CSDC2 Gene
protein-coding GIFtS : 50
GCID: GC22 P041956
cold shock domain containing C2, RNA binding
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Aliasesfor CSDC2 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 Cold Shock Domain Containing C2, RNA Binding 1 2 RNA-Binding Protein PIPPin2 3 PIPPIN2 3 PIPPin1 Cold Shock Domain-Containing Protein C22 DJ347H13.21
Export aliases for CSDC2 gene to outside databases Previous GC identifers: GC22P040282 GC22P024922
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Summariesfor CSDC2 gene (According to Entrez Gene ,
Tocris Bioscience ,
Wikipedia's
Gene Wiki ,
PharmGKB ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
About This Section UniProtKB/Swiss-Prot: CSDC2_HUMAN, Q9Y534 Function : RNA-binding factor which binds specifically to the very 3'-UTR ends of both histone H1 and H3.3 mRNAs,encompassing the polyadenylation signal. Might play a central role in the negative regulation of histone variant synthesis in the developing brain (By similarity) Gene Wiki entry for CSDC2
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Genomic Viewsfor CSDC2 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_000022.10 NC_018933.1 NT_011520.12 Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the CSDC2 gene promoter: NF-1 RP58 NF-YA NF-YB CBF-A CBF-B Chx10 CP1A NF-Y CBF(2) Other transcription factors Search SABiosciences Chromatin IP Primers for CSDC2 Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CSDC2
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: 22q13.2 Ensembl cytogenetic band: 22q13.2 HGNC cytogenetic band: 22q13.2 CSDC2 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc information about chromosome 22 GeneLoc Exon Structure
GeneLoc location for GC22P041956: view genomic region
(about GC identifiers )
Start:
41,956,767 bp from pter
End:
42,069,998 bp from pter
Size:
113,232 bases
Orientation:
plus strand
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Proteinsfor CSDC2 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: CSDC2_HUMAN, Q9Y534 (See
protein sequence )Recommended Name: Cold shock domain-containing protein C2 Size : 153 amino acids; 16786 Da
Subcellular location : Nucleus (By similarity). Cytoplasm (By similarity). Note=PIPPin-RNA complexes are located to thenucleus (By similarity)
Secondary accessions : Q8ND37Explore the universe of human proteins at neXtProt for CSDC2: NX_Q9Y534 Post-translational modifications:
View modification sites using PhosphoSitePlus 2 View neXtProt modification sites for NX_Q9Y534 CSDC2 Protein expression data from MOPED and PaxDb : About this image
REFSEQ proteins: NP_055275.1 ENSEMBL proteins: ENSP00000302485 ENSP00000417127 ENSP00000417247 Human Recombinant Protein Products: Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view) : About this table
CSDC2 for ontologies About GeneDecksing CSDC2 Antibody Products: Assay Products for CSDC2:
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Protein
Domains / Familiesfor CSDC2 gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
CSDC2 for domains About GeneDecksing 4 InterPro domains/families :
Graphical View of Domain Structure for InterPro Entry Q9Y534 ProtoNet protein and cluster: Q9Y534
2 Blocks protein families : IPB002059 Cold-shock DNA-binding domain IPB011129 Cold shock protein UniProtKB/Swiss-Prot: CSDC2_HUMAN, Q9Y534 Similarity : Contains 1 CSD (cold-shock) domain
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Functionfor CSDC2 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: UniProtKB/Swiss-Prot: CSDC2_HUMAN, Q9Y534 Function : RNA-binding factor which binds specifically to the very 3'-UTR ends of both histone H1 and H3.3 mRNAs,encompassing the polyadenylation signal. Might play a central role in the negative regulation of histone variant synthesis in the developing brain (By similarity)
Clone Products: Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2 (see all 2 ) OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling GenScript: all cDNA clones in your preferred vector: CSDC2 (NM_014460 ) Browse Sino Biological Human cDNA Clones DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CSDC2 Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat CSDC2
