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APH1A Gene

protein-coding   GIFtS: 59

GC01M148504
anterior pharynx defective 1 homolog A (C. elegans)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
6530402N02Rik 2
APH-1A 1, 2
APH-1a 3
Aph-1alpha 3
CGI-78 1, 2
OTTHUMP00000014528 2
OTTHUMP00000014529 2
PSF 3
Descriptions
Presenilin-stabilization factor 3
anterior pharynx defective 1 homolog A 2
anterior pharynx defective 1 homolog A (C. elegans) 2
External Ids
HGNC: 295091
Entrez Gene: 511072
UniProtKB: Q96BI33
Ensembl: ENSG000001173627
Search outside databases for aliases for APH1A gene

Previous GC identifer: GC01M147051

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

EntrezGene summary for APH1A:
APH1 is a multipass transmembrane protein that interacts with presenilin (see PSEN1; MIM 104311)
and nicastrin (APH2; MIM 605254) as a functional component of the gamma-secretase complex. The
gamma-secretase complex is required for the intramembrane proteolysis of a number of membrane
proteins, including the amyloid-beta precursor protein (APP; MIM 104760) and Notch (MIM
190198).[supplied by OMIM]

UniProtKB/Swiss-Prot: APH1A_HUMAN, Q96BI3
Function: Essential subunit of the gamma-secretase complex, an endoprotease complex that catalyzes
the intramembrane cleavage of integral proteins such as Notch receptors and APP (beta-amyloid
precursor protein). It probably represents a stabilizing cofactor for the presenilin homodimer
that promotes the formation of a stable complex

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the APH1A gene  

Entrez Gene cytogenetic band: 1p36.13-q31.3   Ensembl cytogenetic band:  1q21.2   HGNC cytogenetic band: 1p36.13-q31.3

APH1A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M148504:     (about GC identifiers)

Start:
148,502,512 bp from pter
End:
148,508,156 bp from pter
Size:
5,645 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000001.9  NT_004487.18  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: APH1A_HUMAN, Q96BI3 (See protein sequence)
Recommended Name: Gamma-secretase subunit APH-1A  
Size: 265 amino acids; 28996 Da
Subunit: Component of the gamma-secretase complex, a complex composed of a presenilin homodimer
(PSEN1 or PSEN2), nicastrin (NCSTN), APH1 (APH1A or APH1B) and PEN2. Such minimal complex is
sufficient for secretase activity, although other components may exist
Subcellular location: Endoplasmic reticulum membrane; Multi-pass membrane protein. Golgi apparatus,
Golgi stack membrane; Multi-pass membrane protein. Note=Predominantly located in the endoplasmic
reticulum and in the cis-Golgi
Sequence caution: Sequence=AAD34072.1; Type=Frameshift; Positions=243; Sequence=AAN63816.1;
Type=Frameshift; Positions=243;
Secondary accessions: Q969R6 Q9BVG0 Q9Y386
Alternative splicing: 2 isoforms:  Q96BI3-1   Q96BI3-2   

REFSEQ proteins (2 alternative transcripts): 
NP_001071096.1  NP_057106.2  


ENSEMBL proteins: 
ENSP00000236017 ENSP00000358105 ENSP00000353380 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (APH1a)
Browse Abnova for Human Recombinant Proteins
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

5 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005783 endoplasmic reticulum IDA15274632
GO:0005789 endoplasmic reticulum membrane IEA--
GO:0005794 Golgi apparatus IDA15274632
GO:0005887 integral to plasma membrane IDA15274632
GO:0016020 membrane IEA--
About this table

Antibodies for APH1A: 
Invitrogen Antibodies for APH1A
Millipore Mono- and Polyclonal Antibodies for the study of APH1A
Sigma-Aldrich Antibodies for APH1A
Browse R&D Systems for Antibodies
Antibodies from Abcam (APH1a), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (APH1A)
Novus Biologicals Antibody for APH1A

Assays for APH1A: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro domain/family:
 IPR009294 Aph-1


   GeneDecks  APH1A for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry Q96BI3

ProtoNet protein and cluster: Q96BI3

1 Blocks protein family: IPB009294 Aph-1

UniProtKB/Swiss-Prot: APH1A_HUMAN, Q96BI3
Similarity: Belongs to the APH-1 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (APH1A)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_001077628

              Applied Biosystems Silencer® siRNAs for APH1A

              Sigma-Aldrich siRNA and siRNA Panels for APH1A  
                     Sigma-Aldrich shRNA for APH1A  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for APH1A
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001077628
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001077628
                                 untagged cDNA clones in CMV expression vector (see all 3): NM_001077628 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001077628

UniProtKB/Swiss-Prot: APH1A_HUMAN, Q96BI3
Function: Essential subunit of the gamma-secretase complex, an endoprotease complex that catalyzes
the intramembrane cleavage of integral proteins such as Notch receptors and APP (beta-amyloid
precursor protein). It probably represents a stabilizing cofactor for the presenilin homodimer
that promotes the formation of a stable complex

