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

NBPF16 Gene

protein-coding   GIFtS: 31
GCID: GC01P148741

Neuroblastoma Breakpoint Family, Member 16

  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
Neuroblastoma Breakpoint Family, Member 161 2
AG32
Neuroblastoma Breakpoint Family Member 162

External Ids:    HGNC: 319961   Entrez Gene: 7289362   Ensembl: ENSG000002038277   OMIM: 6140055   UniProtKB: Q5SXJ23   

Export aliases for NBPF16 gene to outside databases

Previous GC identifers: GC01U901192 GC01P147006 GC01P146828


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

GeneCards Summary for NBPF16 Gene: 
NBPF16 (neuroblastoma breakpoint family, member 16) is a protein-coding gene. Diseases associated with NBPF16 include neuroblastoma. An important paralog of this gene is NBPF6.

Gene Wiki entry for NBPF16 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NBPF16 gene promoter:
         AhR   C/EBPbeta   AML1a   GCNF   C/EBPalpha   GATA-1   GCNF-1   c-Myb   GCNF-2   Ik-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for NBPF16

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NBPF16


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

Entrez Gene cytogenetic band: 1q21.2   Ensembl cytogenetic band:  1q21.2   HGNC cytogenetic band: 1q21.1

NBPF16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NBPF16 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P148741:  view genomic region     (about GC identifiers)

Start:
148,739,442 bp from pter      End:
148,758,311 bp from pter
Size:
18,870 bases      Orientation:
plus 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: NBPFG_HUMAN, Q5SXJ2 (See protein sequence)
Recommended Name: Neuroblastoma breakpoint family member 16  
Size: 670 amino acids; 77590 Da
Subcellular location: Cytoplasm (Probable)
Miscellaneous: Encoded by one of the numerous copies of NBPF genes clustered in the p36, p12 and q21 region of the
chromosome 1
Secondary accessions: A8MPT6

Explore the universe of human proteins at neXtProt for NBPF16: NX_Q5SXJ2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q5SXJ2

  • NBPF16 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --
    REFSEQ proteins: NP_001096133.1  
    ENSEMBL proteins: 
     ENSP00000395369  

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IEA--

    NBPF16 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    NBPF: neuroblastoma breakpoint family

    1 InterPro protein domain:
     IPR010630 NBPF_dom

    Graphical View of Domain Structure for InterPro Entry Q5SXJ2

    ProtoNet protein and cluster: Q5SXJ2

    UniProtKB/Swiss-Prot: NBPFG_HUMAN, Q5SXJ2
    Similarity: Belongs to the NBPF family
    Similarity: Contains 6 NBPF domains


    NBPF16 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

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    (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 NBPF16

    (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 NBPF16 (NBPFG)

    Search CenterWatch for drugs/clinical trials and news about NBPF16 / NBPFG

    (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,
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    About This Section

    REFSEQ mRNAs for NBPF16 gene: 
    NM_001102663.1  

    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000417839(uc010pba.1 uc009wkt.1)
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    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

    NBPF16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    NBPF16 Expression
    About this image


    Genevestigator expression for NBPF16
        SABiosciences Custom PCR Arrays for NBPF16
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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)
    About This Section

    This gene was present in the common ancestor of mammals.

    Orthologs for NBPF16 gene from 1/3 species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia --
    --
    36(a)
    possible ortholog
    17(57512543-57515264)


    ENSEMBL Gene Tree for NBPF16 (if available)
    TreeFam Gene Tree for NBPF16 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NBPF16 gene
    NBPF151 2  NBPF91 2  NBPF121 2  NBPF11 2  NBPF141 2  NBPF241 2  NBPF111 2  NBPF101 2  
    NBPF62  NBPF32  NBPF202  NBPF82  NBPF42  
    18/19 SIMAP similar genes for NBPF16 using alignment to 1 protein entry:     NBPFG_HUMAN(see all similar genes):
    NBPF15    NBPF21    NBPF8    NBPF8P    NBPF14    AL592307.2
    NBPF1    NBPF20    NBPF24    NBPF12    NBPF10    NBPF11
    LOC101059961    NBPF9    NBPF7    NBPF5P    NBPF3    NBPF4

    NBPF16 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

    10/162 SNPs in NBPF16 are shown (see all 162)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1839380631,2
    --148739430(+) TCTGTA/TTTGCA 1 -- us2k10--------
    rs2000675281,2
    F--148741709(+) AAAGAT/CCTCAT 2 /D syn11Minor allele frequency- C:0.03EU 117
    rs1876444171,2
    C--148741823(+) AGGGGG/TCAGGT 1 -- int10--------
    rs2007428881,2
    C--148742501(+) CCTTTA/CAACAT 1 -- int10--------
    rs2000453751,2
    C--148742525(+) GCTTCA/GAGGTC 1 -- int10--------
    rs2006904961,2
    C--148742554(+) CAGAAA/GTCTCT 1 -- int10--------
    rs2016194131,2
    F--148744568(+) ACTCAA/GCTCTC 2 T A mis11Minor allele frequency- G:0.18EU 113
    rs1927836551,2
    --148744651(+) GTCTCA/GTACCT 1 -- int10--------
    rs2013347341,2
    --148745214(+) CGTGG-/ATT   
      TTTTTT
    TTTTT
    1 -- int10--------
    rs1842254071,2
    --148748242(+) TATATA/CTGTAT 1 -- int10--------

    HapMap Linkage Disequilibrium report for NBPF16 (148739442 - 148758311 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/27 variations for NBPF16 (see all 27):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2717607CNV Deletion23290073
    nsv469683CNV Loss16826518
    dgv7e55CNV Loss17911159
    nsv508604CNV Loss20534489
    nsv872293CNV Loss21882294
    nsv428235CNV Gain18775914
    esv27789CNV Gain19812545
    nsv8247CNV Gain18304495
    esv2750807CNV Gain17911159
    esv22150CNV Gain19812545

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    (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: 614005    OMIM disorders: --

    2 diseases for NBPF16:    About MalaCards
    neuroblastoma    


    NBPF16 for disorders           About GeneDecksing


    Export disorders for NBPF16 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 NBPF16 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with NBPF16)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
    2. A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution. (PubMed id 16079250)1, 3 Vandepoele K.... van Roy F. (2005)
    3. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    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. Human ORFeome version 1.1: a platform for reverse proteomics. (PubMed id 15489335)1 Rual J.F....Vidal M. (2004)

    (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: 728936 HGNC: 31996 Ensembl:ENSG00000203827 euGenes: HUgn728936 ECgene: NBPF16
    H-InvDB: NBPF16

    (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 NBPF16 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 NBPF16 gene:
    Search GeneIP for patents involving NBPF16

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NBPF16
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     Browse SwitchGear Promoter luciferase reporter plasmids for NBPF16
     Search ThermoFisher Antibodies for NBPF16
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat NBPF16
     inGenious Targeting Laboratory - Custom generated mouse model solutions for NBPF16
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for NBPF16
    Customized:
     lentivirus for stable overexpression of NBPF16
     lentivirus expression plasmids for stable overexpression of NBPF16
     adenovirus for overexpression of NBPF16
     Search LSBio for Antibodies for NBPF16
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    transforming growth factor, beta 1
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