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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

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(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

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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,
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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: Adam3^{tm1(KOMP)Wtsi} Adam3^tm1Pmkf Adam3^tm1Ihgg

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:

Compartment	Confidence
cytoskeleton	1
cytosol	1
mitochondrion	1
nucleus	1
peroxisome	1
plasma membrane	1

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(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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(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,
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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: --

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:

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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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SNP ID	Valid	Clinical significance	Chr 8 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs6984329^1,2	C,F,A	--	39308393(+)	`cgaacG/Aggtga`	4	--	int¹		8		NA WA CSA EA	367
rs192162861^1,2		--	39308405(+)	`CCACTC/TCCCTG`	4	--	int¹		0	--	--	--	--
rs74329920^1,2	C,F	--	39308428(+)	`TGAGGG/AAGATC`	4	--	int¹		2		NA EA	240
rs142448915^1,2		--	39308433(+)	`GAGATC/TAGTGA`	4	--	int¹		0	--	--	--	--
rs185577282^1,2		--	39308505(+)	`ACAAAG/TCCGCT`	4	--	int¹		0	--	--	--	--
rs7463019^1,2	C,F,A,H	--	39308621(+)	`TTAATA/C/GGTGAG`	8	--	nc-transcript-variantese³		12		NS NA WA CSA EA	488
rs75260247^1,2	C,F	--	39308676(+)	`CACTTG/CGTTAC`	4	--	nc-transcript-variant		2		NA EA	240
rs7837085^1,2	C,F,H	--	39309170(+)	`CCCCTC/TCACTT`	4	--	int¹		14		NS EA WA NA	1882
rs59808784^1,2		--	39309233(+)	`AAAAGC/GTGTCA`	4	--	int¹		0	--	--	--	--
rs11990684^1,2	C,F,H	--	39309302(+)	`TAAACG/ATCCAT`	4	--	int¹		1		NA	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 ID	Type	Subtype	PubMed ID
dgv1282e199	CNV	Deletion	23128226
esv2421469	CNV	Deletion	20811451
esv2736900	CNV	Deletion	23290073
esv2736901	CNV	Deletion	23290073
nsv820723	CNV	Deletion	20802225
esv995573	CNV	Deletion	20482838
nsv433493	CNV	Loss	18776910
dgv7768n71	CNV	Loss	21882294
dgv7782n71	CNV	Loss	21882294
nsv508503	CNV	Loss	20534489

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 inferred disease relationship 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

Human cyritestin genes (CYRN1 and CYRN2) are non-functional. (PubMed id 11439107)^{1, 3, 9} Grzmil P....Engel W. (Biochem. J. 2001)
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)
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)
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)
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)
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)
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)
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)
Identification and characterization of ADAM32 with testis-predominant gene expression. (PubMed id 12568724)⁹ Choi I.... Cho C. (Gene 2003)
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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		AND	OR
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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Name	Description
PharmGKB entry for ADAM3A	Pharmacogenomics, SNPs, Pathways

Intellectual Property for ADAM3A gene
(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

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ADAM3A Gene

ADAM Metallopeptidase Domain 3A (Pseudogene)

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ADAM3A Gene

ADAM Metallopeptidase Domain 3A (Pseudogene)

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