9 MGI mutant phenotypes (inferred from 5 alleles(MGI details for Aph1a):

craniofacialembryogenesisgrowth/sizelethality-prenatal/perinatal
musclenervous systemnormalskeleton

1 Gene Ontology (GO) molecular function term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005515 protein binding IPI12297508
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Invitrogen iPath™ Online BioAtlas - Pathway for APH1A (Maps provided by GeneGo):
 The role of amyloid proteins in cell adhesion

   GeneDecks  APH1A for the pathways selected above  
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1 Millipore Pathway for APH1A
 Development Notch Signaling Pathway

   GeneDecks  APH1A for the pathways selected above  
About GeneDecksing

4 Sigma-Aldrich "Your Favorite Gene" Pathways for  APH1A  (Your Favorite Gene powered by Ingenuity) 
 Notch Signaling
 Molecular Mechanisms of Cancer
 Mitochondrial Dysfunction
 Amyloid Processing

   GeneDecks  APH1A for the pathways selected above  
About GeneDecksing

2 Kegg Pathways  (Kegg details for APH1A):
 hsa04330 Notch signaling pathway
 hsa05010 Alzheimer's disease

   GeneDecks  APH1A for the pathways selected above  
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5/27 Interacting proteins for APH1A (ENSP000003581053 Q96BI32) via UniProtKB, MINT, and/or STRING (see all 27 )
InteractantInteraction Details
GeneCardExternal ID(s)
NCSTNQ925422STRING (score=.999) MINT-6174950 MINT-7025631
PSENENQ9NZ422STRING (score=.999) MINT-7025654 MINT-7025631
PSEN1ENSP000003263663STRING (score=.999)
PSEN2ENSP000003557463STRING (score=.999)
NOTCH1ENSP000003607653STRING (score=.972)
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5/6 Gene Ontology (GO) biological process terms (links to tree view) (see all 6 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0006509 membrane protein ectodomain proteolysis IDA15274632
GO:0007220 Notch receptor processing IMP12297508
GO:0016485 protein processing IDA15274632
GO:0031293 membrane protein intracellular domain proteolysis IMP12297508
GO:0042987 amyloid precursor protein catabolic process IMP12297508
About this table
(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)
About This Section

Enzo Life Sciences drugs & compounds for APH1A
Sigma-Aldrich Small Molecules for APH1A:
Inhibitor

Browse Tocris compounds for APH1A

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
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 Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (APH1A)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_001077628

              Sigma-Aldrich siRNA and siRNA Panels for APH1A  
                     Sigma-Aldrich shRNA for APH1A  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001077628  NM_016022  

REFSEQ mRNAs for APH1A gene (2 alternative transcripts): 

NM_001077628.1   NM_016022.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001077628  NM_016022  

               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001077628
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001077628
                                 untagged cDNA clones in CMV expression vector (see all 3): NM_001077628 

Additional cDNA sequence: 

AF151835.1 AF508787.1 AK027879.1 AK075295.1 AK075452.1 AK297680.1 AK298832.1 AK298876.1 
AK300640.1 AK307358.1 AK314490.1 AY113698.1 AY113699.1 AY358951.1 BC001230.2 BC008732.2 
BC009501.2 BC015568.2 BC017699.1 BC020590.1 BC068606.1 CR590583.1 CR591178.1 CR591331.1 
CR594282.1 CR594321.1 CR596144.1 CR597912.1 CR601650.1 CR603099.1 CR605320.1 CR607278.1 
CR609243.1 CR609659.1 CR609960.1 CR610823.1 CR612872.1 CR613868.1 CR615087.1 CR618014.1 
CR626054.1 CR626391.1 CR626622.1 CR626805.1 

24/27 DOTS entries (see all 27 ):

DT.100667168  DT.92464622  DT.100667178  DT.100667165  DT.100667170  DT.92377898  DT.91947264  DT.95208829 
DT.415663  DT.95370242  DT.92464637  DT.92464632  DT.95370244  DT.97855534  DT.100678619  DT.101985469 
DT.92464630  DT.95370235  DT.100699928  DT.100866480  DT.121408334  DT.121408339  DT.121408344  DT.121408417 

24/537 AceView cDNA sequences (see all 537 ):

BX336175 CR609659 AI583196 BX440256 BM839590 BM464560 AX775955 BQ919286 
CB120774 BM770674 CA488564 AA314355 CB216714 CR591178 AI878986 BU729468 
N91321 BQ012743 AI217102 AI419017 AI242398 BQ939689 AI624597 AI250157 

highest scoring ESTs for APH1A:

AA314355 AF151835 AF508787 AI878986 AK027879 AK075295 AK075452 AL515915 AL516502 AL527244 

Unigene Cluster for APH1A:

