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ADAM3A Gene

pseudogene   GIFtS: 32
GCID: GC08M039325

ADAM Metallopeptidase Domain 3A (Pseudogene)

(Previous names: cyritestin 1, a disintegrin and metalloproteinase domain...)
(Previous symbol: CYRN1)
  See ADAM3A-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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
ADAM Metallopeptidase Domain 3A (Pseudogene)1 2     ADAM Metallopeptidase Domain 3A, Pseudogene1
CYRN11 2     Cyritestin 11
A Disintegrin And Metalloproteinase Domain 3a (Cyritestin 1)1     ADAM32
ADAM Metallopeptidase Domain 3A1     tMDCI2

External Ids:    HGNC: 2091   Entrez Gene: 15872   Ensembl: ENSG000001974757   
ORGUL members:         

Export aliases for ADAM3A gene to outside databases

Previous GC identifers: GC08U990016 GC08M039049 GC08M039330 GC08M039427 GC08M037840


(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 ADAM3A Gene:
ADAM3A (ADAM metallopeptidase domain 3A (pseudogene)) is a pseudogene, and is affiliated with the lncRNA class. Diseases associated with ADAM3A include composite lymphoma.


(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 at NCBI GenBank:
NC_000008.10  NT_167187.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ADAM3A gene promoter:
         Nkx3-1 v4   LHX3b/Lhx3b   GATA-3   Nkx2-5   GATA-1   GATA-2   Nkx6-1   POU2F1   POU2F1a   LHX3a/Lhx3a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for ADAM3A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ADAM3A


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

Entrez Gene cytogenetic band: 8p11.23   Ensembl cytogenetic band:  8p11.22   HGNC cytogenetic band: 8p11.22

ADAM3A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ADAM3A gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08M039325:  view genomic region     (about GC identifiers)

Start:
39,308,564 bp from pter      End:
39,380,470 bp from pter
Size:
71,907 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for ADAM3A

(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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
ADAM: ADAM metallopeptidase domain containing

IUPHAR Guide to PHARMACOLOGY protein family classification: ADAM3
ADAM

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:
     Genatlas biochemistry entry for ADAM3A:
a disintegrin and metalloprotease (inactive) domain 3A,cyritestin 1,membrane anchored cell surface adhesion
protein and soluble form,expressed in the acrosome region of spermatids and spermatozoa,involved in sperm-egg
fusion during fertilization

Phenotypes:
     1 MGI mutant phenotype (inferred from 3 alleles(MGI details for Adam3):
 reproductive system 

Find genes that share phenotypes with ADAM3A           About GenesLikeMe

Animal Models:
     MGI mouse knock-outs for ADAM3A: Adam3tm1(KOMP)Wtsi Adam3tm1Pmkf Adam3tm1Ihgg

   genOway: Develop your customized and physiologically relevant rodent model for ADAM3A

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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 COMPARTMENTS: 

CompartmentConfidence
cytoskeleton1
cytosol1
mitochondrion1
nucleus1
peroxisome1
plasma membrane1

(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 ADAM3A
Interactions:

    Search GeneGlobe Interaction Network for ADAM3A

(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 ADAM3A



(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,
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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Unigene Cluster for ADAM3A:

ADAM metallopeptidase domain 3A (pseudogene)
Hs.98848  [show with all ESTs]
Unigene Representative Sequence: NR_073423
9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000460383 ENST00000481351(uc003xnd.3) ENST00000495171(uc010lwv.3 uc003xnf.3 uc011lcj.1)
ENST00000490268(uc003xne.3 uc011lci.2) ENST00000497806 ENST00000474764
ENST00000461344 ENST00000484602 ENST00000424066(uc003xng.4)
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Additional mRNA sequence: 

AJ005372.1 AK302269.1 AK308250.1 BC025386.1 BC042979.2 NR_001569.3 NR_024106.2 NR_024107.2 
NR_073423.1 X89654.1 X89655.1 X89656.1 X89657.1 

7 DOTS entries:

DT.101960107  DT.120643912  DT.120643907  DT.87046220  DT.97825764  DT.95267429  DT.95287572 

Selected AceView cDNA sequences (see all 31):

BI829329 BC042979 BI463148 X89655 BM908226 BI559377 BG720012 X89656 
BC025386 BG717260 AA421339 BG721794 X89654 BG721086 AA421475 BI828828 
AA436060 NR_001569 BI459199 BI459404 AJ005372 AA435963 X89657 BI827962 

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for ADAM3A (see all 7)    About this scheme

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^
SP1:                                                                                                                    -                                       
SP2:                                                                                                                                                            
SP3:                                                                                                              -     -     -                                 
SP4:                                                  -           -     -                                                                                       
SP5:                                      -           -     -     -     -                                                                                       

ExUns: 19 ^ 20 ^ 21 ^ 22
SP1:                        
SP2:                        
SP3:                        
SP4:                        
SP5:                        


ECgene alternative splicing isoforms for ADAM3A

(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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ADAM3A expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
ADAM3A Expression
About this image


ADAM3A expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 4) fully expand
 
 Testis (Reproductive System)    fully expand to see all 2 entries
         Spermatozoan Seminiferous Tubules
 
 Gonad
         Spermatozoan Seminiferous Tubules
 
 Pancreas (Endocrine System)
 
 Dermis (Integumentary System)
ADAM3A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ADAM3A Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.98848
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In Situ
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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 human and mouse.

