RCCD1 Gene
protein-coding GIFtS: 44
GCID: GC15P091498
|
|
RCC1 domain containing 1
| |
Aliases
for RCCD1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| RCC1 Domain Containing 11 2 | | MGC143861 | | RCC1 Domain-Containing Protein 12 |
Export aliases for RCCD1 gene to outside databasesPrevious GC identifers: GC15P089301 GC15P067609 |
Summaries
for RCCD1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for RCCD1 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_000015.9 NC_018926.1 NT_010274.17
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the RCCD1 gene promoter:
ER-alpha RP58 MyoD Lmo2 AP-4 Nkx5-1 E47 C/EBPalpha c-Ets-1 Hand1
Other transcription factors
Search SABiosciences Chromatin IP Primers for RCCD1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RCCD1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 15q26.1 Ensembl cytogenetic band: 15q26.1 HGNC cytogenetic band: 15q26.1RCCD1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 15 GeneLoc Exon Structure GeneLoc location for GC15P091498: view genomic region
(about GC identifiers)
Start:
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91,498,100 bp from pter |
End:
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91,506,355 bp from pter |
Size:
|
8,256 bases |
Orientation:
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plus strand |
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Proteins
for RCCD1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
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: RCCD1_HUMAN, A6NED2 (See
protein sequence)Recommended Name: RCC1 domain-containing protein 1 Size: 376 amino acids; 40079 Da
Secondary accessions: B2RTP9 Q29RX6Explore the universe of human proteins at neXtProt for RCCD1: NX_A6NED2
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_A6NED2
RCCD1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001017919.1 NP_291022.2
ENSEMBL proteins: ENSP00000377801 ENSP00000450678 ENSP00000451963 ENSP00000451365
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
RCCD1 for ontologies About GeneDecksing
RCCD1 Antibody Products:
Assay Products for RCCD1: |
Protein
Domains /
Families
for RCCD1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
RCCD1 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry A6NED2ProtoNet protein and cluster: A6NED2 UniProtKB/Swiss-Prot: RCCD1_HUMAN, A6NED2Similarity: Contains 4 RCC1 repeats |
Function
for RCCD1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
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
|
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 RCCD1 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RCCD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 2): RCCD1 (NM_001017919) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RCCD1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RCCD1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RCCD1 |
|
Pathways & Interactions
for RCCD1 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 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
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 RCCD1
1 Interacting protein for RCCD1 (A6NED23) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for RCCD1 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
|
 Browse Tocris compounds for RCCD1
Search CenterWatch for drugs/clinical trials and news about RCCD1
|
Transcripts
for RCCD1 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 RCCD1 gene (2 alternative transcripts): NM_001017919.1 NM_033544.2 Unigene Cluster for RCCD1: RCC1 domain containing 1 Hs.655895 [show with all ESTs]Unigene Representative Sequence: BC0947399 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000394258(uc002bqj.3 uc002bqk.3 uc010bob.3) ENST00000555155
ENST00000555737 ENST00000556774 ENST00000557266 ENST00000554302 ENST00000556618
ENST00000556333 ENST00000557750
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RCCD1 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RCCD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): RCCD1 (NM_001017919) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RCCD1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RCCD1 |
Additional cDNA sequence: AK092661.1 AL110104.1 AL110105.1 BC064606.1 BC094739.1 BC113826.1 BC140708.1 BC140709.1 9 DOTS entries: DT.91703312 DT.452023 DT.100024918 DT.91713074 DT.75134579 DT.95374737 DT.97797144 DT.97803118 DT.101737 24/152 AceView cDNA sequences (see all 152): BM917281 CR604570 CB142893 BM917058 BI088353 AW969545 AA857657 BM564500 AI476543 BM718771 BU850147 AL527085 CR620421 BX400663 W15269 BC008845 CR614843 BQ574874 BQ690487 BU931663 CR591209 AW196044 AA960978 AA564459
GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for RCCD1 (see all 6) About this scheme
| ExUns: | 1a | · | 1b | ^ | 2 | ^ | 3 | ^ | 4a | · | 4b | ^ | 5 | ^ | 6a | · | 6b | · | 6c | ^ | 7 | ^ | 8 | ^ | 9a | · | 9b | · | 9c |
|---|
|
| SP1: | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for RCCD1
|
Expression
for RCCD1 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
| RCCD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GGGTCTTTTT
About this image
