SCGB1D2 Gene (Protein Coding)

Secretoglobin Family 1D Member 2

GC11P062260
GIFtS:
33
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 counterp... See more...

Aliases for SCGB1D2 Gene

Aliases for SCGB1D2 Gene

  • Secretoglobin Family 1D Member 2 2 3 4 5
  • Prostatein-Like Lipophilin B 2 3
  • Lipophilin-B 3 4
  • LIPB 2 3
  • LPHB 2 3
  • LPNB 3 4
  • Lipophilin B (Uteroglobin Family Member), Prostatein-Like 2
  • SCGB1D2 5
  • LIPHB 4

External Ids for SCGB1D2 Gene

Previous GeneCards Identifiers for SCGB1D2 Gene

  • GC11P064523
  • GC11P063585
  • GC11P061785
  • GC11P061752
  • GC11P061766
  • GC11P062009
  • GC11P058338

Summaries for SCGB1D2 Gene

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 Breast Cancer. An important paralog of this gene is SCGB1D1.

UniProtKB/Swiss-Prot Summary for SCGB1D2 Gene

  • 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

Additional gene information for SCGB1D2 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SCGB1D2 Gene

Genomics for SCGB1D2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for SCGB1D2 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH11J062241 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 250.7 -0.1 -139 1 ZNF217 ZIC2 ZNF341 SIN3A ZNF843 SMC3 TBP SMARCE1 FOXA1 MAZ SCGB1D2 SCGB2A1 NXF1 SNHG1 SCGB2A2 GANAB CPSF7 EML3 TMEM138 MTA2
GH11J062259 Enhancer 0.9 Ensembl 0.4 +18.4 18362 0.8 CEBPA FOXA1 HOMEZ KDM6A THAP11 ZNF511 FOXA2 SMAD4 SAP130 MIER3 ENSG00000254404 TTC9C DAGLA SCGB2A2 SCGB1D2
GH11J062264 Enhancer 0.3 Ensembl 0.3 +22.3 22262 1.4 REST HLF SCGB2A1 ENSG00000254404 HSALNG0084590 SCGB2A2 SCGB1D2
GH11J062247 Enhancer 0.2 Ensembl 0.4 +5.6 5562 0.4 SCGB2A2 ASRGL1 ENSG00000255126 SCGB1A1 MYRF-AS1 MYRF SCGB2A1 SCGB1D2 ENSG00000254404
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SCGB1D2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SCGB1D2

Top Transcription factor binding sites by QIAGEN in the SCGB1D2 gene promoter:
  • NRSF form 1
  • NRSF form 2
  • p53

Genomic Locations for SCGB1D2 Gene

Latest Assembly
chr11:62,242,239-62,244,812
(GRCh38/hg38)
Size:
2,574 bases
Orientation:
Plus strand

Previous Assembly
chr11:62,009,711-62,012,284
(GRCh37/hg19 by Entrez Gene)
Size:
2,574 bases
Orientation:
Plus strand

chr11:62,009,682-62,012,280
(GRCh37/hg19 by Ensembl)
Size:
2,599 bases
Orientation:
Plus strand

Genomic View for SCGB1D2 Gene

Genes around SCGB1D2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCGB1D2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCGB1D2 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SCGB1D2 Gene

Proteins for SCGB1D2 Gene

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  1. Antibodies for research
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  3. Assay products for research

  • Protein details for SCGB1D2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95969-SG1D2_HUMAN
    Recommended name:
    Secretoglobin family 1D member 2
    Protein Accession:
    O95969
    Secondary Accessions:
    • Q2M3N9

    Protein attributes for SCGB1D2 Gene

    Size:
    90 amino acids
    Molecular mass:
    9925 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SCGB1D2 Gene

Protein Expression for SCGB1D2 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SCGB1D2 Gene

No Post-translational modifications

Other Protein References for SCGB1D2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SCGB1D2 Gene

Domains & Families for SCGB1D2 Gene

Gene Families for SCGB1D2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted secreted proteins

Protein Domains for SCGB1D2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SCGB1D2 Gene

GenScript: Design optimal peptide antigens:
  • Lipophilin-B (SG1D2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O95969

UniProtKB/Swiss-Prot:

SG1D2_HUMAN :
  • Belongs to the secretoglobin family. Lipophilin subfamily.
Family:
  • Belongs to the secretoglobin family. Lipophilin subfamily.
genes like me logo Genes that share domains with SCGB1D2: view

Function for SCGB1D2 Gene

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  4. Inhibitory RNAs for research
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  6. Cell Lines for research

Molecular function for SCGB1D2 Gene

UniProtKB/Swiss-Prot 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.

