TMEM39B Gene
protein-coding GIFtS: 44
GCID: GC01P032537
|
|
transmembrane protein 39B
| |
Aliases
for TMEM39B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Transmembrane Protein 39B1 2 | | FLJ103151 |
Export aliases for TMEM39B gene to outside databasesPrevious GC identifers: GC01P032207 GC01P032310 GC01P030655 |
Summaries
for TMEM39B 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 TMEM39B 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_000001.10 NC_018912.1 NT_032977.9
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TMEM39B gene promoter:
RP58 Evi-1 GATA-1 E47 C/EBPalpha CHOP-10 Cart-1 Pax-4a
Other transcription factors
Search SABiosciences Chromatin IP Primers for TMEM39B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TMEM39B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p35.1 Ensembl cytogenetic band: 1p35.1 HGNC cytogenetic band: 1p35.1TMEM39B Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01P032537: view genomic region
(about GC identifiers)
Start:
|
32,537,632 bp from pter |
End:
|
32,568,467 bp from pter |
Size:
|
30,836 bases |
Orientation:
|
plus strand |
|
Proteins
for TMEM39B 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: TM39B_HUMAN, Q9GZU3 (See
protein sequence)Recommended Name: Transmembrane protein 39B Size: 492 amino acids; 56274 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: D3DPP4 Q6IA44Explore the universe of human proteins at neXtProt for TMEM39B: NX_Q9GZU3
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9GZU3
TMEM39B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_060526.2
ENSEMBL proteins: ENSP00000338165 ENSP00000414616 ENSP00000390889 ENSP00000390057 ENSP00000391719 ENSP00000362737
Human Recombinant Protein Products for TMEM39B:
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:0016021 | integral to membrane |
IEA | -- |
TMEM39B for ontologies About GeneDecksing
TMEM39B Antibody Products:
Assay Products for TMEM39B: |
Protein
Domains /
Families
for TMEM39B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TMEM39B for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q9GZU3ProtoNet protein and cluster: Q9GZU3 UniProtKB/Swiss-Prot: TM39B_HUMAN, Q9GZU3Similarity: Belongs to the TMEM39 family |
Function
for TMEM39B 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
|
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 TMEM39B (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TMEM39B
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: TMEM39B (NM_018056) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TMEM39B | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TMEM39B |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TMEM39B |
|
Pathways & Interactions
for TMEM39B 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 TMEM39B
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
3 Interacting proteins for TMEM39B (Q9GZU32, 3 ENSP000003381654) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for TMEM39B 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 TMEM39B
Search CenterWatch for drugs/clinical trials and news about TMEM39B / TM39B
|
Transcripts
for TMEM39B 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 TMEM39B gene: NM_018056.2 Unigene Cluster for TMEM39B: Transmembrane protein 39B Hs.25544 [show with all ESTs]Unigene Representative Sequence: AK09186112 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000487305 ENST00000336294(uc010ogt.1 uc010ogv.2 uc001buf.4 uc010ogw.2)
ENST00000438825 ENST00000441402 ENST00000472503 ENST00000468135 ENST00000466321
ENST00000476968 ENST00000498613 ENST00000456834 ENST00000427288(uc010ogu.1)
ENST00000373634
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TMEM39B (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TMEM39B
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: TMEM39B (NM_018056) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TMEM39B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TMEM39B |
Additional cDNA sequence: AK001177.1 AK023331.1 AK055610.1 AK091861.1 AK296653.1 AK298766.1 AK300293.1 AL136695.1 BC004364.1 CR457311.1 CR533536.1 12 DOTS entries: DT.100769615 DT.314535 DT.95073023 DT.86845893 DT.100022435 DT.97776698 DT.121374101 DT.100795292 DT.121374060 DT.100022432 DT.100795288 DT.121374148 24/171 AceView cDNA sequences (see all 171): BU632256 BM728998 AI193215 CR613764 AA410864 AI961072 AI493474 BE740897 AK023331 AI572700 AI199141 AW014759 BU727879 CR533536 BX106073 AK091861 CR601680 CR590417 AK055610 BM788300 BU509194 BF056483 AI075826 BF195480
GeneLoc Exon Structure
5/16 Alternative Splicing Database (ASD) splice patterns (SP) for TMEM39B (see all 16) About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | · | 2c | · | 2d | · | 2e | · | 2f | · | 2g | · | 2h | ^ | 3 | ^ | 4a | · | 4b | ^ | 5a | · | 5b | · | 5c | · | 5d | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9a | · | 9b | ^ | 10a | · | 10b | · | 10c | ^ | 11a | · | 11b | · |
|---|
|