In Situ Assay Products: Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CSDC2
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view) : About this table
CSDC2 for ontologies About GeneDecksing 1 GenomeRNAi human phenotype for CSDC2 :
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Pathways & Interactionsfor CSDC2 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: Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CSDC2 STRING Interaction
Network Preview (showing 1 interactants - click image to see more details)5/6 Interacting proteins for CSDC2 (Q9Y534 3 ENSP00000302485 4 ) via UniProtKB, MINT, STRING , and/or I2D (see all 6 )About this table Gene Ontology (GO): 2 biological process terms (GO ID links to tree view) : About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0006355 regulation of transcription, DNA-dependent
IEA -- GO:0006398 histone mRNA 3'-end processing
NAS --
CSDC2 for ontologies About GeneDecksing
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Drugs & Compoundsfor CSDC2 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
CSDC2 for compounds About GeneDecksing Browse Tocris compounds for CSDC2 1 Novoseek chemical compound relationship for CSDC2 gene About this table
Compound
-log (P-Val)
Hits
PubMed IDs for Articles with Shared Sentences (# sentences)
calcium
7.14
2
16515538 (1)
Search CenterWatch for drugs/clinical trials and news about CSDC2
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Transcriptsfor CSDC2 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 CSDC2 gene: NM_014460.3 Unigene Cluster for CSDC2:
Cold shock domain containing C2, RNA binding Hs.310893 [show with all ESTs ] Unigene Representative Sequence: NM_014460 3 Ensembl transcripts including schematic representations, and UCSC links where relevant : ENST00000306149 (uc003bak.1 ) ENST00000460790 ENST00000476443 Clone Products: OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2 (see all 2 ) OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling GenScript: all cDNA clones in your preferred vector: CSDC2 (NM_014460 ) DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CSDC2 Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat CSDC2
Additional cDNA sequence: AB027011.1 AK313407.1 AL834417.1 CR456457.1 U79280.1
9 DOTS entries : DT.314025 DT.100761817
DT.120634388 DT.100772904 DT.100775702 DT.100662278 DT.100762389 DT.91673764 DT.100738075 24/108 AceView cDNA sequences (see all 108 ):
U79280 CR615903 AI475117 AI206210 AA669236 AB027011 BC067113 NM_014460 AA216237 CR606962 T09253 AW957155 CB048005 F10883 CR625281 CR603349 AW295653 CD245024 AA376009 BM680927 BM709895 BX424747 BM725413 AI364099 GeneLoc Exon Structure 2 Alternative Splicing Database (ASD) splice patterns (SP) for CSDC2 About this scheme ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 SP1 :     -         SP2 :            
ECgene alternative splicing isoforms for CSDC2
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Expression for CSDC2 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 CSDC2 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this image BioGPS CGAP TAG: AGGAATAAAG
About this image CSDC2 expression in embryonic tissues and stem cells Expression by the Database of Embryonic development, Stem cell research, and
Regenerative medicine About this table See CSDC2 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for CSDC2 SOURCE GeneReport for Unigene cluster: Hs.310893 SABiosciences Custom PCR Arrays for CSDC2 Primer Products: OriGene genome-wide validated SYBR primer pairs in human , mouse , rat for CSDC2Browse OriGene validated miRNA SYBR primer pairs SABiosciences RT2 qPCR Primer Assay in human , mouse , rat CSDC2 QIAGEN QuantiTect SYBR Green Assays in human , mouse , rat CSDC2 QIAGEN QuantiFast Probe-based Assays in human , mouse , rat CSDC2 In Situ Assay Products: Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CSDC2
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Orthologsfor CSDC2 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 animals.
