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Aliases for BNC2 Gene

Aliases for BNC2 Gene

  • Basonuclin 2 2 3 5
  • BSN2 3

External Ids for BNC2 Gene

Previous GeneCards Identifiers for BNC2 Gene

  • GC09U900603

Summaries for BNC2 Gene

GeneCards Summary for BNC2 Gene

BNC2 (Basonuclin 2) is a Protein Coding gene. An important paralog of this gene is BNC1.

UniProtKB/Swiss-Prot for BNC2 Gene

  • Probable transcription factor specific for skin keratinocytes. May play a role in the differentiation of spermatozoa and oocytes.

Gene Wiki entry for BNC2 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for BNC2 Gene

Genomics for BNC2 Gene

Regulatory Elements for BNC2 Gene

Enhancers for BNC2 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 BNC2 on UCSC Golden Path with GeneCards custom track

Promoters for BNC2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around BNC2 on UCSC Golden Path with GeneCards custom track

Genomic Location for BNC2 Gene

16,409,503 bp from pter
16,870,843 bp from pter
461,341 bases
Minus strand

Genomic View for BNC2 Gene

Genes around BNC2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BNC2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BNC2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BNC2 Gene

Proteins for BNC2 Gene

  • Protein details for BNC2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein basonuclin-2
    Protein Accession:
    Secondary Accessions:
    • B1APG9
    • Q6T3A3
    • Q8NAR2
    • Q9H6J0
    • Q9NXV0

    Protein attributes for BNC2 Gene

    1099 amino acids
    Molecular mass:
    122330 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAR99389.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAA90908.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB15269.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC03837.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for BNC2 Gene


neXtProt entry for BNC2 Gene

Proteomics data for BNC2 Gene at MOPED

Post-translational modifications for BNC2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for BNC2 Gene

Domains & Families for BNC2 Gene

Gene Families for BNC2 Gene

Protein Domains for BNC2 Gene


Graphical View of Domain Structure for InterPro Entry



  • Contains 4 C2H2-type zinc fingers.
  • Contains 4 C2H2-type zinc fingers.
genes like me logo Genes that share domains with BNC2: view

Function for BNC2 Gene

Molecular function for BNC2 Gene

UniProtKB/Swiss-Prot Function:
Probable transcription factor specific for skin keratinocytes. May play a role in the differentiation of spermatozoa and oocytes.
genes like me logo Genes that share phenotypes with BNC2: view

Animal Model Products

miRNA for BNC2 Gene

miRTarBase miRNAs that target BNC2

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for BNC2 Gene

Localization for BNC2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for BNC2 Gene

Subcellular locations from

Jensen Localization Image for BNC2 Gene COMPARTMENTS Subcellular localization image for BNC2 gene
Compartment Confidence
nucleus 5
plasma membrane 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for BNC2 Gene

Pathways & Interactions for BNC2 Gene

SuperPathways for BNC2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for BNC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0043586 tongue development IEA --
GO:0060021 palate development IEA --
GO:0060485 mesenchyme development IEA --
genes like me logo Genes that share ontologies with BNC2: view

No data available for Pathways by source and SIGNOR curated interactions for BNC2 Gene

Drugs & Compounds for BNC2 Gene

No Compound Related Data Available

Transcripts for BNC2 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for BNC2 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12
SP1: - - - - - -
SP2: -

Relevant External Links for BNC2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for BNC2 Gene

mRNA expression in normal human tissues for BNC2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for BNC2 Gene

This gene is overexpressed in Uterus (x5.6), Ovary (x5.6), and Fallopian Tube (x4.9).

Protein differential expression in normal tissues from HIPED for BNC2 Gene

This gene is overexpressed in Vitreous humor (65.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for BNC2 Gene

SOURCE GeneReport for Unigene cluster for BNC2 Gene Hs.656581

mRNA Expression by UniProt/SwissProt for BNC2 Gene

Tissue specificity: Highly expressed in testis, uterus and small intestine, and weakly expressed in colon and prostate. Also expressed in skin, primary keratinocytes, immortalized keratinocytes, and HeLa and HEK293 cells. Not detected in blood, thymus, spleen or Hep-G2 cells.
genes like me logo Genes that share expression patterns with BNC2: view

Protein tissue co-expression partners for BNC2 Gene

Primer Products

Orthologs for BNC2 Gene

This gene was present in the common ancestor of animals.

