Free for academic non-profit institutions. Other users need a Commercial license

Aliases for CHRFAM7A Gene

Aliases for CHRFAM7A Gene

  • CHRNA7 (Exons 5-10) And FAM7A (Exons A-E) Fusion 2 3
  • CHRNA7 (Cholinergic Receptor, Nicotinic, Alpha 7, Exons 5-10) And FAM7A (Family With Sequence Similarity 7A, Exons A-E) Fusion 2 3 5
  • CHRNA7-DR1 3 4
  • D-10 3 4
  • CHRNA7 (Cholinergic Receptor, Nicotinic, Alpha Polypeptide 7, Exons 5-10) And FAM7A (Family With Sequence Similarity 7A, Exons A-E) Fusion 3
  • Alpha 7 Neuronal Nicotinic Acetylcholine Receptor-FAM7A Hybrid 3
  • Alpha-7 Nicotinic Cholinergic Receptor Subunit 3
  • CHRNA7 3

External Ids for CHRFAM7A Gene

Previous GeneCards Identifiers for CHRFAM7A Gene

  • GC15M025924
  • GC15M023461
  • GC15M028233
  • GC15M028369
  • GC15M028440
  • GC15M030653

Summaries for CHRFAM7A Gene

Entrez Gene Summary for CHRFAM7A Gene

  • The nicotinic acetylcholine receptors (nAChRs) are members of a superfamily of ligand-gated ion channels that mediate fast signal transmission at synapses. The family member CHRNA7, which is located on chromosome 15 in a region associated with several neuropsychiatric disorders, is partially duplicated and forms a hybrid with a novel gene from the family with sequence similarity 7 (FAM7A). Alternative splicing has been observed, and two variants exist, for this hybrid gene. The N-terminally truncated products predicted by the largest open reading frames for each variant would lack the majority of the neurotransmitter-gated ion-channel ligand binding domain but retain the transmembrane region that forms the ion channel. Although current evidence supports transcription of this hybrid gene, translation of the nicotinic acetylcholine receptor-like protein-encoding open reading frames has not been confirmed. [provided by RefSeq, Jul 2008]

GeneCards Summary for CHRFAM7A Gene

CHRFAM7A (CHRNA7 (Exons 5-10) And FAM7A (Exons A-E) Fusion) is a Protein Coding gene. Diseases associated with CHRFAM7A include Chromosome 15Q13.3 Microdeletion Syndrome and Intermittent Explosive Disorder. Among its related pathways are SIDS Susceptibility Pathways. GO annotations related to this gene include extracellular ligand-gated ion channel activity. An important paralog of this gene is HTR3A.

Gene Wiki entry for CHRFAM7A Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHRFAM7A Gene

Genomics for CHRFAM7A Gene

Regulatory Elements for CHRFAM7A Gene

Enhancers for CHRFAM7A 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 CHRFAM7A on UCSC Golden Path with GeneCards custom track

Promoters for CHRFAM7A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CHRFAM7A on UCSC Golden Path with GeneCards custom track

Genomic Location for CHRFAM7A Gene

30,357,766 bp from pter
30,393,849 bp from pter
36,084 bases
Minus strand

Genomic View for CHRFAM7A Gene

Genes around CHRFAM7A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHRFAM7A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHRFAM7A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHRFAM7A Gene

Proteins for CHRFAM7A Gene

  • Protein details for CHRFAM7A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    CHRNA7-FAM7A fusion protein
    Protein Accession:
    Secondary Accessions:
    • A8KAB9

    Protein attributes for CHRFAM7A Gene

    412 amino acids
    Molecular mass:
    46218 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CHRFAM7A Gene

Proteomics data for CHRFAM7A Gene at MOPED

Post-translational modifications for CHRFAM7A Gene

No Post-translational modifications

Other Protein References for CHRFAM7A Gene

No data available for DME Specific Peptides for CHRFAM7A Gene

Domains & Families for CHRFAM7A Gene

Suggested Antigen Peptide Sequences for CHRFAM7A Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the ligand-gated ion channel (TC 1.A.9) family.
  • Belongs to the ligand-gated ion channel (TC 1.A.9) family.
genes like me logo Genes that share domains with CHRFAM7A: view

