tenascin XA (pseudogene) (Previous name: tenascin XA ) (Previous symbol: TNX )
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Aliasesfor TNXA gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc ,
7 Ensembl ,
8 DME ,
9 miRBase ,
and/or 10 fRNAdb )About This Section Aliases Tenascin XA (Pseudogene) 1 2 TNX1 2 XA1 2 3 Tenascin XA1 D6S103E1 2 TN-XA3 HXBL1 2
Export aliases for TNXA gene to outside databases Previous GC identifers: GC06U990124 GC06M032084 GC06M031977
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Summariesfor TNXA gene (According to Entrez Gene ,
Tocris Bioscience ,
Wikipedia's
Gene Wiki ,
PharmGKB ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
About This Section --
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Genomic Viewsfor TNXA 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 69) ,
Regulatory elements and Epigenetics data according to
QIAGEN ,
SABiosciences , and/or
SwitchGear Genomics )About This Section RefSeq DNA sequence: NC_000006.11 NC_018917.1 NT_007592.15 NT_167245.1 NT_167247.1 NT_167249.1 Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the TNXA gene promoter: CREB Sp1 SREBP-1a p53 AP-1 SREBP-1c SREBP-1b Other transcription factors Search SABiosciences Chromatin IP Primers for TNXA Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TNXA
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: 6p21.3 Ensembl cytogenetic band: 6p21.33 HGNC cytogenetic band: 6p21.3 TNXA 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 GC06M031979: view genomic region
(about GC identifiers )
Start:
31,976,197 bp from pter
End:
31,980,800 bp from pter
Size:
4,604 bases
Orientation:
minus strand
3 alternative locations : Chr 6-,ALT_REF_LOCI_5 31,967,464-31,972,067 Chr 6-,ALT_REF_LOCI_3 31,958,577-31,974,024 Chr 6-,ALT_REF_LOCI_7 31,898,372-31,902,975
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Proteinsfor TNXA gene
(According to
1 UniProtKB ,
HORDE ,
neXtProt ,
Ensembl ,
and/or Reactome ,
Modification sites according to 2 PhosphoSitePlus ,
Specific Peptides from DME ,
Protein expression images according to data from SPIRE MOPED and PaxDb ,
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 , and/or
Uscn ,
Biochemical Assays by
EMD Millipore ,
R&D Systems ,
OriGene ,
GenScript ,
Cell Signaling Technology ,
Enzo Life Sciences , and/or
Uscn ,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene ,
Antibodies by
EMD Millipore ,
R&D Systems ,
GenScript ,
Cell Signaling Technology ,
OriGene ,
Novus Biologicals ,
Thermo Fisher Scientific ,
Abcam , and/or
Uscn )
About This Section UniProtKB/Swiss-Prot: TENXA_HUMAN, Q16473 (See
protein sequence )Recommended Name: Putative tenascin-XA Size : 311 amino acids; 33740 Da
Miscellaneous : TNX genes are located in the class III HLA region within a complex locus, named RCCX module, containinggenes for RP1/STK19, C4B, CYP21B/CYP21A2 and TNXB. Most chromosomes bear 2 modules, but monomodular and trimodular haplotypes are common in most populations. The bimodular haplotype results from the duplication of the RCCX module, leading to a duplicate containing RP2/RP1 pseudogene, C4A, CYP21A/CYP21A1P and TNXA. TNXA is a duplicated section of TNXB and probably consists in a truncated pseudogene: it contains a 120 bp deletion causing a frameshift and a premature stop codon that probably render the gene non-functional. In some pathologies, an unequal crossover between monomodular and bimodular RCCX results in a chromosome with a TNXB-TNXA hybrid gene, arising from a fusion between the TNXB gene of a monomodular RCCX and the TNXA gene of a bimodular RCCX. The TNXB-TNXA hybrid may correspond to TNXB-Short gene and may produce a functional protein
Caution : Could be the product of a pseudogene. TNXA is transcriptionally active in adrenal cortex but no proteinproduct has been observed Explore the universe of human proteins at neXtProt for TNXA: NX_Q16473 TNXA Protein expression data from MOPED and PaxDb : About this image
Human Recombinant Protein Products: Gene Ontology (GO): 1 cellular component term (GO ID links to tree view) : About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0005575 cellular_component
ND --
TNXA for ontologies About GeneDecksing TNXA Antibody Products: Assay Products for TNXA:
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Protein
Domains / Familiesfor TNXA gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
TNXA for domains About GeneDecksing 2 InterPro domains/families :
Graphical View of Domain Structure for InterPro Entry Q16473 ProtoNet protein and cluster: Q16473
UniProtKB/Swiss-Prot: TENXA_HUMAN, Q16473 Similarity : Contains 3 fibronectin type-III domains
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Functionfor TNXA gene
(According to 1 UniProtKB ,
Genatlas ,
LifeMap Discovery™ ,
IUBMB , and/or
2 DME ,
Human phenotypes from GenomeRNAi ,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences ,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene ,
RNAi from
EMD Millipore ,
siRNAs from
OriGene ,
QIAGEN ,
microRNA from QIAGEN ,
Gene Editing from DNA2.0 ,
Clones from EMD Millipore ,
OriGene ,
SwitchGear Genomics ,
GenScript ,
Sino Biological ,
DNA2.0 ,
and Vector BioLabs ,
Cell Lines from GenScript ,
LifeMap BioReagents ,
In Situ Hybridization Assays from Advanced Cell Diagnostics ,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene .)
