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SCGB1D1 Gene

protein-coding   GIFtS: 46
GCID: GC11P061957

Secretoglobin, Family 1D, Member 1

  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 11 2     LPHA2
LPNA2 3 5     lipophilin-A2
Lipophilin A (Uteroglobin Family Member)1 2     Secretoglobin Family 1D Member 12
Prostatein-Like Lipophilin A1 2     LIPHA3
LIPA2     Lipophilin-A3

External Ids:    HGNC: 183951   Entrez Gene: 106482   Ensembl: ENSG000001685157   OMIM: 6150605   UniProtKB: O959683   

Export aliases for SCGB1D1 gene to outside databases

Previous GC identifers: GC11P064471 GC11P063533 GC11P062208 GC11P061733 GC11P061714 GC11P058286


(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 SCGB1D1 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. This gene
product represents one component of a heterodimeric molecule present in human tears whose elution profile is
consistent with prostatein, a tetrameric molecule composed of three peptide components in heterodimers. 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 15, 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 SCGB1D1 Gene:
SCGB1D1 (secretoglobin, family 1D, member 1) is a protein-coding gene. Diseases associated with SCGB1D1 include intracranial hypotension, and patellofemoral pain syndrome. An important paralog of this gene is SCGB1D2.

UniProtKB/Swiss-Prot: SG1D1_HUMAN, O95968
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




(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  NC_018922.2  NT_167190.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SCGB1D1 gene promoter:
         TBP   MEF-2A   NRSF form 1   aMEF-2   NRSF form 2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSCGB1D1 promoter sequence
   Search Chromatin IP Primers for SCGB1D1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SCGB1D1


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

SCGB1D1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCGB1D1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P061957:  view genomic region     (about GC identifiers)

Start:
61,957,688 bp from pter      End:
61,961,011 bp from pter
Size:
3,324 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: SG1D1_HUMAN, O95968 (See protein sequence)
Recommended Name: Secretoglobin family 1D member 1 precursor  
Size: 90 amino acids; 9898 Da
Subunit: Heterodimer of a lipophilin A and a lipophilin C (mammaglobin B) monomer associated head to head
Mass spectrometry: Mass=7574.69; Method=Electrospray; Range=22-90; Source=PubMed:9720917;

Explore the universe of human proteins at neXtProt for SCGB1D1: NX_O95968

Explore proteomics data for SCGB1D1 at MOPED


See SCGB1D1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_006543.1  
ENSEMBL proteins: 
 ENSP00000303070  

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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 O95968

ProtoNet protein and cluster: O95968

UniProtKB/Swiss-Prot: SG1D1_HUMAN, O95968
Similarity: Belongs to the secretoglobin family. Lipophilin subfamily


SCGB1D1 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: SG1D1_HUMAN, O95968
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 Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0046982protein heterodimerization activity IDA9720917
     
SCGB1D1 for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for SCGB1D1:
 Decreased G3BP1 protein expres 

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
SG1D1_HUMAN, O95968: Secreted (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
extracellular4
lysosome1
vacuole1

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005615extracellular space IDA--

SCGB1D1 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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SCGB1D1
Interactions:

    Search GeneGlobe Interaction Network for SCGB1D1

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

1 Interacting protein for SCGB1D1 (O959683 ENSP000003030704) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
SCGB2A1O755563, ENSP000002449304I2D: score=1 STRING: ENSP00000244930
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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
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for SCGB1D1 (SG1D1)



(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 SCGB1D1 gene: 
NM_006552.1  

Unigene Cluster for SCGB1D1:

Secretoglobin, family 1D, member 1
Hs.202686  [show with all ESTs]
Unigene Representative Sequence: CB987582
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000306238(uc001nsz.1)
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Additional mRNA sequence: 

AJ224171.1 BC062693.1 BC069170.1 BC069289.1 

1 DOTS entry:

DT.92037292 

14 AceView cDNA sequences:

CD723001 CA946451 NM_006552 BC069170 AJ224171 BC069289 CK430411 CD722937 
CB956606 CB987851 CB957594 BC062693 CK431208 CB987582 

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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SCGB1D1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AGGCTGTCGG
SCGB1D1 Expression
About this image

SCGB1D1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SCGB1D1 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.202686

UniProtKB/Swiss-Prot: SG1D1_HUMAN, O95968
Tissue specificity: Expressed in lachrymal gland, thymus, kidney, testis, ovary and salivary gland

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In Situ
Assay Products:
 

 
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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 mammals.