| SP1: | | | - | | - | | - | | - | | - | | - | | - | | - | | - | | - | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | | - | | - | | - | | - | | - | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | - | | - | | - | | | | - | | | | | | | | - | | - | | | | | | | | | | | | | | | | | |
| ExUns: | 11c | ^ | 12a | · | 12b | ^ | 13 | ^ | 14 |
|---|
|
| SP1: | | | | | | | | | | | |
| SP2: | | | | | | | | | | | |
| SP3: | | | | | | | | | | | |
| SP4: | | | | | | | | | | | |
| SP5: | | | | | | | | | | |
ECgene alternative splicing isoforms for TMEM39B
|
Expression
for TMEM39B 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
| TMEM39B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TGGCCGCAGG
About this image
See TMEM39B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TMEM39B
SOURCE GeneReport for Unigene cluster: Hs.25544
SABiosciences Custom PCR Arrays for TMEM39B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TMEM39B
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TMEM39B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TMEM39B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TMEM39B | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TMEM39B |
Orthologs
for TMEM39B 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 animals.
Orthologs for TMEM39B gene from 6/20 species (see all 20) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
TMEM39B1 |
transmembrane protein 39B |
78.78(n)
86.04(a) |
|
419650 NM_001006313.2 NP_001006313.2 |
lizard
(Anolis carolinensis) |
Reptilia |
TMEM39B6 |
-- |
84(a) |
1 ↔ 1 |
GL343308.1(1442456-1449771) |
African clawed frog
(Xenopus laevis) |
Amphibia |
Xl.47122 |
Xenopus laevis transcribed sequence with weak similarity more |
78.59(n) |
|
CF284300.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
wufi31h122 |
wufi31h12 |
74.89(n) |
|
334110 BC045334.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
CG130166 |
-- |
29(a) |
1 → many |
2R(10045276-10046939) |
worm
(Caenorhabditis elegans) |
Secernentea |
D1007.56 |
Protein D1007.5, isoform a |
24(a) |
1 → many |
I(4580693-4583815) |
ENSEMBL Gene Tree for TMEM39B (if available)
TreeFam Gene Tree for TMEM39B (if available) |
Paralogs
for TMEM39B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TMEM39B gene
- TMEM39A2
1 SIMAP similar gene for TMEM39B using alignment to 8 protein entries: TM39B_HUMAN (see all proteins):TMEM39A
TMEM39B for paralogs About GeneDecksing
|
Genomic Variants
for TMEM39B 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 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TMEM39B (32537632 - 32568467 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for TMEM39B
1 CNV: 63426 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TMEM39B |
|
Disorders
/ Diseases
for TMEM39B 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
| -- |
Publications
for TMEM39B 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 TMEM39B gene integrated from 9 sources:
(articles sorted by number of sources associating them with TMEM39B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (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)
- Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2 Wiemann S.... Poustka A. (2001)
- 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)
- A human protein-protein interaction network: a resource for annotating the proteome. (PubMed id 16169070)1 Stelzl U.... Wanker E.E. (2005)
- Large-scale analysis of the human ubiquitin-related p roteome. (PubMed id 16196087)1 Matsumoto M....Nakayama K.I. (2005)
|
External Searches for TMEM39B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TMEM39B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TMEM39B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TMEM39B 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 TMEM39B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TMEM39B gene:
Search GeneIP for patents involving TMEM39B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TMEM39B 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
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for TMEM39B | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TMEM39B | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TMEM39B | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for TMEM39B | | OriGene 3'-UTR Clone for TMEM39B | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TMEM39B | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TMEM39B | | | 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 | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TMEM39B | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TMEM39B | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TMEM39B | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TMEM39B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TMEM39B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TMEM39B |
| |
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| | | | Search Tocris compounds for TMEM39B |
| |  |  |  |  | | | | |
 |
 |
 |
 | | | TMEM39B Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TMEM39B |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TMEM39B |
| |  | |
|
|
|