Phenotypes From GWAS Catalog for SCGB1D2 Gene

Phenotypes for SCGB1D2 Gene

GenomeRNAi human phenotypes for SCGB1D2:
genes like me logo Genes that share phenotypes with SCGB1D2: view

Animal Models for research

miRNA for SCGB1D2 Gene

miRTarBase miRNAs that target SCGB1D2

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCGB1D2

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SCGB1D2 Gene

Localization for SCGB1D2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCGB1D2 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SCGB1D2 gene
Compartment Confidence
extracellular 5
plasma membrane 1
cytoskeleton 1
mitochondrion 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for SCGB1D2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space TAS,IBA 21873635
genes like me logo Genes that share ontologies with SCGB1D2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SCGB1D2 Gene

Pathways & Interactions for SCGB1D2 Gene

PathCards logo

SuperPathways for SCGB1D2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCGB1D2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SCGB1D2 Gene

Drugs & Compounds for SCGB1D2 Gene

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No Compound Related Data Available

Transcripts for SCGB1D2 Gene

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mRNA/cDNA for SCGB1D2 Gene

1 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCGB1D2

Alternative Splicing Database (ASD) splice patterns (SP) for SCGB1D2 Gene

No ASD Table

Relevant External Links for SCGB1D2 Gene

GeneLoc Exon Structure for
SCGB1D2

Expression for SCGB1D2 Gene

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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCGB1D2 Gene

mRNA expression in normal human tissues for SCGB1D2 Gene
mRNA expression by GTEx for SCGB1D2 GenemRNA expression by BioGPS for SCGB1D2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Uterus (Reproductive System)

mRNA differential expression in normal tissues according to GTEx for SCGB1D2 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x16.4), Skin - Not Sun Exposed (Suprapubic) (x13.7), Cervix - Endocervix (x8.4), and Breast - Mammary Tissue (x7.6).

Protein differential expression in normal tissues from HIPED for SCGB1D2 Gene

This gene is overexpressed in Cervix (61.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SCGB1D2 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SCGB1D2

SOURCE GeneReport for Unigene cluster for SCGB1D2 Gene:

Hs.204096

mRNA Expression by UniProt/SwissProt for SCGB1D2 Gene:

O95969-SG1D2_HUMAN
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.

Evidence on tissue expression from TISSUES for SCGB1D2 Gene

  • Nervous system(4.2)
  • Skin(2.4)
genes like me logo Genes that share expression patterns with SCGB1D2: view

Primer products for research

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for SCGB1D2 Gene

Orthologs for SCGB1D2 Gene

This gene was present in the common ancestor of mammals.

Orthologs for SCGB1D2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia SCGB1D2 30 31
  • 97.97 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia SCGB1D 30 31
  • 68.89 (n)
 OneToMany
Dog
(Canis familiaris)
 Mammalia -- 31
  • 52 (a)
 ManyToMany
-- 31
  • 51 (a)
 ManyToMany
Species where no ortholog for SCGB1D2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for SCGB1D2 Gene

ENSEMBL:
Gene Tree for SCGB1D2 (if available)
TreeFam:
Gene Tree for SCGB1D2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SCGB1D2: view image

Paralogs for SCGB1D2 Gene

Paralogs for SCGB1D2 Gene

(3) SIMAP similar genes for SCGB1D2 Gene using alignment to 1 proteins:

  • SG1D2_HUMAN
genes like me logo Genes that share paralogs with SCGB1D2: view

Variants for SCGB1D2 Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SCGB1D2 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
rs2232951 Benign: not provided 62,243,467(+) G/A
NM_006551.4(SCGB1D2):c.234G>A (p.Ala78=) 		SYNONYMOUS
rs2232950 - p.Pro53Leu
rs2276427 - p.Val80Ala

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SCGB1D2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Variation tolerance for SCGB1D2 Gene

Residual Variation Intolerance Score: 66.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.27; 62.60% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SCGB1D2 Gene

Human Gene Mutation Database (HGMD)
SCGB1D2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCGB1D2

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SCGB1D2 Gene

Disorders for SCGB1D2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SCGB1D2 Gene - From: COP

Disorder Aliases PubMed IDs
breast cancer
  • breast cancer, familial
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SCGB1D2

Genetic Association Database
(GAD)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with SCGB1D2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SCGB1D2 Gene

Publications for SCGB1D2 Gene

  1. Lipophilins: human peptides homologous to rat prostatein. (PMID: 10066439) Zhao C … Lehrer RI (Biochemical and biophysical research communications 1999) 2 3 4
  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. (PMID: 22155607) Jackson BC … Vasiliou V (Human genomics 2011) 2 3
  3. Mammaglobin and lipophilin B expression in breast tumors and their lack of effect on breast cancer cell proliferation. (PMID: 18630503) Sjödin A … Hedman H (Anticancer research 2008) 3 23
  4. Lipophilin B: A gene preferentially expressed in breast tissue and upregulated in breast cancer. (PMID: 17163411) Culleton J … Duffy MJ (International journal of cancer 2007) 3 23
  5. Secretoglobins in the human pituitary: high expression of lipophilin B and its down-regulation in pituitary adenomas. (PMID: 15668787) Sjödin A … Hedman H (Acta neuropathologica 2005) 3 23

ExternalLinks

View latest publications for SCGB1D2 gene in Mastermind

Products for SCGB1D2 Gene

Sources for SCGB1D2 Gene