About This Section Function Summary: Genatlas biochemistry entry for TNXA : tenascin-like XA,homologous to XBS,included in YA and overlapping CYP21P,both in opposite orientation,(see XA) In Situ Assay Products: Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TNXA
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view) : About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0003674 molecular_function
ND --
TNXA for ontologies About GeneDecksing
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Pathways & Interactionsfor TNXA gene
(Pathways according to
EMD Millipore ,
R&D Systems ,
Cell Signaling Technology ,
KEGG ,
PharmGKB ,
BioSystems ,
Reactome ,
Tocris Bioscience ,
GeneGo (Thomson Reuters) ,
QIAGEN ,
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Interaction Networks according to
SABiosciences ,
and/or STRING ,
Interactions according to 1 UniProtKB ,
2 MINT ,
3 I2D , and/or
4 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene) .
About This Section Interactions: SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for TNXA Gene Ontology (GO): 1 biological process term (GO ID links to tree view) : About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0008150 biological_process
ND --
TNXA for ontologies About GeneDecksing
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Drugs & Compoundsfor TNXA gene (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
EMD Millipore , Tocris Bioscience
HMDB ,
BitterDB , and/or
Novoseek , and Drugs according to
DrugBank ,
Enzo Life Sciences , and/or
PharmGKB , with drugs/clinical trials/news
search links to CenterWatch )
About This Section
TNXA for compounds About GeneDecksing Browse Tocris compounds for TNXA 10/33 Novoseek chemical compound relationships for TNXA gene (see all 33 ) About this table
Compound
-log (P-Val)
Hits
PubMed IDs for Articles with Shared Sentences (# sentences)
heparin
84.4
146
11213853 (5), 17896889 (4), 10544915 (4), 15585445 (3) (see all 80 )
fondaparinux
71.7
5
16637459 (1), 17635710 (1), 14760212 (1), 12820819 (1) (see all 5 )
danaparoid
71.6
9
10544915 (2), 12407644 (2), 18349178 (1), 11307819 (1) (see all 5 )
tinzaparin
65.5
2
11255277 (1), 11849226 (1)
nadroparin
62
2
11849226 (2)
protamine
58.4
1
17680178 (1)
hirudin
57.3
2
10715263 (1), 15387708 (1)
gamma-carboxyglutamic acid
55.2
1
9242658 (1)
argatroban
50.7
1
15387708 (1)
fibrinogen
46.3
2
15387708 (1), 11255277 (1)
Search CenterWatch for drugs/clinical trials and news about TNXA
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Transcriptsfor TNXA gene (Secondary structures according to
fRNAdb ,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 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 ,
RNAi Products from
EMD Millipore ,
siRNAs from
OriGene ,
QIAGEN ,
shRNA from
OriGene ,
microRNA from QIAGEN ,
Tagged/untagged cDNA clones from
OriGene ,
SwitchGear Genomics ,
GenScript ,
DNA2.0 ,
Vector BioLabs ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN
)About This Section REFSEQ mRNAs for TNXA gene: NM_007116.1 Unigene Cluster for TNXA:
Tenascin XA (pseudogene) Hs.708061 [show with all ESTs ] Unigene Representative Sequence: NR_001284 1 Ensembl transcript including schematic representation, and UCSC links where relevant : ENST00000507684 (uc021yvf.1 ) Additional cDNA sequence: NR_001284.2
7 DOTS entries : DT.99966274 DT.91940211
DT.102830673 DT.100726147 DT.446229 DT.91753286 DT.121361465 5 AceView cDNA sequences :
CD634052 CD634055 BQ955228 CD629690 CD634057 GeneLoc Exon Structure
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Expression for TNXA 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 GeneDecks ,
in vivo and in vitro expression data from LifeMap Discovery™ ,
plus additional links to
Genevestigator , and/or
SOURCE , and/or
BioGPS , and/or
UniProtKB ,
PCR Arrays from
SABiosciences ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN ,
In Situ Hybridization Assays from Advanced Cell Diagnostics )
About This Section TNXA expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this image BioGPS CGAP TAG: --
About this image TNXA expression in embryonic tissues and stem cells Expression by the Database of Embryonic development, Stem cell research, and
Regenerative medicine About this table 1 LifeMap In Vivo Development Anatomical Compartment/Cell Tissue Anatomical Compartment
Cell Category (developmental path) Heart Epicardium Subepicardial Cells Epicardium Expression: Positive Negative
Selective markerExperimental details:
Curated
Microarrays
In-situ hybridization
See TNXA Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for TNXA SOURCE GeneReport for Unigene cluster: Hs.708061 UniProtKB/Swiss-Prot: TENXA_HUMAN, Q16473 Tissue specificity : Expressed in the adrenal gland SABiosciences Custom PCR Arrays for TNXA Primer Products: OriGene genome-wide validated SYBR primer pairs in human , mouse , rat for TNXABrowse OriGene validated miRNA SYBR primer pairs Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat TNXA Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TNXA QIAGEN QuantiFast Probe-based Assays in human , mouse , rat TNXA In Situ Assay Products: Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TNXA
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Orthologsfor TNXA gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
,
5 MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase ,
and/or
6 Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam )
About This Section
This gene was present in the common ancestor of human and mouse.
