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Aliases for NBPF1 Gene

Aliases for NBPF1 Gene

  • NBPF Member 1 2 3 5
  • Neuroblastoma Breakpoint Family, Member 1 2
  • Neuroblastoma Breakpoint Family Member 1 3
  • KIAA1693 4
  • AB13 3
  • AB14 3
  • AB23 3
  • NBPF 3
  • AD2 3
  • NBG 3

External Ids for NBPF1 Gene

Previous GeneCards Identifiers for NBPF1 Gene

  • GC01M016666
  • GC01M016764
  • GC01M016888
  • GC01M015383

Summaries for NBPF1 Gene

Entrez Gene Summary for NBPF1 Gene

  • This gene is a member of the neuroblastoma breakpoint family (NBPF) which consists of dozens of recently duplicated genes primarily located in segmental duplications on human chromosome 1. This gene family has experienced its greatest expansion within the human lineage and has expanded, to a lesser extent, among primates in general. Members of this gene family are characterized by tandemly repeated copies of DUF1220 protein domains. Gene copy number variations in the human chromosomal region 1q21.1, where most DUF1220 domains are located, have been implicated in a number of developmental and neurogenetic diseases such as microcephaly, macrocephaly, autism, schizophrenia, cognitive disability, congenital heart disease, neuroblastoma, and congenital kidney and urinary tract anomalies. Altered expression of some gene family members is associated with several types of cancer. This gene family contains numerous pseudogenes. [provided by RefSeq, Apr 2013]

GeneCards Summary for NBPF1 Gene

NBPF1 (NBPF Member 1) is a Protein Coding gene. Diseases associated with NBPF1 include Neuroblastoma. An important paralog of this gene is NBPF12.

Additional gene information for NBPF1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NBPF1 Gene

Genomics for NBPF1 Gene

GeneHancer (GH) Regulatory Elements for NBPF1 Gene

Promoters and enhancers for NBPF1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01I016611 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 550.8 +0.9 857 3.2 HDGF PKNOX1 CLOCK SMAD1 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 NBPF1 CROCCP3 CROCC LINC01772 PIR60289
GH01I016614 Enhancer 0.8 ENCODE dbSUPER 550.8 -1.2 -1196 0.2 GTF2F1 HNRNPUL1 SREBF2 YBX1 E4F1 ZKSCAN1 GATA3 ATF3 GATA2 NBPF1 RPS16P1 SPEN RPL22P3 SZRD1 ENSG00000237938 ENSG00000226526 MFAP2 FBXO42 ZBTB17
GH01I016615 Enhancer 0.8 ENCODE dbSUPER 550.8 -0.9 -946 0.2 GTF2F1 HNRNPUL1 SREBF2 TEAD4 GATAD2B DPF2 YBX1 EP300 E4F1 ZKSCAN1 NBPF1 RPS16P1 SPEN RPL22P3 SZRD1 ENSG00000237938 ENSG00000226526 MFAP2 FBXO42 ZBTB17
GH01I016902 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE dbSUPER 27.2 -291.4 -291445 4.9 ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC ENSG00000272426 CROCC ZBTB17 CROCCP3 LINC01772 RPL22P3 ARHGEF19 MFAP2 NBPF1 NECAP2
GH01I015615 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 19.8 +995.2 995242 5.4 HDGF PKNOX1 CLOCK FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 DDI2 CROCCP3 NBPF1 LINC01772 PLEKHM2 ZBTB17 AGMAT SLC25A34 ENSG00000237938 EFHD2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NBPF1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NBPF1 gene promoter:

Genomic Locations for NBPF1 Gene

Genomic Locations for NBPF1 Gene
51,287 bases
Minus strand

Genomic View for NBPF1 Gene

Genes around NBPF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NBPF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NBPF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NBPF1 Gene

Proteins for NBPF1 Gene

  • Protein details for NBPF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuroblastoma breakpoint family member 1
    Protein Accession:
    Secondary Accessions:
    • Q8N4E8
    • Q9C0H0

    Protein attributes for NBPF1 Gene

    1214 amino acids
    Molecular mass:
    139343 Da
    Quaternary structure:
    No Data Available
    • Encoded by one of the numerous copies of NBPF genes clustered in the p36, p12 and q21 region of the chromosome 1.

neXtProt entry for NBPF1 Gene

Post-translational modifications for NBPF1 Gene

No Post-translational modifications

Other Protein References for NBPF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NBPF1 Gene

