APOBEC2 Gene

Aliases
for APOBEC2 gene

(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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Previous GC identifers: GC06P041023 GC06P041067 GC06P041128 GC06P040738

Summaries
for APOBEC2 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for APOBEC2 gene

(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_000006.11  NC_018917.2  NT_007592.16  

SwitchGear Promoter luciferase reporter plasmid: APOBEC2 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat APOBEC2

APOBEC2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P041020:  view genomic region     (about GC identifiers)

Proteins
for APOBEC2 gene

(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, antibodies-online, and/or GeneTex,
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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1 PDB 3D structure from and Proteopedia for APOBEC2:

2NYT (3D)    

Explore the universe of human proteins at neXtProt for APOBEC2: NX_Q9Y235

Explore proteomics data for APOBEC2 at MOPED

Post-translational modifications: 

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	antibodies-online peptides for APOBEC2

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Domains /
Families
for APOBEC2 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: Q9Y235

Find genes that share domains with APOBEC2           About GenesLikeMe

Function
for APOBEC2 gene

(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, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 5 molecular function terms:    About this table

(inferred from 2 alleles) (MGI details for Apobec2)

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miRNA Products:		Block miRNA regulation of human, mouse, rat APOBEC2 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate APOBEC2 (see all 11):
		hsa-miR-30c-2* hsa-miR-409-3p hsa-miR-4267 hsa-miR-4316 hsa-miR-214 hsa-miR-885-3p hsa-miR-593 hsa-miR-30c-1*
		SwitchGear 3'UTR luciferase reporter plasmid: APOBEC2 3' UTR sequence

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Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for APOBEC2

Clone Products:		OriGene clones in human, mouse for APOBEC2 (see all 6) OriGene ORF clones in mouse, rat for APOBEC2 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APOBEC2

Localization
for APOBEC2 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Pathways & Interactions
for APOBEC2 gene

(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 GenesLikeMe, 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, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 4 biological process terms:    About this table

Drugs & Compounds
for APOBEC2 gene

(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, Sets of similar genes according to GenesLikeMe)
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Transcripts
for APOBEC2 gene

(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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Expression
for APOBEC2 gene

(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 GenesLikeMe, 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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APOBEC2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: GGCTCCAGTC

About this image

Heart (Cardiovascular System)    fully expand to see all 4 entries
Primitive Heart Tube Cells Primitive Heart Tube
Cardiomyocyte-like progenitor cells
Pancreas (Endocrine System)
Islets of Langerhans
Neurons
Mature Rod Cells Outer Nuclear Layer
Eye (Sensory Organs)
Mature Rod Cells Outer Nuclear Layer

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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APOBEC2

Orthologs
for APOBEC2 gene

(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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Paralogs
for APOBEC2 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for APOBEC2 gene

APOBEC3G²  APOBEC3F²  APOBEC1²  APOBEC3B²  APOBEC3D²  APOBEC3C²  APOBEC3A²  APOBEC3H²  

AICDA²  

10 SIMAP similar genes for APOBEC2 using alignment to 1 protein entry:     ABEC2_HUMAN:

APOBEC3C    APOBEC3F    AID    AICDA    APOBEC3D    APOBEC3DE

APOBEC3B    APOBEC3A    APOBEC3G    bK150C2.9

Find genes that share paralogs with APOBEC2           About GenesLikeMe

Genomic Variants
for APOBEC2 gene

(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 APOBEC2 (see all 295)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 6 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs47144271,2	C,F	--	41018980(+)	ACTCCA/GTCTCA	1	--	us2k1		3		NA	6
rs1513310911,2		--	41019060(+)	CAGCGA/GGACAC	1	--	us2k1		0	--	--	--	--
rs1820273681,2		--	41019338(+)	TTTCAA/GCCTAC	1	--	us2k1		0	--	--	--	--
rs1405844711,2		--	41019353(+)	GACCCC/TGACCC	1	--	us2k1		0	--	--	--	--
rs777519311,2	C,F	--	41019411(+)	AAACAC/TGAAGA	1	--	us2k1		1		WA	118
rs1872007031,2	C	--	41019485(+)	TGTTCC/TGGCTC	1	--	us2k1		0	--	--	--	--
rs1916177221,2		--	41019508(+)	ATGGGC/TCCCCA	1	--	us2k1		0	--	--	--	--
rs803189651,2	C	--	41019537(+)	AGTAGA/GCTTCT	1	--	us2k1		0	--	--	--	--
rs1476673081,2		--	41019779(+)	CAGAGC/TCTTTG	1	--	us2k1		0	--	--	--	--
rs1816625661,2		--	41019912(+)	AAGTAC/TGTAAC	1	--	us2k1		0	--	--	--	--

HapMap Linkage Disequilibrium report for APOBEC2 (41020940 - 41032630 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for APOBEC2:    About this table    

Variant ID	Type	Subtype	PubMed ID
nsv526577	CNV	Loss	19592680

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing APOBEC2

DNA2.0 Custom Variant and Variant Library Synthesis for APOBEC2

Disorders / Diseases
for APOBEC2 gene

(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, Sets of similar genes according to GenesLikeMe)
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Publications
for APOBEC2 gene

(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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1. APOBEC-2, a cardiac- and skeletal muscle-specific member of the cytidine deaminase supergene family. (PubMed id 10403781)^{1, 2, 3, 9} Liao W.... Chan L. (Biochem. Biophys. Res. Commun. 1999)
2. The APOBEC-2 crystal structure and functional implications for the deaminase AID. (PubMed id 17187054)^{1, 2, 9} Prochnow C.... Chen X.S. (Nature 2007)
3. Gender differences in genetic risk profiles for cardiovascular disease. (PubMed id 18974842)^{1, 4} Silander K....Peltonen L. (PLoS ONE 2008)
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 analysis of human chromosome 6. (PubMed id 14574404)^{1, 2} Mungall A.J.... Beck S. (Nature 2003)
6. ARCD-1, an apobec-1-related cytidine deaminase, exerts a dominant negative effect on C to U RNA editing. (PubMed id 11698249)^{1, 9} Anant S....Davidson N.O. (Am. J. Physiol., Cell Physiol. 2001)
7. Excessive activity of apolipoprotein B mRNA editing enzyme catalytic polypeptide 2 (APOBEC2) contributes to liver and lung tumorigenesis. (PubMed id 21469143)¹ Okuyama S....Chiba T. (Int. J. Cancer 2012)
8. Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. (PubMed id 21496894)² Guo J.U.... Song H. (Cell 2011)
9. Microarray analysis of tonsils in immunoglobulin A nephropathy patients. (PubMed id 20138841)¹ Iio K....Rakugi H. (Biochem. Biophys. Res. Commun. 2010)
10. APOBEC deaminases-mutases with defensive roles for immunity. (PubMed id 19911124)¹ Prochnow C....Chen X.S. (Sci. China, C, Life Sci. 2009)

External Searches for APOBEC2 gene

Genome Databases showing APOBEC2 gene

Other Databases showing APOBEC2 gene

Specialized Databases showing APOBEC2 gene

Products
for APOBEC2 gene

(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, GeneTex, 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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