TRAPPC6B Gene
protein-coding GIFtS: 50
GCID: GC14M039617
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|
trafficking protein particle complex 6B
| |
Aliases
for TRAPPC6B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Trafficking Protein Particle Complex 6B1 2 | | TPC62 | | Trafficking Protein Particle Complex Subunit 6B2 |
Export aliases for TRAPPC6B gene to outside databasesPrevious GC identifers: GC14M037607 GC14M038686 GC14M019731 |
Summaries
for TRAPPC6B gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for TRAPPC6B:
TRAPPC6B is a component of TRAPP complexes, which are tethering complexes involved in vesicle transport (Kummel et al.,2005 (PubMed 16025134)).(supplied by OMIM, Mar 2008)
UniProtKB/Swiss-Prot: TPC6B_HUMAN, Q86SZ2Function: May play a role in vesicular transport from endoplasmic reticulum to Golgi (By similarity)
|
Genomic Views
for TRAPPC6B 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_000014.8 NC_018925.1 NT_026437.12
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TRAPPC6B gene promoter:
POU2F2 (Oct-2.1) Oct-B1 oct-B3 oct-B2 POU2F2 POU2F2C POU2F1 POU2F1a POU2F2B
Other transcription factors
Search SABiosciences Chromatin IP Primers for TRAPPC6B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRAPPC6B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 14q21.1 Ensembl cytogenetic band: 14q21.1 HGNC cytogenetic band: 14q13.3TRAPPC6B Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 14 GeneLoc Exon Structure GeneLoc location for GC14M039617: view genomic region
(about GC identifiers)
Start:
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39,617,015 bp from pter |
End:
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39,639,736 bp from pter |
Size:
|
22,722 bases |
Orientation:
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minus strand |
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Proteins
for TRAPPC6B 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: TPC6B_HUMAN, Q86SZ2 (See
protein sequence)Recommended Name: Trafficking protein particle complex subunit 6B Size: 158 amino acids; 17983 Da
Subunit: Part of the multisubunit TRAPP (transport protein particle) complex. Homodimer. Heterodimer with TRAPPC3
Subcellular location: Golgi apparatus, cis-Golgi network (By similarity). Endoplasmic reticulum (By similarity)
Sequence caution: Sequence=CAD62341.1; Type=Erroneous initiation;
3 PDB 3D structures from  and Proteopedia  for TRAPPC6B:2BJN (3D)
2CFH (3D)
3KXC (3D)
Secondary accessions: B3KPS2 Q5JPD6 Q86U35 Q86X35Alternative splicing: 2 isoforms: Q86SZ2-1 Q86SZ2-2 Explore the universe of human proteins at neXtProt for TRAPPC6B: NX_Q86SZ2
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q86SZ2
TRAPPC6B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001073005.1 NP_803235.1
ENSEMBL proteins: ENSP00000330289 ENSP00000335171 ENSP00000452236 ENSP00000450670 ENSP00000451711
Human Recombinant Protein Products for TRAPPC6B:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005783 | endoplasmic reticulum |
IEA | -- | | GO:0005794 | Golgi apparatus |
IEA | -- |
TRAPPC6B for ontologies About GeneDecksing
TRAPPC6B Antibody Products:
Assay Products for TRAPPC6B: |
Protein
Domains /
Families
for TRAPPC6B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TRAPPC6B for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q86SZ2ProtoNet protein and cluster: Q86SZ2 1 Blocks protein family: IPB007194 Transport protein particle (TRAPP) component
UniProtKB/Swiss-Prot: TPC6B_HUMAN, Q86SZ2Similarity: Belongs to the TRAPP small subunits family. BET3 subfamily |
Function
for TRAPPC6B gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/Swiss-Prot Summary: TPC6B_HUMAN, Q86SZ2Function: May play a role in vesicular transport from endoplasmic reticulum to Golgi (By similarity)Phenotypes:
1 GenomeRNAi human phenotype for TRAPPC6B:
Animal Models:
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 TRAPPC6B (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRAPPC6B (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): TRAPPC6B (NM_001079537) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRAPPC6B | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRAPPC6B |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRAPPC6B |
|
Pathways & Interactions
for TRAPPC6B 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 TRAPPC6B
STRING Interaction
Network Preview (showing 5 interactants - click image to see 12)
5/23 Interacting proteins for TRAPPC6B (Q86SZ22, 3 ENSP000003302894) via UniProtKB, MINT, STRING, and/or I2D (see all 23)About this table
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:0016192 | vesicle-mediated transport |
IEA | -- |
TRAPPC6B for ontologies About GeneDecksing
|
Drugs & Compounds
for TRAPPC6B 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 TRAPPC6B
1 DrugBank Compound for TRAPPC6B About this table
Search CenterWatch for drugs/clinical trials and news about TRAPPC6B / TPC6B
|
Transcripts
for TRAPPC6B 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,
Sirion Biotech,
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 TRAPPC6B gene (2 alternative transcripts): NM_001079537.1 NM_177452.3 Unigene Cluster for TRAPPC6B: Trafficking protein particle complex 6B Hs.13303 [show with all ESTs]Unigene Representative Sequence: NM_0010795377 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000469361(uc001wut.1 uc001wuu.1 uc001wuv.1 uc010tqd.1)