No data available for Gene Families for CHRFAM7A Gene

Function for CHRFAM7A Gene

genes like me logo Genes that share phenotypes with CHRFAM7A: 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 CHRFAM7A Gene

Localization for CHRFAM7A Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHRFAM7A Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

Jensen Localization Image for CHRFAM7A Gene COMPARTMENTS Subcellular localization image for CHRFAM7A gene
Compartment Confidence
plasma membrane 4

No data available for Gene Ontology (GO) - Cellular Components for CHRFAM7A Gene

Pathways & Interactions for CHRFAM7A Gene

SuperPathways for CHRFAM7A Gene

genes like me logo Genes that share pathways with CHRFAM7A: view

Pathways by source for CHRFAM7A Gene

1 BioSystems pathway for CHRFAM7A Gene

Interacting Proteins for CHRFAM7A Gene

Gene Ontology (GO) - Biological Process for CHRFAM7A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0034766 negative regulation of ion transmembrane transport IDA --
genes like me logo Genes that share ontologies with CHRFAM7A: view

No data available for SIGNOR curated interactions for CHRFAM7A Gene

Drugs & Compounds for CHRFAM7A Gene

(9) Drugs for CHRFAM7A Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Memantine Approved, Investigational Pharma Channel blocker, Target, antagonist 173
Succinylcholine Approved Pharma Full agonist, Agonist, Target, agonist 147
Tramadol Approved, Investigational Pharma Target, antagonist 220
(2E)-1-[(6-chloropyridin-3-yl)methyl]-N-nitroimidazolidin-2-imine Experimental Pharma Target 0
(3-EXO)-3-(10,11-DIHYDRO-5H-DIBENZO[A,D][7]ANNULEN-5-YLOXY)-8,8-DIMETHYL-8-AZONIABICYCLO[3.2.1]OCTANE Experimental Pharma Target 0
genes like me logo Genes that share compounds with CHRFAM7A: view

Transcripts for CHRFAM7A Gene

Unigene Clusters for CHRFAM7A Gene

CHRNA7 (cholinergic receptor, nicotinic, alpha 7, exons 5-10) and FAM7A (family with sequence similarity 7A, exons A-E) fusion:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CHRFAM7A Gene

No ASD Table

Relevant External Links for CHRFAM7A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CHRFAM7A Gene

mRNA expression in normal human tissues for CHRFAM7A Gene

mRNA differential expression in normal tissues according to GTEx for CHRFAM7A Gene

This gene is overexpressed in Testis (x4.1).

SOURCE GeneReport for Unigene cluster for CHRFAM7A Gene Hs.510853

mRNA Expression by UniProt/SwissProt for CHRFAM7A Gene

Tissue specificity: Expressed in hippocampus.
genes like me logo Genes that share expression patterns with CHRFAM7A: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for CHRFAM7A Gene

Orthologs for CHRFAM7A Gene

This gene was present in the common ancestor of animals.

Orthologs for CHRFAM7A Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CHRNA7 36
  • 95 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 71 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 88 (a)
(Pan troglodytes)
Mammalia CHRFAM7A 36
  • 91 (a)
(Gallus gallus)
Aves CHRNA7 36
  • 72 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 74 (a)
(Danio rerio)
Actinopterygii CABZ01069081.1 36
  • 74 (a)
CABZ01088685.1 36
  • 68 (a)
chrna7 36
  • 60 (a)
fruit fly
(Drosophila melanogaster)
Insecta gfA 36
  • 34 (a)
nAcRalpha-30D 36
  • 35 (a)
nAcRalpha-34E 36
  • 23 (a)
(Caenorhabditis elegans)
Secernentea acr-10 36
  • 24 (a)
acr-11 36
  • 30 (a)
acr-14 36
  • 26 (a)
acr-15 36
  • 27 (a)
acr-16 36
  • 34 (a)
acr-19 36
  • 31 (a)
acr-25 36
  • 25 (a)
acr-7 36
  • 26 (a)
acr-9 36
  • 27 (a)
eat-2 36
  • 27 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 24 (a)
Species with no ortholog for CHRFAM7A:
  • 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)
  • dog (Canis familiaris)
  • 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)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for CHRFAM7A Gene

Gene Tree for CHRFAM7A (if available)
Gene Tree for CHRFAM7A (if available)

Paralogs for CHRFAM7A Gene

Paralogs for CHRFAM7A Gene

(13) SIMAP similar genes for CHRFAM7A Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CHRFAM7A: view