Orthologs for TNXA gene from 1 species (see representative species ) About this table
Organism
Taxonomic classification
Gene
Description
Human Similarity
Orthology Type
Details
mouse (Mus musculus)
Mammalia
Tnxa5
tenascin XA (pseudogene)
--
 
17 (18.33 cM) 34771395
ENSEMBL Gene Tree for TNXA (if available)TreeFam Gene Tree for TNXA (if available)
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Paralogsfor TNXA gene (Paralogs according to
1 HomoloGene , 2 Ensembl , and 3 SIMAP , Pseudogenes according to 4 Pseudogene.org Build 68)About This Section --
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Genomic Variantsfor TNXA gene (SNPs/Variants according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE ,
UniProtKB , 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) and the Locus Specific Mutation
Databases (LSDB) , Blood group antigen gene mutations by BGMUT ,
Resequencing Primers from QIAGEN ,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences )
About This Section
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
HapMap Linkage Disequilibrium report for TNXA (31976197 - 31980800 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV): 13 variations for TNXA 13 CNVs : 0599 36512 36511 31278 36507 3602 0600 69404 32785 36509 64474 59325 36510
SABiosciences Cancer Mutation PCR Assays
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Disorders
/ Diseasesfor TNXA gene
(in which this Gene is Involved, According to MalaCards ,
OMIM, UniProtKB ,
the University of Copenhagen DISEASES
database , Novoseek ,
Genatlas , GeneTests ,
GAD ,
HuGE Navigator ,
and/or TGDB .)
About This Section
TNXA for disorders About GeneDecksing 20/32 diseases for TNXA (see all 32 ): About MalaCards disseminated intravascular coagulation heparin-induced thrombocytopenia deep vein thrombosis 21-hydroxylase deficiency glanzmann's thrombasthenia mitral valve prolapse ehlers-danlos syndrome adrenal hyperplasia arterial tortuosity syndrome pulmonary embolism scott syndrome thrombasthenia thrombosis antiphospholipid syndrome juvenile rheumatoid arthritis venous thrombosis hypermobility syndrome thrombophilia thrombocytopenia rheumatoid arthritis 2 diseases from the University of Copenhagen DISEASES database for TNXA :Ehlers-Danlos syndrome Hypermobility syndrome 10/21 Novoseek disease relationships for TNXA gene (see all 21 ) About this table
Disease
-log (P-Val)
Hits
PubMed IDs for Articles with Shared Sentences (# sentences)
scott syndrome
65.6
2
1730083 (1), 9057642 (1)
thrombosis
54.6
4
2251671 (1), 9241747 (1), 17723080 (1), 8857926 (1)
bleeding
54.4
7
15264185 (2), 1317657 (1), 9421696 (1), 16999658 (1) (see all 6 )
thromboembolism
51.3
5
2166971 (1), 9768037 (1), 15585445 (1), 12820819 (1)
arterial thrombosis
50.4
3
11307818 (1), 8857926 (1), 10598121 (1)
thrombophilia
50
1
17635710 (1)
venous thrombosis
46.9
1
7919374 (1)
deep vein thrombosis
40.9
1
11849226 (1)
pulmonary embolism
38.1
1
11849226 (1)
glanzmann thrombasthenia
34.4
1
9057642 (1)
Genetic Association Database (GAD): TNXA Human Genome Epidemiology (HuGE) Navigator: TNXA (2 documents) Export disorders for TNXA gene to outside databases
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Publicationsfor TNXA gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 HMDB ,
7 DrugBank ,
8 UniProtKB/TrEMBL ,
9 Novoseek , and/or
10 fRNAdb )
About This Section PubMed articles for TNXA gene, integrated from 9 sources (see all 221 ): (articles sorted by number of sources associating them with TNXA) Utopia : connect your pdf to the dynamic world of online information
