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Aliases for NBPF3 Gene

Aliases for NBPF3 Gene

  • Neuroblastoma Breakpoint Family Member 3 2 3 5
  • Neuroblastoma Breakpoint Family, Member 3 2 3
  • Protein SHIIIa4 3 4
  • Protein AE2 4
  • AE2 3

External Ids for NBPF3 Gene

Previous GeneCards Identifiers for NBPF3 Gene

  • GC01P021512
  • GC01P021639
  • GC01P021766
  • GC01P020010

Summaries for NBPF3 Gene

Entrez Gene Summary for NBPF3 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. DUF1220 copy number variations in 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, mental retardation, 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, Feb 2013]

GeneCards Summary for NBPF3 Gene

NBPF3 (Neuroblastoma Breakpoint Family Member 3) is a Protein Coding gene. Diseases associated with NBPF3 include Neuroblastoma. An important paralog of this gene is NBPF14.

Gene Wiki entry for NBPF3 Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NBPF3 Gene

Genomics for NBPF3 Gene

Regulatory Elements for NBPF3 Gene

Enhancers for NBPF3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around NBPF3 on UCSC Golden Path with GeneCards custom track

Genomic Location for NBPF3 Gene

21,435,318 bp from pter
21,485,005 bp from pter
49,688 bases
Plus strand

Genomic View for NBPF3 Gene

Genes around NBPF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NBPF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NBPF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NBPF3 Gene

Proteins for NBPF3 Gene

  • Protein details for NBPF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuroblastoma breakpoint family member 3
    Protein Accession:
    Secondary Accessions:
    • A8K965
    • B4DSP2
    • I3L0I8
    • Q3BBW1
    • Q5VTG2
    • Q5VTG3
    • Q5VTG4
    • Q8IX78
    • Q8ND86
    • Q8TC96

    Protein attributes for NBPF3 Gene

    633 amino acids
    Molecular mass:
    72951 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.
    • Sequence=AAH24011.1; Type=Frameshift; Positions=252; Evidence={ECO:0000305}; Sequence=CAH72077.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAH72078.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for NBPF3 Gene


neXtProt entry for NBPF3 Gene

Proteomics data for NBPF3 Gene at MOPED

Post-translational modifications for NBPF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for NBPF3 Gene

Domains & Families for NBPF3 Gene

Gene Families for NBPF3 Gene

Protein Domains for NBPF3 Gene


Suggested Antigen Peptide Sequences for NBPF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 5 NBPF domains.
  • Belongs to the NBPF family.
  • Contains 5 NBPF domains.
  • Belongs to the NBPF family.
genes like me logo Genes that share domains with NBPF3: view

Function for NBPF3 Gene

genes like me logo Genes that share phenotypes with NBPF3: view

Animal Model Products

CRISPR 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 NBPF3 Gene

Localization for NBPF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NBPF3 Gene


Subcellular locations from

Jensen Localization Image for NBPF3 Gene COMPARTMENTS Subcellular localization image for NBPF3 gene
Compartment Confidence
cytosol 2
nucleus 2
extracellular 1

No data available for Gene Ontology (GO) - Cellular Components for NBPF3 Gene

Pathways & Interactions for NBPF3 Gene

SuperPathways for NBPF3 Gene

No Data Available

Interacting Proteins for NBPF3 Gene

Gene Ontology (GO) - Biological Process for NBPF3 Gene


No data available for Pathways by source and SIGNOR curated interactions for NBPF3 Gene

Drugs & Compounds for NBPF3 Gene

No Compound Related Data Available

Transcripts for NBPF3 Gene

Unigene Clusters for NBPF3 Gene

Neuroblastoma breakpoint family, member 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NBPF3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b ^
SP1: - - - - -
SP2: - -
SP4: - -
SP5: - -
SP6: - - - - - - - - - - -
SP7: - - - - - - - - - - - - - -
SP8: - - - - - -
SP9: - - - - - - - - -
SP10: - - - - - - - - - - -
SP11: - -
SP14: - - - - - - - - -

