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CALHM3 Gene

protein-coding   GIFtS: 43
GCID: GC10M105223

Calcium Homeostasis Modulator 3

(Previous names: family with sequence similarity 26, member A)
(Previous symbol: FAM26A)
Alzheimer's & Parkinson's Diseases Congress
  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)
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Aliases
Calcium Homeostasis Modulator 31 2
FAM26A1 2 3
Family With Sequence Similarity 26, Member A1 2
bA225H22.72
Calcium Homeostasis Modulator Protein 32
Protein FAM26A3

External Ids:    HGNC: 234581   Entrez Gene: 1193952   Ensembl: ENSG000001831287   UniProtKB: Q86XJ03   

Export aliases for CALHM3 gene to outside databases

Previous GC identifer: GC10M098863


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CALHM3 Gene:
CALHM3 (calcium homeostasis modulator 3) is a protein-coding gene. Diseases associated with CALHM3 include alzheimer's disease. An important paralog of this gene is CALHM1.

UniProtKB/Swiss-Prot: CAHM3_HUMAN, Q86XJ0
Function: Pore-forming subunit of a voltage-gated ion channel (By similarity)




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000010.11  NC_018921.2  NT_030059.14  
Regulatory elements:
   Regulatory transcription factor binding sites in the CALHM3 gene promoter:
         AhR   AML1a   NF-kappaB   YY1   CREB   deltaCREB   NF-kappaB2   TGIF   NF-kappaB1   RSRFC4   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CALHM3


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

Entrez Gene cytogenetic band: 10q24.33   Ensembl cytogenetic band:  10q24.33   HGNC cytogenetic band: 10q24.33

CALHM3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CALHM3 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M105223:  view genomic region     (about GC identifiers)

Start:
105,232,561 bp from pter      End:
105,238,997 bp from pter
Size:
6,437 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: CAHM3_HUMAN, Q86XJ0 (See protein sequence)
Recommended Name: Calcium homeostasis modulator protein 3  
Size: 350 amino acids; 39087 Da
Secondary accessions: Q5W090 Q8IXR2
Alternative splicing: 2 isoforms:  Q86XJ0-1   Q86XJ0-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CALHM3: NX_Q86XJ0

Explore proteomics data for CALHM3 at MOPED


See CALHM3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001123214.1  
ENSEMBL proteins: 
 ENSP00000358798  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: Q86XJ0

UniProtKB/Swiss-Prot: CAHM3_HUMAN, Q86XJ0
Similarity: Belongs to the FAM26 family


(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,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: CAHM3_HUMAN, Q86XJ0
Function: Pore-forming subunit of a voltage-gated ion channel (By similarity)

Phenotypes:
     4 GenomeRNAi human phenotypes for CALHM3:

 Decreased TP53 protein express  G0/1 arrest  Increased G1 DNA content  Increased gamma-H2AX phosphory 

Animal Models:
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hsa-mir-335-5p (MIRT018398)

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
CAHM3_HUMAN, Q86XJ0: Membrane; Multi-pass membrane protein (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
plasma membrane3
extracellular1
golgi apparatus1
nucleus1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016021integral component of membrane IEA--

CALHM3 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CALHM3
Interactions:

    Search GeneGlobe Interaction Network for CALHM3

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006811ion transport IEA--

CALHM3 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for CALHM3 (CAHM3)



(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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for CALHM3 gene (2 alternative transcripts): 
NM_182494.1  NM_001129742.1  

Unigene Cluster for CALHM3:

Calcium homeostasis modulator 3
Hs.364624  [show with all ESTs]
Unigene Representative Sequence: NM_001129742
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000369783(uc001kxg.4)

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Additional mRNA sequence: 

BC039499.1 BC043367.1 

1 DOTS entry:

DT.95147551 

7 AceView cDNA sequences:

BM477085 BC039499 NM_182494 BC043367 BQ013291 CF529650 BI260920 

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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CALHM3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGTTCTGGGT
CALHM3 Expression
About this image

CALHM3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CALHM3 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.364624

UniProtKB/Swiss-Prot: CAHM3_HUMAN, Q86XJ0
Tissue specificity: Specifically expressed in circumvallate taste bud cells

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In Situ
Assay Products:
 

 
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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)
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This gene was present in the common ancestor of animals.