See RCCD1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RCCD1
SOURCE GeneReport for Unigene cluster: Hs.655895
SABiosciences Custom PCR Arrays for RCCD1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RCCD1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat RCCD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RCCD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RCCD1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RCCD1 |
Orthologs
for RCCD1 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)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for RCCD1 gene from 8/17 species (see all 17) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
mouse
(Mus musculus) |
Mammalia |
Rccd11 , 5 |
RCC1 domain containing 11, 5 |
77.27(n)1
74.87(a)1 |
|
7 (45.64 cM)5
2699551 NM_173445.41 NP_775621.21
803165965 |
chicken
(Gallus gallus) |
Aves |
RCCD11 |
RCC1 domain containing 1 |
65.57(n)
61.84(a) |
|
770213 XM_001233547.2 XP_001233548.2 |
lizard
(Anolis carolinensis) |
Reptilia |
RCCD16 |
-- |
59(a) |
1 ↔ 1 |
GL343759.1(37897-45220) |
African clawed frog
(Xenopus laevis) |
Amphibia |
Xl.176852 |
Xenopus laevis transcribed sequence with weak similarity to protein refNP_004658.1 (H.sapiens) hect domain and RLD 2 [Homo sapiens] less |
77.75(n) |
|
BG811194.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
LOC1005365751 |
RCC1 domain-containing protein 1-like |
53.04(n)
44.64(a) |
|
100536575 XM_003201382.1 XP_003201430.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
CG66781 |
CG6678 |
45.4(n)
37.73(a) |
|
42581 NM_142739.2 NP_650996.1 |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
AT5G483306 |
regulator of chromosome condensation repeat-contai... |
10(a) |
1 ↔ 1 |
5(19585936-19587841) |
rice
(Oryza sativa) |
Liliopsida |
-- |
Regulator of chromosome condensation domain contai... |
9(a) |
1 ↔ 1 |
2(5465521-5468118) |
ENSEMBL Gene Tree for RCCD1 (if available)
TreeFam Gene Tree for RCCD1 (if available) |
Paralogs
for RCCD1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for RCCD1 gene
- HERC12 HECTD22 HECTD32 HERC22 HERC32 HERC62 HERC42 UBE3A2
- HERC52
1 SIMAP similar gene for RCCD1 using alignment to 3 protein entries: RCCD1_HUMAN (see all proteins):HERC6
RCCD1 for paralogs About GeneDecksing
|
Genomic Variants
for RCCD1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
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 15 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for RCCD1 (91498100 - 91506355 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for RCCD1
2 CNVs: 49620 4909 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RCCD1 |
|
Disorders
/ Diseases
for RCCD1 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
|
RCCD1 for disorders About GeneDecksing
1  disease for RCCD1: About MalaCardsnephrolithiasis
1 disease from the University of Copenhagen DISEASES database for RCCD1:Nephrolithiasis Export disorders for RCCD1 gene to outside databases
|
Publications
for RCCD1 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)
About This Section
|
PubMed articles for RCCD1 gene, integrated from 9 sources (see all 12):
(articles sorted by number of sources associating them with RCCD1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)1, 2 Zody M.C....Nusbaum C. (2006)
- 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)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
|
External Searches for RCCD1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing RCCD1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing RCCD1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing RCCD1 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 RCCD1 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for RCCD1 gene:
Search GeneIP for patents involving RCCD1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for RCCD1 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 RCCD1 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for RCCD1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RCCD1 | | | OriGene Protein Over-expression Lysate for RCCD1 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for RCCD1 | | OriGene 3'-UTR Clone for RCCD1 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RCCD1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RCCD1 | | | 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 RCCD1 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| |
 |
 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat RCCD1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RCCD1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RCCD1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat RCCD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RCCD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RCCD1 |
| |
 |  |  |  | |
| | | | Search Tocris compounds for RCCD1 |
| |  |  |  |  | | | | |
 |
 |
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 | | | RCCD1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RCCD1 |
|  |  |  | | | | Search ThermoFisher Antibodies for RCCD1 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RCCD1 |
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