq21.3-q22   Ensembl cytogenetic band:  Xq21.32   HGNC cytogenetic band: Xq21.3-q22

NAP1L3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NAP1L3 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM092925:  view genomic region     (about GC identifiers)

Start:
92,925,925 bp from pter      End:
92,928,682 bp from pter
Size:
2,758 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: NP1L3_HUMAN, Q99457 (See protein sequence)
Recommended Name: Nucleosome assembly protein 1-like 3  
Size: 506 amino acids; 57593 Da
Subcellular location: Nucleus (By similarity)
Secondary accessions: B2RCM0 O60788

Explore the universe of human proteins at neXtProt for NAP1L3: NX_Q99457

Explore proteomics data for NAP1L3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q99457

  • NAP1L3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    NAP1L3 Protein Expression
    REFSEQ proteins: NP_004529.2  
    ENSEMBL proteins: 
     ENSP00000362171  

    Human Recombinant Protein Products for NAP1L3: 
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    Novus Biologicals NAP1L3 Protein
    Novus Biologicals NAP1L3 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for NAP1L3 

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    NAP1L3 for ontologies           About GeneDecksing



    NAP1L3 Antibody Products: 
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    Cloud-Clone Corp. CLIAs for NAP1L3


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR002164 NAP_family

    Graphical View of Domain Structure for InterPro Entry Q99457

    ProtoNet protein and cluster: Q99457

    1 Blocks protein domain: IPB002164 Nucleosome assembly protein (NAP)

    UniProtKB/Swiss-Prot: NP1L3_HUMAN, Q99457
    Similarity: Belongs to the nucleosome assembly protein (NAP) family


    NAP1L3 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:
         Genatlas biochemistry entry for NAP1L3:
    nucleosome assembly protein-like 3,tightly linked to DXS990

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for NAP1L3 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for NAP1L3

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for NAP1L3 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for NAP1L3 

    miRNA
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    8/22 QIAGEN miScript miRNA Assays for microRNAs that regulate NAP1L3 (see all 22):
    hsa-miR-30c hsa-miR-498 hsa-miR-513a-5p hsa-miR-29a hsa-miR-29c hsa-miR-30d hsa-miR-301a hsa-miR-105
    SwitchGear 3'UTR luciferase reporter plasmidNAP1L3 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
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    Gene Editing
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    Clone
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    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NAP1L3


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for NAP1L3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

    5/10 Interacting proteins for NAP1L3 (Q994573 ENSP000003621714) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BEND7Q8N7W23I2D: score=1 
    BAZ1AENSP000003534584STRING: ENSP00000353458
    CHAF1AENSP000003012804STRING: ENSP00000301280
    CHAF1BENSP000003157004STRING: ENSP00000315700
    NAP1L1ENSP000002611824STRING: ENSP00000261182
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006334nucleosome assembly IEA--

    NAP1L3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for NAP1L3 (NP1L3)

    Search CenterWatch for drugs/clinical trials and news about NAP1L3 / NP1L3

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for NAP1L3 gene: 
    NM_004538.5  

    Unigene Cluster for NAP1L3:

    Nucleosome assembly protein 1-like 3
    Hs.21365  [show with all ESTs]
    Unigene Representative Sequence: NM_004538
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000373079(uc004efq.3) ENST00000475430 ENST00000485425
    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat NAP1L3
    8/22 QIAGEN miScript miRNA Assays for microRNAs that regulate NAP1L3 (see all 22):
    hsa-miR-30c hsa-miR-498 hsa-miR-513a-5p hsa-miR-29a hsa-miR-29c hsa-miR-30d hsa-miR-301a hsa-miR-105
    SwitchGear 3'UTR luciferase reporter plasmidNAP1L3 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for NAP1L3
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat NAP1L3
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    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: NAP1L3 (NM_004538)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for NAP1L3
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat NAP1L3
    Sirion Biotech Customized lentivirus for stable overexpression of NAP1L3 
                         Customized lentivirus expression plasmids for stable overexpression of NAP1L3 
    Primer
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    OriGene qPCR primer pairs and template standards for NAP1L3
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat NAP1L3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat NAP1L3

    Additional mRNA sequence: 

    AK223621.1 AK315176.1 BC034954.2 BC094729.1 D50370.1 

    5 DOTS entries:

    DT.92423957  DT.116325  DT.121298700  DT.121298694  DT.121298688 

    24/84 AceView cDNA sequences (see all 84):

    BQ637558 BF594742 BG654940 AU127955 AI015526 AI418649 NM_004538 AA393645 
    CR610053 AL119710 AI241936 AL534617 AL120635 AU131171 AK090772 BX455011 
    AA463251 AW772259 BC034954 BX413252 D50370 AA626771 AK095682 CD102033 

    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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    NAP1L3 expression in normal human tissues (normalized intensities)      NAP1L3 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTCTTGTATT
    NAP1L3 Expression
    About this image