Anterior pharynx defective 1 homolog A (C. elegans)
Hs.108408  [show with all ESTs]
Unigene Representative Sequence: BC068606


GeneLoc Exon Structure

5/6 Alternative Splicing Database (ASD) splice patterns (SP) for APH1A (see all 6 )

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7
SP1:                                      -           -                 -           -     -         
SP2:                                      -           -                 -                           
SP3:                                      -                             -                           
SP4:                          -     -     -           -                 -                           
SP5:                                      -                                                         

About this scheme

ECgene alternative splicing isoforms for APH1A

3 Ensembl transcripts including schematic representations:
ENST00000236017  ENST00000369109  ENST00000360244  
(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 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

APH1A expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for APH1A

1 / 2 / 3

4 probe-sets matching APH1A gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

56395_at2, 3 U95-B 1 1.00 1.00 1.00 1.00 W52074 0.80 1.00 0.91 1

218389_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_016022 0.60 1.00 0.82 1

1554417_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

218389_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
About this table
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: ACATCGTAGG

SOURCE GeneReport for Unigene cluster: Hs.108408

UniProtKB/Swiss-Prot: APH1A_HUMAN, Q96BI3
Tissue specificity: Widely expressed. Expressed in leukocytes, lung, placenta, small intestine,
liver, kidney, spleen thymus, skeletal muscle, heart and brain. Isoform 1 and isoform 2 are nearly
expressed at the same level

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for APH1A gene from 5/9 species (see all 9 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
APH1A1   -- anterior pharynx defective 1 homolog A (C. elegans) 96.73(n)
99.25(a)
483181  XM_540299.2  XP_540299.1 
chimpanzee
(Pan troglodytes)
APH1A1   -- anterior pharynx defective 1 homolog A (C. elegans) 99.75(n)
100(a)
457270  XM_513772.2  XP_513772.1 
cow
(Bos taurus)
APH1A1   -- anterior pharynx defective 1 homolog A (C. elegans) 95.93(n)
98.37(a)
539247  NM_001034670.1  NP_001029842.1 
mouse
(Mus musculus)
Aph1a5
OTTMUSG000000216271
35
anterior pharynx defective 1a homolog (C. elegans)5
predicted gene, ENSMUSG000000403231
94.59(n)1
98.87(a)1
1000396231  XM_001473374.11  XP_001473424.11 
 AI1579115  AK0783435  (see all 18)
chicken
(Gallus gallus)
APH1A1   -- anterior pharynx defective 1 homolog A (C. elegans) 64.01(n)
63.75(a)
769986  XM_001233301.1  XP_001233302.1 
About this table        Species with no ortholog for APH1A

ENSEMBL Gene Tree for APH1A
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for APH1A gene
APH1B2  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/20 NCBI SNPs in APH1A are shown (see all 20 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 28)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 1 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
--
rs37540481,2
A,C,F,H148508813(-) gccacC/Ggcgct 2 -- ng314Minor allele frequency- G:0.42EU EA WA 408
--
rs22757801,2
C,F,H148507854(+) GAAGGG/TGGGTG 2 -- ut51 ese3 trp39Minor allele frequency- T:0.26EA EU WA 2312
rs22757781,2
F,H148506102(+) ACCAGT/GCCCGA 2 G/G syn15Minor allele frequency- G:0.10EA EU WA 1914
rs96589361,2
H148505612(+) GCCCAG/AAGCCC 2 L/L syn1 ese34Minor allele frequency- A:0.00EU EA WA 420
rs96589391,2
H148505639(+) GCATAG/AATGGG 2 I/I syn14Minor allele frequency- A:0.00EU EA WA 420
--
rs715784711,2
--148509752(+) GCAGT-/GGGCTC 2 -- ng310--------
--
rs347321181,2
--148508559(+) ACAAG-/GAGAAT 2 -- ng310--------
rs115482671,2
--148505323(-) TCTGCA/GCTTAT 2 -- int1 ut310--------
--
rs115482651,2
--148505474(-) AGCCCG/TGGTCC 2 -- int1 ut31 ese30--------
--
rs358008211,2
--148508583(+) AGGAG-/TCCTGG 2 -- ng310--------
About this table

HapMap Linkage Disequilibrium images for APH1A (up to first 250kb)

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

OMIM: 607629

Human Genome Epidemiology Navigator: APH1A (2 documents)

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

  --

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

10/38 PubMed articles for APH1A gene (see all 38 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 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, and/or H-InvDB)
About This Section

Entrez Gene: 51107 HGNC: 29509 AceView: APH-1A Ensembl:ENSG00000117362 euGenes: HUgn51107
ECgene: APH1A H-InvDB: APH1A
(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)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for APH1A:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for APH1A Antibodies for APH1A
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for APH1A Small molecules for APH1A
 "Your Favorite Gene" Pathwaysfeedback


  
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 Drugs for APH1A
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 Antibodies for APH1A

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