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A3GALT2P Gene

pseudogene GIFtS: 21

GC01M033773

alpha 1,3-galactosyltransferase 2, pseudogene
(Previous name: alpha 1,3-galactosyltransferase 2 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: A3GALT2)

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(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases & Descriptions
alpha 1,3-galactosyltransferase 2, pseudogene¹ ²
IGBS3S¹ ²
alpha 1,3-galactosyltransferase 2¹
A3GALT2²

External Ids:	HGNC: 30005¹	Entrez Gene: 127550²	Ensembl: ENSG00000184389⁷

Export aliases for A3GALT2P gene to outside databases

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:

Search SABiosciences Regulatory transcription factor binding sites for A3GALT2P
Other transcription factors

Search SABiosciences Chromatin IP Primers for A3GALT2P

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays

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

Entrez Gene cytogenetic band: 1p35.1 Ensembl cytogenetic band: 1p35.1 HGNC cytogenetic band: 1p35.1

A3GALT2P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
A3GALT2P gene location

GeneLoc gene densities for chromosome 1 GeneLoc Exon Structure

GeneLoc location for GC01M033773: view genomic region (about GC identifiers)

Start:	33,772,367 bp from pter
End:	33,786,699 bp from pter
Size:	14,333 bases
Orientation:	minus strand

1 alternative location:

Chr1- 31,888,724-31,894,724

(According to ¹UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
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Human Recombinant Proteins

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(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
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Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
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		OriGene 29mer shRNA kits in GFP-retroviral vector (see all 3): A3GALT2P OriGene shRNA RFP (see all 3): A3GALT2P OriGene basic RS shRNA (see all 3): A3GALT2P OriGene siRNA (see all 3): A3GALT2P
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miRNA:		Browse microRNA Mimics at Sigma-Aldrich Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of A3GALT2P
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Gene
Editing:

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Cell
Lines:

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(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
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SABiosciences Custom Pathway-Focused PCR Arrays for A3GALT2P

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for A3GALT2P

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
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Browse Small Molecules at Sigma-Aldrich

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for A3GALT2P

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
		Browse Nano Scale siRNA at Sigma-Aldrich Sigma-Aldrich siRNA for A3GALT2P Sigma-Aldrich shRNA for A3GALT2P
		OriGene 29mer shRNA kits in GFP-retroviral vector (see all 3): A3GALT2P OriGene shRNA RFP (see all 3): A3GALT2P OriGene basic RS shRNA (see all 3): A3GALT2P OriGene siRNA (see all 3): A3GALT2P
		Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of A3GALT2P

miRNA:		Browse microRNA Mimics at Sigma-Aldrich Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of A3GALT2P
		Search SABiosciences for Assays for microRNAs that regulate A3GALT2P

Clones:		Browse FLAG tag genes at Sigma-Aldrich
		OriGene GFP tagged cDNA clones in CMV expression vector: A3GALT2P OriGene Myc/DDK tagged cDNA clones in CMV expression vector: A3GALT2P Browse 3'-UTR reporter clones for miRNA target validation Browse OriGene MicroRNA Expression Plasmids
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Primers:		OriGene genome-wide validated SYBR primer pairs: A3GALT2P Browse OriGene validated miRNA SYBR primer pairs
		Search SABiosciences RT² qPCR Primer Assays for A3GALT2P

GeneLoc Exon Structure

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000330379(uc001bxd.1) ENST00000442999

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

A3GALT2P expression in normal and diseased human tissues

Data from GNF BioGPS
About these images

A3GALT2P gene electronic northern expression

About these images

CGAP SAGE TAG: --

Primers:		OriGene genome-wide validated SYBR primer pairs: A3GALT2P Browse OriGene validated miRNA SYBR primer pairs
		Search SABiosciences RT² qPCR Primer Assays for A3GALT2P

SABiosciences Custom PCR Arrays for A3GALT2P

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for A3GALT2P gene from 3 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	A3GALT2¹	--	alpha 1,3-galactosyltransferase 2	89.73(n) 83.39(a)	487298 XM_544424.2 XP_544424.2
rat (Rattus norvegicus)	A3galt2¹	--	alpha 1,3-galactosyltransferase 2	77.71(n) 69.82(a)	171553 NM_138524.2 NP_612533.1
mouse (Mus musculus)	A3galt2¹	--	alpha 1,3-galactosyltransferase 2 (isoglobotriaosylceramide more	77.38(n) 69.07(a)	215493 NM_001009819.2 NP_001009819.1

About this table Species with no ortholog for A3GALT2P

ENSEMBL Gene Tree for A3GALT2P (if available)

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

(SNPs according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section

SNP ID	Valid	Chr 1 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
Genomic Data				Transcription Related Data				Allele Frequencies
			--	--	--		--	--
rs4074333^1,2	--	33772879(+)	`CACGTA/CTTGCC`	2	D Y	ref¹ mis¹ ese³		0	--	--	--	--
rs11812052^1,2	C,H	33772799(+)	`TCCATG/TCAGAA`	2	X C	¹ ref¹ ese³		0	--	--	--	--
rs72889865^1,2	C,	33778153(+)	`TGGCCG/AAAGGG`	2	/S /L	ref¹ mis¹		1		WA	2
rs77675388^1,2	--	33772740(+)	`GCGCCA/CCCGAC`	2	G V	mis¹ ref¹		0	--	--	--	--
rs79446222^1,2	--	33778447(+)	`AGAGGC/TCAAGT`	2	D G	mis¹ ref¹		0	--	--	--	--
rs113218677^1,2	--	33772792(+)	`GTCCAC/TGTCCA`	2	M V	mis¹ ref¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for A3GALT2P (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for A3GALT2P: --

QIAGEN SeqTarget long-range PCR primers for resequencing A3GALT2P

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
About This Section

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶UniProtKB/TrEMBL, and/or ⁷Novoseek)
About This Section

5 PubMed articles for A3GALT2P gene integrated from 7 sources:
(articles sorted by number of sources associating them with A3GALT2P)

Humans lack iGb3 due to the absence of functional iGb3-synthase: implications for NKT cell development and transplantation. (PubMed id 18630988)^{1, 3} Christiansen D....Sandrin M.S. (2008)
Expression cloning of a new member of the ABO blood group glycosyltransferases, iGb3 synthase, that directs the synthesis of isoglobo-glycosphingolipids. (PubMed id 10854427)³ Keusch J.J....Baenziger J.U. (2000)
Structural basis of UDP-galactose binding by alpha-1,3-galactosyltransferase (alpha3GT): role of negative charge on aspartic acid 316 in structure and activity. (PubMed id 18651752)⁷ Tumbale P....Acharya K.R. (2008)
Sensitive detection of isoglobo and globo series tetraglycosylceramides in human thymus by ion trap mass spectrometry. (PubMed id 18056651)⁷ Li Y....Zhou D. (2008)
Carbohydrate residues downstream of the terminal Galalpha(1,3)Gal epitope modulate the specificity of xenoreactive antibodies. (PubMed id 17724458)⁷ Milland J....Sandrin M.S. (2007)

(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)
About This Section

Entrez Gene: 127550	HGNC: 30005	Ensembl:ENSG00000184389	euGenes: HUgn127550	ECgene: A3GALT2P
H-InvDB: A3GALT2P

(According to HUGE)
About This Section

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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Intellectual Property for A3GALT2P gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from XenneX, Inc.)

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Patent Information for A3GALT2P gene:
Search GeneIP for patents involving A3GALT2P

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
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pseudogene GIFtS: 21

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pseudogene GIFtS: 21

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