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SCGB1D2 Gene

protein-coding   GIFtS: 48
GCID: GC11P062009

Secretoglobin, Family 1D, Member 2

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Secretoglobin, Family 1D, Member 21 2     LPHB2
LPNB2 3 5     lipophilin-B2
Prostatein-Like Lipophilin B1 2     Secretoglobin Family 1D Member 22
Lipophilin B (Uteroglobin Family Member)1     LIPHB3
prostatein-like1     Lipophilin-B3
LIPB2     

External Ids:    HGNC: 183961   Entrez Gene: 106472   Ensembl: ENSG000001249357   OMIM: 6150615   UniProtKB: O959693   

Export aliases for SCGB1D2 gene to outside databases

Previous GC identifers: GC11P064523 GC11P063585 GC11P062260 GC11P061785 GC11P061752 GC11P061766 GC11P058338


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SCGB1D2 Gene:
The protein encoded by this gene is a member of the lipophilin subfamily, part of the uteroglobin superfamily, and
is an ortholog of prostatein, the major secretory glycoprotein of the rat ventral prostate gland. Lipophilin gene
products are widely expressed in normal tissues, especially in endocrine-responsive organs. Assuming that human
lipophilins are the functional counterparts of prostatein, they may be transcriptionally regulated by steroid
hormones, with the ability to bind androgens, other steroids and possibly bind and concentrate estramustine, a
chemotherapeutic agent widely used for prostate cancer. Although the gene has been reported to be on chromosome
10, this sequence appears to be from a cluster of genes on chromosome 11 that includes mammaglobin 2. (provided
by RefSeq, Jul 2008)

GeneCards Summary for SCGB1D2 Gene:
SCGB1D2 (secretoglobin, family 1D, member 2) is a protein-coding gene. Diseases associated with SCGB1D2 include prostate cancer, and prostatitis. An important paralog of this gene is SCGB1D1.

UniProtKB/Swiss-Prot: SG1D2_HUMAN, O95969
Function: May bind androgens and other steroids, may also bind estramustine, a chemotherapeutic agent used for
prostate cancer. May be under transcriptional regulation of steroid hormones

Gene Wiki entry for SCGB1D2 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000011.10  NT_167190.2  NC_018922.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SCGB1D2 gene promoter:
         p53   NRSF form 1   NRSF form 2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSCGB1D2 promoter sequence
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SCGB1D2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11q13   Ensembl cytogenetic band:  11q12.3   HGNC cytogenetic band: 11q13

SCGB1D2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCGB1D2 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P062009:  view genomic region     (about GC identifiers)

Start:
62,009,682 bp from pter      End:
62,012,280 bp from pter
Size:
2,599 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SG1D2_HUMAN, O95969 (See protein sequence)
Recommended Name: Secretoglobin family 1D member 2 precursor  
Size: 90 amino acids; 9925 Da
Secondary accessions: Q2M3N9

Explore the universe of human proteins at neXtProt for SCGB1D2: NX_O95969

Explore proteomics data for SCGB1D2 at MOPED


See SCGB1D2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_006542.1  
ENSEMBL proteins: 
 ENSP00000244926  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
SCGB: Secretoglobins

1 InterPro protein domain:
 IPR016126 Secretoglobin

Graphical View of Domain Structure for InterPro Entry O95969

ProtoNet protein and cluster: O95969

UniProtKB/Swiss-Prot: SG1D2_HUMAN, O95969
Similarity: Belongs to the secretoglobin family. Lipophilin subfamily


SCGB1D2 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: SG1D2_HUMAN, O95969
Function: May bind androgens and other steroids, may also bind estramustine, a chemotherapeutic agent used for
prostate cancer. May be under transcriptional regulation of steroid hormones

Animal Models:

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
SG1D2_HUMAN, O95969: Secreted (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
extracellular4
cytosol1
mitochondrion1
nucleus1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005615extracellular space TAS10066439

SCGB1D2 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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Interactions:

    Search GeneGlobe Interaction Network for SCGB1D2

STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

1 Interacting protein for SCGB1D2 (O959693 ENSP000002449264) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
SCGB2A2Q132963, ENSP000002279184I2D: score=1 STRING: ENSP00000227918
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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
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  Browse compounds at ApexBio 

Browse Tocris compounds for SCGB1D2 (SG1D2)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for SCGB1D2 gene: 
NM_006551.3  

Unigene Cluster for SCGB1D2:

Secretoglobin, family 1D, member 2
Hs.204096  [show with all ESTs]
Unigene Representative Sequence: BP314377
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000244926(uc001ntb.3)
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Additional mRNA sequence: 

AJ224172.1 BC069290.1 BC104838.1 BC104840.1 

1 DOTS entry:

DT.431557 

13 AceView cDNA sequences:

BC069290 AA299023 AW103293 AA335579 AW105433 AW105434 AW015055 AL708956 
NM_006551 AJ224172 BF591743 AA299198 AW105483 

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SCGB1D2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: TAAAAACTTT
SCGB1D2 Expression
About this image

SCGB1D2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SCGB1D2 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.204096

UniProtKB/Swiss-Prot: SG1D2_HUMAN, O95969
Tissue specificity: Highest expression was found in skeletal muscle. Expressed as well in thymus, trachea, kidney,
steroid responsive tissues (prostate, testis, uterus, breast and ovary) and salivary gland

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In Situ
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(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)
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This gene was present in the common ancestor of human and mouse.