ENST00000330149 ENST00000347691 ENST00000557764 ENST00000555269 ENST00000554018
ENST00000556765
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRAPPC6B (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRAPPC6B (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): TRAPPC6B (NM_001079537) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRAPPC6B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRAPPC6B |
Additional cDNA sequence: AK025437.1 AK056690.1 AK294339.1 AK310730.1 AK315900.1 AL833179.1 BC047328.1 BX161510.1 BX248013.1 8 DOTS entries: DT.451669 DT.100790168 DT.92425367 DT.75171886 DT.100773795 DT.120757479 DT.120757494 DT.40122444 24/150 AceView cDNA sequences (see all 150): AA625846 AI567135 AI521496 BM468117 BU626821 T32517 BU735689 AW118812 CD676093 AI129609 AI216550 AA911836 AA782655 AA927711 W49617 BF434452 NM_177452 AA504210 AK025437 CA422147 AI378461 AI378472 AL833179 CR614282
GeneLoc Exon Structure
5 Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC6B About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2a | · | 2b | ^ | 3a | · | 3b | ^ | 4a | · | 4b | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b |
|---|
|
| SP1: | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | - | | - | | | | - | | | | | | - | | - | | | | | | | | |
| SP3: | | | | | | | - | | - | | | | - | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | - | | | | | | - | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for TRAPPC6B
|
Expression
for TRAPPC6B 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
| TRAPPC6B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AAAGGACAAG
About this image
See TRAPPC6B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TRAPPC6B
SOURCE GeneReport for Unigene cluster: Hs.13303
SABiosciences Custom PCR Arrays for TRAPPC6B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRAPPC6B
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TRAPPC6B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRAPPC6B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRAPPC6B | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRAPPC6B |
Orthologs
for TRAPPC6B 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 TRAPPC6B gene from 8/32 species (see all 32) About this table
ENSEMBL Gene Tree for TRAPPC6B (if available)
TreeFam Gene Tree for TRAPPC6B (if available) |
Paralogs
for TRAPPC6B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TRAPPC6B gene
- TRAPPC6A2
1 SIMAP similar gene for TRAPPC6B using alignment to 5 protein entries: TPC6B_HUMAN (see all proteins):TRAPPC6A
TRAPPC6B for paralogs About GeneDecksing
|
Genomic Variants
for TRAPPC6B 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 14 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TRAPPC6B (39617015 - 39639736 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for TRAPPC6B
2 CNVs: 5740 66627 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRAPPC6B |
|
Disorders
/ Diseases
for TRAPPC6B 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
|
TRAPPC6B for disorders About GeneDecksing
OMIM gene information: 610397
OMIM disorders: --
1  disease for TRAPPC6B: About MalaCardsmalaria
Export disorders for TRAPPC6B gene to outside databases
|
Publications
for TRAPPC6B 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 TRAPPC6B gene, integrated from 9 sources (see all 13):
(articles sorted by number of sources associating them with TRAPPC6B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The structure of the TRAPP subunit TPC6 suggests a model for a TRAPP subcomplex. (PubMed id 16025134)1, 2 Kuemmel D....Heinemann U. (2005)
- 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)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (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)
- C4orf41 and TTC-15 are mammalian TRAPP components wit h a role at an early stage in ER-to-Golgi trafficking. (PubMed id 21525244)1 Scrivens P.J....Sacher M. (2011)
- hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
- A mouse TRAPP-related protein is involved in pigmentation. (PubMed id 16697553)1 Gwynn B....Peters L.L. (2006)
|
External Searches for TRAPPC6B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TRAPPC6B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TRAPPC6B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TRAPPC6B 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 TRAPPC6B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TRAPPC6B gene:
Search GeneIP for patents involving TRAPPC6B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TRAPPC6B 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 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, 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, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TRAPPC6B | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRAPPC6B | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRAPPC6B | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRAPPC6B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRAPPC6B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRAPPC6B |
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 | | | TRAPPC6B Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRAPPC6B |
|  |  |  |  | | | | Search ThermoFisher Antibodies for TRAPPC6B |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRAPPC6B |
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