Orthologs for ADAM3A gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Adam35 a disintegrin and metallopeptidase domain 3 (cyritestin)   --   8 (13.09 cM) 24677225 


ENSEMBL Gene Tree for ADAM3A (if available)
TreeFam Gene Tree for ADAM3A (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(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 ADAM3A (see all 1531)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 8 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs69843291,2
C,F,A--39308393(+) cgaacG/Aggtga 4 -- int18Minor allele frequency- A:0.45NA WA CSA EA 367
rs1921628611,2
--39308405(+) CCACTC/TCCCTG 4 -- int10--------
rs743299201,2
C,F--39308428(+) TGAGGG/AAGATC 4 -- int12Minor allele frequency- A:0.15NA EA 240
rs1424489151,2
--39308433(+) GAGATC/TAGTGA 4 -- int10--------
rs1855772821,2
--39308505(+) ACAAAG/TCCGCT 4 -- int10--------
rs74630191,2
C,F,A,H--39308621(+) TTAATA/C/GGTGAG 8 -- nc-transcript-variantese312NS NA WA CSA EA 488
rs752602471,2
C,F--39308676(+) CACTTG/CGTTAC 4 -- nc-transcript-variant2Minor allele frequency- C:0.18NA EA 240
rs78370851,2
C,F,H--39309170(+) CCCCTC/TCACTT 4 -- int114Minor allele frequency- T:0.06NS EA WA NA 1882
rs598087841,2
--39309233(+) AAAAGC/GTGTCA 4 -- int10--------
rs119906841,2
C,F,H--39309302(+) TAAACG/ATCCAT 4 -- int11Minor allele frequency- A:0.33NA 6

HapMap Linkage Disequilibrium report for ADAM3A (39308564 - 39380470 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for ADAM3A (see all 59):    About this table    
Variant IDTypeSubtypePubMed ID
dgv1282e199CNV Deletion23128226
esv2421469CNV Deletion20811451
esv2736900CNV Deletion23290073
esv2736901CNV Deletion23290073
nsv820723CNV Deletion20802225
esv995573CNV Deletion20482838
nsv433493CNV Loss18776910
dgv7768n71CNV Loss21882294
dgv7782n71CNV Loss21882294
nsv508503CNV Loss20534489

Site Specific Mutation Identification with PCR Assays
1 Copy Number PCR Panel containing ADAM3A:
Glioma
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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1 disease for ADAM3A:    
About MalaCards
composite lymphoma

1 disease from the University of Copenhagen DISEASES database for ADAM3A:
Composite lymphoma

Find genes that share disorders with ADAM3A           About GenesLikeMe


Export disorders for ADAM3A 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 ADAM3A gene integrated from 10 sources:
(articles sorted by number of sources associating them with ADAM3A)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Human cyritestin genes (CYRN1 and CYRN2) are non-functional. (PubMed id 11439107)1, 3, 9 Grzmil P....Engel W. (Biochem. J. 2001)
  2. Molecular cloning, chromosomal localization, and expression analysis of CYRN1 and CYRN2, two human genes coding for cyritestin, a sperm protein involved in gamete interaction. (PubMed id 9502432)1, 3, 9 Adham I.M.... Engel W. (DNA Cell Biol. 1998)
  3. Homozygous loss of ADAM3A revealed by genome-wide analysis of pediatric high-grade glioma and diffuse intrinsic pontine gliomas. (PubMed id 21138945)1 Barrow J....Grundy R. (Neuro-oncology 2011)
  4. Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates. (PubMed id 20210993)1 Zhang Z.D....Gerstein M. (Genome Biol. 2010)
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
  6. 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)
  7. The gene for the human tMDC I sperm surface protein is non-functional: implications for its proposed role in mammalian sperm-egg recognition. (PubMed id 9693117)1 Frayne J. and Hall L. (Biochem. J. 1998)
  8. Allograft inflammatory factor-1 (AIF-1) is crucial for the survival and pro-inflammatory activity of macrophages. (PubMed id 16157606)9 Yang Z.F....Fan S.T. (Int. Immunol. 2005)
  9. Identification and characterization of ADAM32 with testis-predominant gene expression. (PubMed id 12568724)9 Choi I.... Cho C. (Gene 2003)
  10. The molecular basis of sperm-oocyte membrane interactions during mammalian fertilization. (PubMed id 12206465)9 Evans J.P. (Hum. Reprod. Update 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: 1587 HGNC: 209 AceView: ADAM3A Ensembl:ENSG00000197475 euGenes: HUgn1587
ECgene: ADAM3A H-InvDB: ADAM3A

(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 ADAM3A 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 ADAM3A gene:
Search GeneIP for patents involving ADAM3A

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, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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 genOway)
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