Genetic basis of tobacco smoking: strong association of a specific major histocompatibility complex haplotype on chromosome 6 with smoking behavior. (PubMed id 15339882) 1 , 4 Fust G....Yu C.Y. (2004) An unequal crossover event in RCCX modules of the human MHC resulting in the formation of a TNXB/TNXA hybrid and deletion of the CYP21A. (PubMed id 12121677) 1 , 2 Jaatinen T.... Lokki M.-L. (2002) Mechanism and consequences of the duplication of the human C4/P450c21/gene X locus. (PubMed id 1373808) 1 , 2 Gitelman S.E....Miller W.L. (1992) The complete exon-intron structure of a human complement component C4A gene. DNA sequences, polymorphism, and linkage to the 21- hydroxylase gene. (PubMed id 1988494) 1 , 3 Yu C.Y. (1991) Transcript encoded on the opposite strand of the human steroid 21- hydroxylase/complement component C4 gene locus. (PubMed id 2475872) 1 , 3 Morel Y.... Miller W.L. (1989) An unequal crossover between the RCCX modules of the human MHC leading to the presence of a CYP21B gene and a tenascin TNXB/TNXA-RP2 recombinant between C4A and C4B genes in a patient with juvenile rheumatoid arthritis. (PubMed id 10343159) 1 , 9 Rupert K.L.... Yu C.Y. (1999) Carriership of a defective tenascin-X gene in steroid 21-hydroxylase deficiency patients: TNXB -TNXA hybrids in apparent large-scale gene conversions. (PubMed id 12354783) 2 Koppens P.F....Degenhart H.J. (2002) Sequences promoting the transcription of the human XA gene overlapping P450c21A correctly predict the presence of a novel, adrenal-specific, truncated form of tenascin-X. (PubMed id 8530023) 1 Tee M.K.... Miller W.L. (1995) Structure and genetics of the partially duplicated gene RP located immediately upstream of the complement C4A and the C4B genes in the HLA class III region. Molecular cloning, exon-intron structure, composite retroposon, and breakpoint of gene duplication. (PubMed id 8132574) 1 Liming S.... Yu C. (1994) Unfractionated heparin dose requirements targeting in termediate intensity antifactor Xa concentration during pregnancy. (PubMed id 20334457) 9 Clark N.P....Witt D.M. (2010)
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External Searches for TNXA gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing TNXA gene
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
Kegg ,
and/or
H-InvDB )
About This Section
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Other Databases showing TNXA gene
(According to HUGE )
About This Section --
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Specialized Databases showing TNXA gene (According to PharmGKB ,
ATLAS , HORDE , IMGT , LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
Name Description
PharmGKB entry for TNXA Pharmacogenomics, SNPs, Pathways
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About This Section Patent Information for TNXA gene: Search GeneIP for patents involving TNXA GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor TNXA gene (Antibodies, recombinant proteins, and assays from EMD Millipore , R&D Systems , OriGene , QIAGEN , GenScript , Cell Signaling Technology , SABiosciences , Novus Biologicals , Sino Biological , Enzo Life Sciences , Abcam , ProSpec , Uscn , Thermo Fisher Scientific , Gene Editing from DNA2.0 , Clones from EMD Millipore , OriGene , GenScript , Sino Biological , DNA2.0 , SwitchGear Genomics , Vector BioLabs , Cell lines from GenScript and LifeMap BioReagents , PCR Arrays from SABiosciences , Drugs and/or compounds from EMD Millipore , Tocris Bioscience , and/or
Enzo Life Sciences ), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TNXA Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TNXA QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TNXA QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human , mouse , rat TNXA QIAGEN QuantiFast Probe-based Assays in human , mouse , rat TNXA Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TNXA
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TNXA Proteins, Antibodies, CLIAs, and ELISAs
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TNXA
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Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat TNXA
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Aliases for TNXA
Databases for TNXA
Disorders / Diseases for TNXA
Domains / Families for TNXA
Drugs / Compounds for TNXA
Expression for TNXA
Function for TNXA
Genomic Views for TNXA
Intellectual Property for TNXA
Orthologs for TNXA
Paralogs for TNXA
Pathways / Interactions for TNXA
Products for TNXA
Proteins for TNXA
Publications for TNXA
Search Box for TNXA
Summaries for TNXA
Transcripts for TNXA
Variants for TNXA
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