Orthologs for SCGB1D1 gene from Selected species (see all 3)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia --
--
Uncharacterized protein
45(a)
44(a)
many ↔ many
many ↔ many
JH373477.1(553-3354)
18(54335351-54338105)


ENSEMBL Gene Tree for SCGB1D1 (if available)
TreeFam Gene Tree for SCGB1D1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for SCGB1D1 gene
SCGB1D22  SCGB1D42  
2 SIMAP similar genes for SCGB1D1 using alignment to 1 protein entry:     SG1D1_HUMAN:
SCGB1D4    SCGB1D2

SCGB1D1 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 SCGB1D1 (see all 158)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs112309721,2
C,F,A--61955940(+) GAGACG/AGGGTT 1 -- us2k14Minor allele frequency- A:0.43NA WA CSA 7
rs1875509021,2
--61955942(+) GACGGC/GGTTTC 1 -- us2k10--------
rs1915403461,2
--61955965(+) AGACTA/GGTCTC 1 -- us2k10--------
rs1382577191,2
--61955995(+) ATCCAC/TCCGCC 1 -- us2k10--------
rs38250331,2
C,F,A--61956010(-) actttA/Gggagg 1 -- us2k14Minor allele frequency- G:0.25NA WA 8
rs1829929901,2
--61956053(+) GCCAGA/TCCTGG 1 -- us2k10--------
rs1158180201,2
C,F--61956150(+) ACAAAC/TGAGAA 1 -- us2k11Minor allele frequency- T:0.01WA 118
rs1875184611,2
--61956199(+) AGCCCA/GTAGAC 1 -- us2k10--------
rs757572941,2
C,F--61956242(+) CCACTG/AGACCT 1 -- us2k11Minor allele frequency- A:0.01NA 120
rs122235481,2
C,F--61956273(+) GCAGAG/AGTGGC 1 -- us2k12Minor allele frequency- A:0.29NA EA 240

HapMap Linkage Disequilibrium report for SCGB1D1 (61957688 - 61961011 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SCGB1D1: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing SCGB1D1
DNA2.0 Custom Variant and Variant Library Synthesis for SCGB1D1

(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: 615060    OMIM disorders: --

6 diseases for SCGB1D1:    
About MalaCards
intracranial hypotension    patellofemoral pain syndrome    paine syndrome    prostate cancer
prostatitis    lung cancer

2 diseases from the University of Copenhagen DISEASES database for SCGB1D1:
Patellofemoral pain syndrome     Intracranial hypotension

SCGB1D1 for disorders           About GeneDecksing

1 Novoseek inferred disease relationship for SCGB1D1 gene    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
tumors 0 1 16120813 (1)

Genetic Association Database (GAD): SCGB1D1

Export disorders for SCGB1D1 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 SCGB1D1 gene, integrated from 10 sources (see all 11):
(articles sorted by number of sources associating them with SCGB1D1)
    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, 9 Zhao C.... Lehrer R.I. (Biochem. Biophys. Res. Commun. 1999)
  2. Lipophilin, a novel heterodimeric protein of human tears. (PubMed id 9720917)1, 2, 3, 9 Lehrer R.I....Glasgow B.J. (FEBS Lett. 1998)
  3. 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)
  4. 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)
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  6. Evaluation of lipophilins as determinants of tumor cell response to estramustine. (PubMed id 16120813)9 Tucker J.M....Tew K.D. (J. Pharmacol. Exp. Ther. 2005)
  7. Dysregulated secretoglobin expression in human lung cancers. (PubMed id 12826312)9 SjAPdin A....Hedman H. (Lung Cancer 2003)
  8. The Neisseria meningitidis capsule is important for intracellular survival in human cells. (PubMed id 17470547)9 Spinosa M.R....Bucci C. (Infect. Immun. 2007)
  9. Immunohistochemical analysis of secretoglobin SCGB 2A1 expression in human ocular glands and tissues. (PubMed id 16395610)9 Stoeckelhuber M....Klug J. (Histochem. Cell Biol. 2006)
  10. Secretoglobin 2A1 is under selective androgen control mediated by a peculiar binding site for Sp family transcription factors. (PubMed id 16020486)9 Xiao F....Klug J. (Mol. Endocrinol. 2005)

(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: 10648 HGNC: 18395 AceView: SCGB1D1 Ensembl:ENSG00000168515 euGenes: HUgn10648
ECgene: SCGB1D1 H-InvDB: SCGB1D1

(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 SCGB1D1 Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for SCGB1D1 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 SCGB1D1 gene:
Search GeneIP for patents involving SCGB1D1

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 SCGB1D1 (SG1D1)
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 Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

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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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