Orthologs for CALHM3 gene from Selected species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chicken
(Gallus gallus)
Aves CALHM31 calcium homeostasis modulator 3 67.6(n)
62.19(a)
  428978  XM_426535.3  XP_426535.2 
lizard
(Anolis carolinensis)
Reptilia CALHM36
calcium homeostasis modulator 3
57(a)
1 ↔ 1
3(40739009-40747725)
tropical clawed frog
(Xenopus tropicalis)
Amphibia LOC1004895221 calcium homeostasis modulator protein 3-like 64.63(n)
65.31(a)
  100489522  XM_002936803.2  XP_002936849.2 
zebrafish
(Danio rerio)
Actinopterygii calhm31 calcium homeostasis modulator 3 56.47(n)
52.05(a)
  100005130  XM_001344224.2  XP_001344260.1 
worm
(Caenorhabditis elegans)
Secernentea clhm-16
Protein CLHM-1 (clhm-1) mRNA, complete cds
19(a)
1 → many
II(6868942-6870839) WBGene00016626
        Species with no ortholog for CALHM3

ENSEMBL Gene Tree for CALHM3 (if available)
TreeFam Gene Tree for CALHM3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for CALHM3 gene
CALHM12  FAM26D2  FAM26F2  FAM26E2  CALHM22  
2 SIMAP similar genes for CALHM3 using alignment to 1 protein entry:     CAHM3_HUMAN:
CALHM1    CALHM2

CALHM3 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for CALHM3 (see all 168)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 10 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2001514611,2
--105232276(+) CACGC-/TTGTGT 1 -- int10--------
rs1818679691,2
--105232362(+) TGAAAC/TCCTGT 1 -- int10--------
rs1489378321,2
--105232434(+) ACTGAG/TGCAGG 1 -- int10--------
rs1436644941,2
C--105232445(+) AGAATC/TGCTTG 1 -- int10--------
rs29860341,2
C,F,A,H--105232580(+) ACTAAA/GGTCAT 1 -- ut31 ese324Minor allele frequency- G:0.28NS EA NA WA CSA 2489
rs70695711,2
C,F--105232689(+) agcctC/Gcagga 1 -- ut31 ese32Minor allele frequency- G:0.14WA 120
rs593492591,2
C--105232775(+) GAACCG/CAGTCC 1 -- ut313Minor allele frequency- C:0.08CSA WA EA 240
rs171156691,2
C,F,H--105232791(+) AAAGTT/CTGTGA 1 -- ut31 ese320Minor allele frequency- C:0.12NA NS EA WA 1884
rs1864282701,2
--105232925(+) AGCGCA/GGCATT 1 -- ut310--------
rs29860351,2
C,F,O,A,H--105233110(+) GCGGTT/CCACCT 2 /N /D mis127Minor allele frequency- C:0.27NA NS EA WA CSA 2494

HapMap Linkage Disequilibrium report for CALHM3 (105232561 - 105238997 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for CALHM3:    About this table    
Variant IDTypeSubtypePubMed ID
nsv524966CNV Loss19592680
nsv518987CNV Loss19592680

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CALHM3
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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.)
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1 disease for CALHM3:    
About MalaCards
alzheimer's disease


CALHM3 for disorders           About GeneDecksing


Congresses - knowledge worth sharing:
Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
Genetic Association Database (GAD): CALHM3
Human Genome Epidemiology (HuGE) Navigator: CALHM3 (2 documents)

Export disorders for CALHM3 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)
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PubMed articles for CALHM3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with CALHM3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. A polymorphism in CALHM1 influences Ca2+ homeostasis, Abeta levels, and Alzheimer's disease risk. (PubMed id 18585350)1, 2, 3 Dreses-Werringloer U....Marambaud P. (Cell 2008)
  2. Genetic association between CALHM1, 2, and 3 polymorphisms and Alzheimer's disease in a Japanese population. (PubMed id 20164573)1, 4 Shibata N....Arai H. (J. Alzheimers Dis. 2010)
  3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1, 4 Grupe A....Goate A. (Am. J. Hum. Genet. 2006)
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  5. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (Nature 2004)
  6. Genome-wide association analysis identifies 13 new risk loci for schizophrenia. (PubMed id 23974872)1 Ripke S....Sullivan P.F. (Nat. Genet. 2013)
  7. Expression of genes encoding multi-transmembrane proteins in specific primate taste cell populations. (PubMed id 19997627)2 Moyer B.D.... Zlotnik A. (PLoS ONE 2009)
  8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 119395 HGNC: 23458 AceView: FAM26A Ensembl:ENSG00000183128 euGenes: HUgn119395
ECgene: CALHM3 H-InvDB: CALHM3

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for CALHM3 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for CALHM3 gene:
Search GeneIP for patents involving CALHM3

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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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 Antibodies for CALHM3
 See all of Abcam's Antibodies, Kits and Proteins for CALHM3
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 Browse ProSpec Recombinant Proteins
 Proteins for CALHM3
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 Browse ESI BIO Cell Lines and PureStem Progenitors for CALHM3
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 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CALHM3
 Browse SwitchGear 3'UTR luciferase reporter plasmids for CALHM3
 Browse SwitchGear Promoter luciferase reporter plasmids for CALHM3
 Search ThermoFisher Antibodies for CALHM3
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CALHM3
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CALHM3
 inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CALHM3
 LSBio Antibodies in human, mouse, rat for CALHM3
Customized transgenic rodents for:
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 Biomarker expression
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 Browse compounds at ApexBio
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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