Domains & Families for NBPF1 Gene

Gene Families for NBPF1 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins

Protein Domains for NBPF1 Gene


Suggested Antigen Peptide Sequences for NBPF1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the NBPF family.
  • Belongs to the NBPF family.
genes like me logo Genes that share domains with NBPF1: view

Function for NBPF1 Gene

Phenotypes From GWAS Catalog for NBPF1 Gene

Phenotypes for NBPF1 Gene

genes like me logo Genes that share phenotypes with NBPF1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NBPF1 Gene

Localization for NBPF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NBPF1 Gene


Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NBPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with NBPF1: view

No data available for Subcellular locations from COMPARTMENTS for NBPF1 Gene

Pathways & Interactions for NBPF1 Gene

SuperPathways for NBPF1 Gene

No Data Available

Interacting Proteins for NBPF1 Gene

Selected Interacting proteins: Q3BBV0-NBPF1_HUMAN for NBPF1 Gene via IID

Symbol External ID(s) Details

Gene Ontology (GO) - Biological Process for NBPF1 Gene


No data available for Pathways by source and SIGNOR curated interactions for NBPF1 Gene

Drugs & Compounds for NBPF1 Gene

No Compound Related Data Available

Transcripts for NBPF1 Gene

Unigene Clusters for NBPF1 Gene

Neuroblastoma breakpoint family, member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for NBPF1 Gene

No ASD Table

Relevant External Links for NBPF1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NBPF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NBPF1 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for NBPF1 Gene

NURSA nuclear receptor signaling pathways regulating expression of NBPF1 Gene:


SOURCE GeneReport for Unigene cluster for NBPF1 Gene:


mRNA Expression by UniProt/SwissProt for NBPF1 Gene:

Tissue specificity: Widely expressed. The only tissue which shows a weak expression is kidney.
genes like me logo Genes that share expression patterns with NBPF1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for NBPF1 Gene

Orthologs for NBPF1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for NBPF1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia -- 34
  • 99 (a)
-- 34
  • 99 (a)
-- 34
  • 99 (a)
-- 34
  • 99 (a)
LOC458021 33
  • 90.11 (n)
-- 34
  • 83 (a)
-- 34
  • 81 (a)
-- 34
  • 79 (a)
(Canis familiaris)
Mammalia -- 34
  • 35 (a)
(Bos Taurus)
Mammalia -- 34
  • 31 (a)
-- 34
  • 28 (a)
Species where no ortholog for NBPF1 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for NBPF1 Gene

Gene Tree for NBPF1 (if available)
Gene Tree for NBPF1 (if available)

Paralogs for NBPF1 Gene Pseudogenes for NBPF1 Gene

genes like me logo Genes that share paralogs with NBPF1: view

Variants for NBPF1 Gene

Sequence variations from dbSNP and Humsavar for NBPF1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1001170094 -- 16,609,781(-) A/G intron_variant
rs1001262061 -- 16,610,510(-) T/C intron_variant
rs1001894014 -- 16,582,922(-) G/A intron_variant
rs1002800308 -- 16,562,010(-) T/G downstream_transcript_variant
rs1003165900 -- 16,598,523(-) T/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NBPF1 Gene