ExUns: 12 ^ 13a · 13b · 13c ^ 14 ^ 15

Relevant External Links for NBPF3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NBPF3 Gene

mRNA expression in normal human tissues for NBPF3 Gene

Protein differential expression in normal tissues from HIPED for NBPF3 Gene

This gene is overexpressed in Adipocyte (45.0), Breast (16.7), and Urine (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for NBPF3 Gene

SOURCE GeneReport for Unigene cluster for NBPF3 Gene Hs.325422

mRNA Expression by UniProt/SwissProt for NBPF3 Gene

Tissue specificity: Expressed in testis and fetal heart, as well as in non small cell lung carcinoma and neuroblastoma cell line.
genes like me logo Genes that share expression patterns with NBPF3: view

Protein tissue co-expression partners for NBPF3 Gene

- Elite partner

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for NBPF3 Gene

Orthologs for NBPF3 Gene

This gene was present in the common ancestor of mammals.

Orthologs for NBPF3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NBPF3 35
  • 98.63 (n)
  • 96.68 (a)
NBPF3 36
  • 97 (a)
(Bos Taurus)
Mammalia -- 36
  • 28 (a)
-- 36
  • 30 (a)
(Canis familiaris)
Mammalia -- 36
  • 33 (a)
Species with no ortholog for NBPF3:
  • 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 NBPF3 Gene

Gene Tree for NBPF3 (if available)
Gene Tree for NBPF3 (if available)

Paralogs for NBPF3 Gene

(17) SIMAP similar genes for NBPF3 Gene using alignment to 1 proteins: Pseudogenes for NBPF3 Gene

genes like me logo Genes that share paralogs with NBPF3: view

Variants for NBPF3 Gene

Sequence variations from dbSNP and Humsavar for NBPF3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1827293 - 21,468,895(-) TACCG(C/T)AATTA intron-variant, nc-transcript-variant, reference, missense
rs12034222 - 21,480,217(+) TTGAC(G/T)TGGAC nc-transcript-variant, reference, missense
rs12043777 - 21,480,174(+) AGTGA(C/G)TTTTA nc-transcript-variant, reference, missense
rs16825377 - 21,471,715(+) GGGAC(A/C/G)GGACC nc-transcript-variant, reference, missense
rs369622 -- 21,466,667(+) TCCTG(C/G)ACAAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NBPF3 Gene

Variant ID Type Subtype PubMed ID
nsv870456 CNV Gain 21882294
esv34155 CNV Loss 18971310
esv26055 CNV Gain 19812545
nsv820559 CNV Duplication 20802225
dgv42e1 CNV Complex 17122850
nsv428432 CNV Gain 18775914
nsv9435 CNV Gain+Loss 18304495
esv7069 OTHER Inversion 19470904
esv2745042 CNV Deletion 23290073
esv989724 CNV Deletion 20482838
esv2456631 CNV Deletion 19546169
esv1311289 CNV Deletion 17803354
esv2745053 CNV Deletion 23290073
esv2195718 CNV Deletion 18987734
esv2745064 CNV Deletion 23290073
esv1213372 CNV Deletion 17803354
nsv160214 CNV Loss 16902084
esv2661318 CNV Deletion 23128226

Variation tolerance for NBPF3 Gene

Residual Variation Intolerance Score: 89.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.53; 82.35% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for NBPF3 Gene

Disorders for NBPF3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for NBPF3 Gene - From: GeneCards

Disorder Aliases PubMed IDs
  • neuroblastoma 1
- elite association - COSMIC cancer census association via MalaCards
Search NBPF3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for NBPF3

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with NBPF3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NBPF3 Gene

Publications for NBPF3 Gene

  1. A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution. (PMID: 16079250) Vandepoele K. … van Roy F. (Mol. Biol. Evol. 2005) 2 3 4 67
  2. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S. … Poustka A. (Genome Res. 2001) 2 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Genetic Associations with Plasma B12, B6, and Folate Levels in an Ischemic Stroke Population from the Vitamin Intervention for Stroke Prevention (VISP) Trial. (PMID: 25147783) Keene K.L. … Sale M.M. (Front Public Health 2014) 3
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3

Products for NBPF3 Gene

Sources for NBPF3 Gene