Orthologs for SCGB1D2 gene from Selected species (see all 3)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia 195 predicted gene 9749   --   N/A -


ENSEMBL Gene Tree for SCGB1D2 (if available)
TreeFam Gene Tree for SCGB1D2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for SCGB1D2 gene
SCGB1D12  SCGB1D42  
3 SIMAP similar genes for SCGB1D2 using alignment to 1 protein entry:     SG1D2_HUMAN:
SCGB1D4    SCGB1D1    SCGB1C1

SCGB1D2 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SCGB1D2 (see all 142)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs361880551,2
--62007773(+) AGCTCC/TTGGAT 1 -- us2k10--------
rs1900552351,2
--62007780(+) GGATTC/TGTTGA 1 -- us2k10--------
rs1815107001,2
--62007781(+) GATTCA/GTTGAT 1 -- us2k10--------
rs1860044171,2
C--62007937(+) TCCTGC/GTTTCT 1 -- us2k10--------
rs1895992561,2
--62007952(+) TGGGCA/GTTAAA 1 -- us2k10--------
rs79399771,2
C,H--62008017(+) atacgC/Taaatc 1 -- us2k1 tfbs36Minor allele frequency- T:0.00NA CSA 10
rs1118728311,2
C--62008057(+) CAATG-/AAAAAA 1 -- us2k11Minor allele frequency- A:0.50CSA 2
rs1818976221,2
--62008104(+) AAGTCA/GGTGTG 1 -- us2k10--------
rs1861294521,2
--62008155(+) CCAGCA/GATCCC 1 -- us2k10--------
rs1908365611,2
--62008207(+) ATAAAC/GACGCA 1 -- us2k10--------

HapMap Linkage Disequilibrium report for SCGB1D2 (62009682 - 62012280 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SCGB1D2: --
Human Gene Mutation Database (HGMD): SCGB1D2
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing SCGB1D2
DNA2.0 Custom Variant and Variant Library Synthesis for SCGB1D2

(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.)
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OMIM gene information: 615061    OMIM disorders: --

5 diseases for SCGB1D2:    
About MalaCards
prostate cancer    prostatitis    pituitary adenoma    adenoma
breast cancer


SCGB1D2 for disorders           About GeneDecksing

4 Novoseek inferred disease relationships for SCGB1D2 gene    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
breast cancer 47.4 10 18630503 (3), 16603086 (2), 12576445 (1), 12022875 (1) (see all 5)
breast carcinoma 43 1 18630503 (1)
tumors 24.1 11 16603086 (3), 18630503 (3), 15668787 (1), 16120813 (1) (see all 5)
cancer 3.79 1 16603086 (1)

Genetic Association Database (GAD): SCGB1D2

Export disorders for SCGB1D2 gene to outside databases

(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)
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PubMed articles for SCGB1D2 gene, integrated from 10 sources (see all 20):
(articles sorted by number of sources associating them with SCGB1D2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Lipophilins: human peptides homologous to rat prostatein. (PubMed id 10066439)1, 2, 3 Zhao C.... Lehrer R.I. (Biochem. Biophys. Res. Commun. 1999)
  2. Update of the human secretoglobin (SCGB) gene superfamily and an example of 'evolutionary bloom' of androgen-binding protein genes within the mouse Scgb gene superfamily. (PubMed id 22155607)1, 3 Jackson B.C....Vasiliou V. (Hum. Genomics 2011)
  3. 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. (Genome Res. 2004)
  4. Lipophilin, a novel heterodimeric protein of human tears. (PubMed id 9720917)1, 3 Lehrer R.I....Glasgow B.J. (FEBS Lett. 1998)
  5. Mammaglobin and lipophilin B expression in breast tumors and their lack of effect on breast cancer cell proliferation. (PubMed id 18630503)1, 9 SjAPdin A....Hedman H. (Anticancer Res. 2008)
  6. Secretoglobins in the human pituitary: high expression of lipophilin B and its down-regulation in pituitary adenomas. (PubMed id 15668787)1, 9 SjAPdin A....Hedman H. (Acta Neuropathol. 2005)
  7. Serum antibodies to lipophilin B detected in late stage breast cancer patients. (PubMed id 12576445)1, 9 Carter D....Houghton R.L. (Clin. Cancer Res. 2003)
  8. Purification and characterization of the mammaglobin/lipophilin B complex, a promising diagnostic marker for breast cancer. (PubMed id 12022875)1, 9 Carter D....Vedvick T.S. (Biochemistry 2002)
  9. Lipophilin B: A gene preferentially expressed in breast tissue and upregulated in breast cancer. (PubMed id 17163411)1, 9 Culleton J....Duffy M.J. (Int. J. Cancer 2007)
  10. Secretoglobin expression in ovarian carcinoma: lipophilin B gene upregulation as an independent marker of better prognosis. (PubMed id 23819652)1 Bignotti E....Santin A.D. (J Transl Med 2013)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 10647 HGNC: 18396 AceView: SCGB1D2 Ensembl:ENSG00000124935 euGenes: HUgn10647
ECgene: SCGB1D2 H-InvDB: SCGB1D2

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SCGB1D2 Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for SCGB1D2 Genetics and Cytogenetics in Oncology and Haematology

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SCGB1D2 gene:
Search GeneIP for patents involving SCGB1D2

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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 Search Tocris compounds for SCGB1D2 (SG1D2)
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 Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

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 Browse ESI BIO Cell Lines and PureStem Progenitors for SCGB1D2
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 SwitchGear 3'UTR luciferase reporter plasmids for SCGB1D2
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 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCGB1D2
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SCGB1D2
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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