Orthologs for BNC2 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia BNC2 35
  • 91.96 (n)
  • 96.88 (a)
BNC2 36
  • 98 (a)
(Canis familiaris)
Mammalia BNC2 35
  • 94.29 (n)
  • 98.73 (a)
BNC2 36
  • 98 (a)
(Mus musculus)
Mammalia Bnc2 35
  • 90.91 (n)
  • 96.91 (a)
Bnc2 16
Bnc2 36
  • 97 (a)
(Pan troglodytes)
Mammalia BNC2 35
  • 99.82 (n)
  • 99.91 (a)
BNC2 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Bnc2 35
  • 90.99 (n)
  • 96.54 (a)
(Monodelphis domestica)
Mammalia BNC2 36
  • 92 (a)
(Ornithorhynchus anatinus)
Mammalia BNC2 36
  • 93 (a)
(Gallus gallus)
Aves BNC2 35
  • 83.41 (n)
  • 90.52 (a)
BNC2 36
  • 89 (a)
(Anolis carolinensis)
Reptilia BNC2 36
  • 62 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia bnc2 35
  • 76.94 (n)
  • 82.61 (a)
(Danio rerio)
Actinopterygii bnc2 36
  • 61 (a)
fruit fly
(Drosophila melanogaster)
Insecta disco 36
  • 25 (a)
disco-r 36
  • 13 (a)
(Caenorhabditis elegans)
Secernentea F55C5.11 36
  • 33 (a)
Species with no ortholog for BNC2:
  • 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)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)

Evolution for BNC2 Gene

Gene Tree for BNC2 (if available)
Gene Tree for BNC2 (if available)

Paralogs for BNC2 Gene

Paralogs for BNC2 Gene

genes like me logo Genes that share paralogs with BNC2: view

Variants for BNC2 Gene

Sequence variations from dbSNP and Humsavar for BNC2 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs3739714 - 16,435,850(-) ACCCC(A/G)CTTAC reference, missense
rs4961490 - 16,436,546(+) TTGCA(A/C)GACAG reference, missense
rs725011 -- 16,591,808(-) TTCTG(A/G)TTACC intron-variant
rs729330 -- 16,485,865(+) TCTCA(A/C)TCCCC intron-variant
rs755180 -- 16,474,004(-) TTATT(C/T)AGACA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for BNC2 Gene

Variant ID Type Subtype PubMed ID
nsv524954 CNV Loss 19592680
esv272810 CNV Insertion 20981092
esv267687 CNV Insertion 20981092
dgv262n6 CNV Loss 16902084
nsv892646 CNV Loss 21882294
nsv892647 CNV Gain 21882294
nsv466265 CNV Loss 19166990
esv2738238 CNV Deletion 23290073
nsv824866 CNV Loss 20364138
nsv528443 CNV Loss 19592680
nsv524264 CNV Gain 19592680
dgv2292e1 CNV Complex 17122850
nsv892648 CNV Gain 21882294
esv1725129 CNV Deletion 17803354
nsv892649 CNV Gain 21882294
esv269036 CNV Insertion 20981092
esv273823 CNV Insertion 20981092
nsv892650 CNV Gain 21882294
nsv510183 CNV Loss 20534489
esv1256705 CNV Insertion 17803354
nsv518608 CNV Loss 19592680
nsv892651 CNV Loss 21882294
nsv892652 CNV Gain 21882294
esv2738240 CNV Deletion 23290073
esv2738241 CNV Deletion 23290073
esv2675274 CNV Deletion 23128226
esv993349 CNV Deletion 20482838
esv1359645 CNV Insertion 17803354
esv1378850 CNV Deletion 17803354
nsv892653 CNV Loss 21882294

Variation tolerance for BNC2 Gene

Residual Variation Intolerance Score: 10.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.19; 61.92% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for BNC2 Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for BNC2 Gene

Disorders for BNC2 Gene

Relevant External Links for BNC2

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for BNC2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for BNC2 Gene

Publications for BNC2 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 2 3 4 67
  2. Chromosomal abnormalities and novel disease-related regions in progression from Barrett's esophagus to esophageal adenocarcinoma. (PMID: 19670330) Akagi T. … Koeffler H.P. (Int. J. Cancer 2009) 3 23
  3. The human basonuclin 2 gene has the potential to generate nearly 90,000 mRNA isoforms encoding over 2000 different proteins. (PMID: 16942855) Vanhoutteghem A. … Djian P. (Genomics 2007) 3 23
  4. Basonuclin 2: an extremely conserved homolog of the zinc finger protein basonuclin. (PMID: 14988505) Vanhoutteghem A. … Djian P. (Proc. Natl. Acad. Sci. U.S.A. 2004) 3 23
  5. A Genome-Wide Association Study Identifies the Skin Color Genes IRF4, MC1R, ASIP, and BNC2 Influencing Facial Pigmented Spots. (PMID: 25705849) Jacobs L.C. … Nijsten T. (J. Invest. Dermatol. 2015) 3

Products for BNC2 Gene

Sources for BNC2 Gene