Variants for CHRFAM7A Gene

Sequence variations from dbSNP and Humsavar for CHRFAM7A Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs378335 -- 30,377,333(-) AGTTC(G/T)GTGTG intron-variant
rs897382 -- 30,376,137(+) tgtgt(C/G)aggtg intron-variant
rs62016478 -- 30,373,557(+) GGTGC(A/G)GGGTG intron-variant
rs62016479 -- 30,374,938(+) CAGGC(A/G)GCCCT intron-variant
rs62016480 -- 30,376,906(+) GAAGA(A/G)GTGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHRFAM7A Gene

Variant ID Type Subtype PubMed ID
esv2751526 CNV Loss 17911159
dgv716e1 CNV Complex 17122850
nsv428300 CNV Loss 18775914
dgv717e1 CNV Complex 17122850
nsv518720 CNV Gain 19592680
nsv903757 CNV Gain 21882294
nsv9232 CNV Gain+Loss 18304495
nsv903759 CNV Gain 21882294
nsv821679 CNV Gain 15273396
dgv2293n71 CNV Loss 21882294
esv26291 CNV Gain+Loss 19812545
dgv2296n71 CNV Loss 21882294
dgv2297n71 CNV Loss 21882294
dgv2298n71 CNV Loss 21882294
dgv718e1 CNV Complex 17122850
esv2421738 CNV Duplication 20811451
dgv719e1 CNV Complex 17122850
nsv903791 CNV Loss 21882294
dgv2300n71 CNV Gain 21882294
nsv832948 CNV Gain+Loss 17160897
dgv2301n71 CNV Loss 21882294
nsv903799 CNV Loss 21882294
nsv903805 CNV Gain 21882294
nsv903806 CNV Loss 21882294
nsv442696 CNV CNV 18776908
nsv433291 CNV Loss 18776910
nsv469586 CNV Loss 16826518
dgv720e1 CNV Complex 17122850
nsv514775 CNV Complex 21397061
nsv482176 CNV Gain 20164927
esv2749523 CNV Deletion 23290073
esv997659 CNV Gain 20482838

Variation tolerance for CHRFAM7A Gene

Gene Damage Index Score: 10.95; 91.97% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CHRFAM7A Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHRFAM7A Gene

Disorders for CHRFAM7A Gene

MalaCards: The human disease database

(5) MalaCards diseases for CHRFAM7A Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
chromosome 15q13.3 microdeletion syndrome
  • 15q13.3 microdeletion syndrome
intermittent explosive disorder
  • explosive personality disorder
autosomal dominant nocturnal frontal lobe epilepsy
  • epilepsy, nocturnal frontal lobe, 1
attention deficit-hyperactivity disorder
  • attention deficit hyperactivity disorder
  • schizophrenia 12
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for CHRFAM7A

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CHRFAM7A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CHRFAM7A Gene

Publications for CHRFAM7A Gene

  1. A 2-base pair deletion polymorphism in the partial duplication of the alpha7 nicotinic acetylcholine gene (CHRFAM7A) on chromosome 15q14 is associated with schizophrenia. (PMID: 19631623) Sinkus M.L. … Leonard S. (Brain Res. 2009) 3 23 48 67
  2. Smoking in adult attention-deficit/hyperactivity disorder: interaction between 15q13 nicotinic genes and Temperament Character Inventory scores. (PMID: 19462340) Manchia M. … Kennedy J.L. (World J. Biol. Psychiatry 2010) 3 23
  3. CHRFAM7A copy number and 2-bp deletion polymorphisms and antisaccade performance. (PMID: 19149910) Petrovsky N. … Ettinger U. (Int. J. Neuropsychopharmacol. 2009) 3 23
  4. Association study of CHRFAM7A copy number and 2 bp deletion polymorphisms with schizophrenia and bipolar affective disorder. (PMID: 16823804) Flomen R.H. … Makoff A.J. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2006) 3 23
  5. A 3-Mb map of a large segmental duplication overlapping the alpha7- nicotinic acetylcholine receptor gene (CHRNA7) at human 15q13-q14. (PMID: 11829490) Riley B. … Makoff A. (Genomics 2002) 2 3

Products for CHRFAM7A Gene

Sources for CHRFAM7A Gene