Orthologs for CSDC2 gene from 4/15 species (see all 15 ) About this table
ENSEMBL Gene Tree for CSDC2 (if available)TreeFam Gene Tree for CSDC2 (if available)
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Paralogsfor CSDC2 gene (Paralogs according to
1 HomoloGene , 2 Ensembl , and 3 SIMAP , Pseudogenes according to 4 Pseudogene.org Build 68)About This Section Paralogs for CSDC2 gene CARHSP1 2 1 SIMAP similar gene for CSDC2 using alignment to 2 protein entries: CSDC2_HUMAN (see all proteins ):CARHSP1
CSDC2 for paralogs About GeneDecksing
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Genomic Variantsfor CSDC2 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 22 pos Sequence # AA Chg Type More # Allele freq Pop Total sample More
HapMap Linkage Disequilibrium report for CSDC2 (41956767 - 42069998 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV): 2 variations for CSDC2 2 CNVs : 50867 50866
SABiosciences Cancer Mutation PCR Assays
QIAGEN SeqTarget long-range PCR primers in human , mouse , rat for resequencing CSDC2
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Disorders
/ Diseasesfor CSDC2 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 .)
About This Section
CSDC2 for disorders About GeneDecksing 2 diseases for CSDC2 : About MalaCards pancreatitis neuronitis Export disorders for CSDC2 gene to outside databases
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Publicationsfor CSDC2 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 CSDC2 gene, integrated from 9 sources (see all 27 ): (articles sorted by number of sources associating them with CSDC2) Utopia : connect your pdf to the dynamic world of online information
PIPPin, a putative RNA-binding protein specifically expressed in the rat brain. (PubMed id 8573167) 1 , 3, 9 Castiglia D....Di Liegro I. (1996) 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. (2004) A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802) 1 , 2 Collins J.E.... Dunham I. (2004) RNA-binding ability of PIPPin requires the entire pro tein. (PubMed id 12767259) 1 , 3 Raimondi L....Di Liegro I. (2003) The DNA sequence of human chromosome 22. (PubMed id 10591208) 1 , 2 Dunham I....O'Brien K.P. (1999) Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348) 1 Barbe L....Andersson-Svahn H. (2008) Systematic identification of SH3 domain-mediated human protein-protein interactions by peptide array target screening. (PubMed id 17474147) 1 Wu C....Li S.S. (2007) The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005) 2 Bechtel S.... Schupp I. (2007) Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560) 1 Kimura K.... Sugano S. (2006) CRHSP-24 phosphorylation is regulated by multiple signaling pathways in pancreatic acinar cells. (PubMed id 12801884) 1 Schafer C....Groblewski G.E. (2003)
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External Searches for CSDC2 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing CSDC2 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 CSDC2 gene
(According to HUGE )
About This Section --
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Specialized Databases showing CSDC2 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 CSDC2 Pharmacogenomics, SNPs, Pathways
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About This Section Patent Information for CSDC2 gene: Search GeneIP for patents involving CSDC2 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor CSDC2 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
Browse OriGene Antibodies OriGene shRNA RFP for CSDC2 OriGene 29mer shRNA kits in GFP-retroviral vector in human , mouse , rat for CSDC2 OriGene genome-wide validated SYBR primer pairs in human , mouse , rat for CSDC2 OriGene Protein Over-expression Lysate for CSDC2 Browse OriGene Fluorogenic Cell Assay Kits OriGene siRNA for CSDC2 OriGene 3'-UTR Clone for CSDC2 OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2 OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for CSDC2 Browse OriGene GFP tagged cDNA clones in CMV expression vector Browse OriGene MicroRNA Expression Plasmids Browse OriGene basic RS shRNAs Browse OriGene validated miRNA SYBR primer pairs OriGene Purified Protein for CSDC2 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling OriGene Custom Antibody Services for CSDC2 OriGene Custom Protein Services for CSDC2 OriGene Custom Immunoassay Development
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat CSDC2 QIAGEN SeqTarget long-range PCR primers in human , mouse , rat for resequencing CSDC2 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CSDC2 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human , mouse , rat CSDC2 QIAGEN QuantiFast Probe-based Assays in human , mouse , rat CSDC2 QIAGEN QuantiTect SYBR Green Assays in human , mouse , rat CSDC2
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CSDC2 Proteins, Antibodies, CLIAs, and ELISAs
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CSDC2
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Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat CSDC2
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Aliases for CSDC2
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Disorders / Diseases for CSDC2
Domains / Families for CSDC2
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Expression for CSDC2
Function for CSDC2
Genomic Views for CSDC2
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Pathways / Interactions for CSDC2
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