    NAP1L3 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/6 selected tissues (see all 6) fully expand
     
     Brain (Nervous System)    fully expand to see all 7 entries
             Medulla Oblongata
             Globus Pallidus   
     
     Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 3 entries
             Line H9 (WA09)
             ESI-053   
     
     Neural Crest (Gastrulation Derivatives)
             PureStem 7SMOO32, NCr-fac & Meso Progenitor
     
     Mesoderm (Gastrulation Derivatives)
             PureStem 7SMOO32, NCr-fac & Meso Progenitor
     
     Blood (Hematopoietic System)
             Hematopoietic Stem Cells Hematopoietic Bone Marrow

    See NAP1L3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for NAP1L3

    SOURCE GeneReport for Unigene cluster: Hs.21365
        SABiosciences Custom PCR Arrays for NAP1L3
    Primer
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    OriGene qPCR primer pairs and template standards for NAP1L3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NAP1L3

    (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)
    About This Section

    This gene was present in the common ancestor of animals and fungi.

    Orthologs for NAP1L3 gene from 4/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Nap1l31 , 5 nucleosome assembly protein 1-like 31, 5 82.67(n)1
    78.57(a)1
      X (49.81 cM)5
    545611  NM_138742.11  NP_620081.11 
     1223945655 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG50176
    Nap16
    (see all 3)
    Nucleosome assembly protein 1
    (see all 3)
    29(a)
    28(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    3R(23738169-23739507)
    2R(19792698-19794837)
    worm
    (Caenorhabditis elegans)
    Secernentea nap-16
    Protein NAP-1
    29(a)
    1 → many
    IV(8377705-8379321)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes NAP16
    Protein that interacts with mitotic cyclin Clb2p; ...
    19(a)
    1 → many
    XI(525387-526640)


    ENSEMBL Gene Tree for NAP1L3 (if available)
    TreeFam Gene Tree for NAP1L3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NAP1L3 gene
    NAP1L62  NAP1L22  NAP1L42  NAP1L12  
    2 SIMAP similar genes for NAP1L3 using alignment to 3 protein entries:     NP1L3_HUMAN (see all proteins):
    NAP1L5    NAP1L1

    NAP1L3 for paralogs           About GeneDecksing



    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/20 SNPs in NAP1L3 are shown (see all 20)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0245454
    ----see VAR_0245452 P A mis40--------
    rs1813835921,2
    --92925581(+) CAGTTC/TCCTTT 1 -- ds50010--------
    rs2022227111,2
    --92925593(+) CCACC-/GCCCCC 1 -- ds50010--------
    rs348039021,2
    C--92925594(+) CACCG-/CCCCCC 1 -- ds50010--------
    rs37523361,2
    C,F,H--92925839(+) TAGTTA/CTCTTT 1 -- ds500115Minor allele frequency- C:0.21NS EA NA CSA 1877
    rs1856177771,2
    --92925955(+) TAATAA/TTTATT 1 -- ut310--------
    rs95011,2
    C,F--92926025(-) TTCCCT/CTTCAC 1 -- ut31 ese3 trp32Minor allele frequency- C:0.00NA 4
    rs1489640451,2
    C--92926149(+) TAACAC/TCATTA 1 -- ut310--------
    rs2008317961,2
    C--92926201(+) CTCAG-/TTGAAT 1 -- ut310--------
    rs128327171,2
    C--92926241(+) GCTAAT/CCTTTT 1 -- ut31 ese31Minor allele frequency- C:0.00NA 2

    HapMap Linkage Disequilibrium report for NAP1L3 (92925925 - 92928682 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for NAP1L3: --

    Locus Specific Mutation Databases (LSDB): NAP1L3
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing NAP1L3
    DNA2.0 Custom Variant and Variant Library Synthesis for NAP1L3

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 300117    OMIM disorders: --

    2 diseases for NAP1L3:    About MalaCards
    mental retardation    


    NAP1L3 for disorders           About GeneDecksing


    Export disorders for NAP1L3 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)
    About This Section

    PubMed articles for NAP1L3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with NAP1L3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning, expression pattern and mapping to Xq of NAP1L3, a gene encoding a peptide homologous to human and yeast nucleosome assembly proteins. (PubMed id 8976385)1, 2, 3, 9 Watanabe T.K....Takahashi E. (1996)
    2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    5. 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. (2002)
    6. Mapping and characterization of novel (CAG)n repeat cDNAs from adult human brain derived by the oligo capture method. (PubMed id 9417904)1 Reddy P.H....Tagle D.A. (1997)
    7. Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. (PubMed id 8125298)1 Maruyama K. and Sugano S. (1994)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 4675 HGNC: 7639 AceView: NAP1L3 Ensembl:ENSG00000186310 euGenes: HUgn4675
    ECgene: NAP1L3 H-InvDB: NAP1L3

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for NAP1L3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for NAP1L3 gene:
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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