Variant ID Type Subtype PubMed ID
dgv10e201 CNV deletion 23290073
dgv1e203 CNV gain+loss 21179565
dgv1n16 CNV deletion 17901297
dgv1n68 CNV loss 17160897
dgv20n67 CNV gain 20364138
dgv21e199 CNV deletion 23128226
dgv39n100 CNV gain 25217958
dgv40n100 CNV gain 25217958
dgv41n100 CNV gain 25217958
dgv42n100 CNV loss 25217958
dgv43n100 CNV loss 25217958
dgv44n100 CNV gain+loss 25217958
dgv45n100 CNV gain 25217958
dgv46n100 CNV gain 25217958
dgv47n100 CNV gain+loss 25217958
dgv48n100 CNV gain+loss 25217958
dgv49e59 CNV duplication 20981092
dgv49n100 CNV loss 25217958
dgv49n106 CNV duplication 24896259
dgv50n100 CNV gain 25217958
dgv51n100 CNV loss 25217958
dgv52n100 CNV gain+loss 25217958
dgv53n100 CNV loss 25217958
dgv54n100 CNV gain 25217958
dgv55n100 CNV gain+loss 25217958
dgv56n100 CNV loss 25217958
dgv57n100 CNV loss 25217958
dgv58n100 CNV gain+loss 25217958
dgv59n100 CNV gain 25217958
dgv60n100 CNV loss 25217958
dgv61n100 CNV gain+loss 25217958
dgv62n100 CNV gain 25217958
dgv63n100 CNV gain 25217958
dgv64n100 CNV loss 25217958
dgv65n100 CNV gain 25217958
dgv66n100 CNV gain 25217958
dgv67n100 CNV gain+loss 25217958
dgv68n100 CNV gain 25217958
esv2597795 CNV gain 19546169
esv2678817 CNV deletion 23128226
esv2744463 CNV deletion 23290073
esv2750816 CNV gain 17911159
esv2758925 CNV gain+loss 17122850
esv29642 CNV gain+loss 19812545
esv33046 CNV loss 17666407
esv3419518 CNV insertion 20981092
esv3429389 CNV duplication 20981092
esv3444386 CNV duplication 20981092
esv34697 CNV gain 17911159
esv3549677 CNV deletion 23714750
esv3577752 CNV loss 25503493
nsv1001952 CNV gain+loss 25217958
nsv1003019 CNV loss 25217958
nsv1004807 CNV gain+loss 25217958
nsv1008129 CNV gain+loss 25217958
nsv1077283 CNV duplication 25765185
nsv1113083 CNV deletion 24896259
nsv1116446 OTHER inversion 24896259
nsv1145322 CNV deletion 24896259
nsv1152149 CNV duplication 26484159
nsv1161242 CNV duplication 26073780
nsv1161246 CNV duplication 26073780
nsv159149 CNV deletion 16902084
nsv160674 CNV deletion 16902084
nsv221 CNV insertion 15895083
nsv3632 CNV insertion 18451855
nsv3743 CNV deletion 18451855
nsv428421 CNV gain+loss 18775914
nsv435932 CNV insertion 17901297
nsv436039 CNV insertion 17901297
nsv436814 CNV insertion 17901297
nsv469795 CNV gain+loss 16826518
nsv471343 CNV gain 19718026
nsv471344 CNV gain 19718026
nsv471655 CNV gain+loss 15918152
nsv482190 CNV gain 20164927
nsv499577 OTHER inversion 21111241
nsv514916 CNV gain 21397061
nsv545643 CNV loss 21841781
nsv7173 OTHER inversion 18451855
nsv821511 CNV duplication 20802225
nsv829625 CNV gain 20364138
nsv834203 CNV loss 17160897
nsv834247 CNV gain+loss 17160897
nsv9324 CNV gain+loss 18304495
nsv945569 CNV duplication 23825009
nsv945570 CNV duplication 23825009
nsv945571 CNV duplication 23825009
nsv945572 CNV duplication 23825009
nsv945793 CNV duplication 23825009
nsv954847 CNV duplication 24416366
nsv954848 CNV duplication 24416366
nsv957837 CNV deletion 24416366
nsv998073 CNV gain+loss 25217958
nsv999755 CNV gain 25217958

Variation tolerance for NBPF1 Gene

Gene Damage Index Score: 22.83; 99.48% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NBPF1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NBPF1 Gene

Disorders for NBPF1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for NBPF1 Gene - From: HGMD and GeneCards

Disorder Aliases PubMed IDs
  • neuroblastoma, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search NBPF1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NBPF1

genes like me logo Genes that share disorders with NBPF1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NBPF1 Gene

Publications for NBPF1 Gene

  1. A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution. (PMID: 16079250) Vandepoele K … van Roy F (Molecular biology and evolution 2005) 2 3 4 58
  2. Prediction of the coding sequences of unidentified human genes. XIX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 11214970) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. Tumor-Suppressor Gene NBPF1 Inhibits Invasion and PI3K/mTOR Signaling in Cervical Cancer Cells. (PMID: 26802646) Qin Y … Liu M (Oncology research 2016) 3 58
  5. NBPF1, a tumor suppressor candidate in neuroblastoma, exerts growth inhibitory effects by inducing a G1 cell cycle arrest. (PMID: 25958384) Andries V … van Roy F (BMC cancer 2015) 3 58

Products for NBPF1 Gene

Sources for NBPF1 Gene

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