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Aliases for SCRN3 Gene

Aliases for SCRN3 Gene

  • Secernin 3 2 3 5
  • Secernin-3 3
  • SES3 3

External Ids for SCRN3 Gene

Previous GeneCards Identifiers for SCRN3 Gene

  • GC02P175464
  • GC02P175085
  • GC02P174968
  • GC02P175260
  • GC02P167140

Summaries for SCRN3 Gene

GeneCards Summary for SCRN3 Gene

SCRN3 (Secernin 3) is a Protein Coding gene. Diseases associated with SCRN3 include Acrodysostosis. Gene Ontology (GO) annotations related to this gene include dipeptidase activity. An important paralog of this gene is SCRN2.

Additional gene information for SCRN3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCRN3 Gene

Genomics for SCRN3 Gene

GeneHancer (GH) Regulatory Elements for SCRN3 Gene

Promoters and enhancers for SCRN3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I174394 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 561.6 +0.0 40 2.7 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B SCRN3 CIR1 GPR155
GH02I174442 Enhancer 0.7 Ensembl ENCODE 12.1 +47.3 47280 1 CTCF SP1 JUND FOSL2 FOS TEAD3 SCRN3 GPR155
GH02I174334 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 4.7 -59.5 -59484 4.2 HDGF PKNOX1 ATF1 ARNT ARID4B SIN3A FEZF1 ZNF48 GLIS2 ZNF202 SP9 LOC102724194 GPR155 SCRN3
GH02I174485 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 0.2 +91.2 91246 2.8 SMAD1 ARNT SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF213 ZNF207 ZNF143 GPR155 LOC105373748 WIPF1 SCRN3
GH02I174462 Enhancer 0.7 ENCODE 0.2 +67.2 67239 0.2 CTCF ZNF654 TEAD4 TRIM22 REST RAD21 CC2D1A ZNF664 ZGPAT ARID2 GPR155 SCRN3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SCRN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SCRN3 gene promoter:

Genomic Locations for SCRN3 Gene

Genomic Locations for SCRN3 Gene
33,847 bases
Plus strand

Genomic View for SCRN3 Gene

Genes around SCRN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCRN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCRN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCRN3 Gene

Proteins for SCRN3 Gene

  • Protein details for SCRN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B4DI11
    • C9JPC1
    • D3DPE0
    • Q7L1C5
    • Q9H5R5

    Protein attributes for SCRN3 Gene

    424 amino acids
    Molecular mass:
    48544 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAY24217.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for SCRN3 Gene


neXtProt entry for SCRN3 Gene

Post-translational modifications for SCRN3 Gene

  • Ubiquitination at posLast=398398
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SCRN3 Gene

Domains & Families for SCRN3 Gene

Gene Families for SCRN3 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for SCRN3 Gene


Suggested Antigen Peptide Sequences for SCRN3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the peptidase C69 family. Secernin subfamily.
  • Belongs to the peptidase C69 family. Secernin subfamily.
genes like me logo Genes that share domains with SCRN3: view

Function for SCRN3 Gene

Phenotypes From GWAS Catalog for SCRN3 Gene

Gene Ontology (GO) - Molecular Function for SCRN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016805 dipeptidase activity IEA --
genes like me logo Genes that share ontologies with SCRN3: view

Phenotypes for SCRN3 Gene

GenomeRNAi human phenotypes for SCRN3:
genes like me logo Genes that share phenotypes with SCRN3: view

Animal Model Products

CRISPR Products

miRNA for SCRN3 Gene

miRTarBase miRNAs that target SCRN3

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SCRN3 Gene

Localization for SCRN3 Gene

Subcellular locations from

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 SCRN3 gene
Compartment Confidence
cytosol 4
cytoskeleton 3
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Vesicles (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for SCRN3 Gene

Pathways & Interactions for SCRN3 Gene

SuperPathways for SCRN3 Gene

No Data Available

Interacting Proteins for SCRN3 Gene

Gene Ontology (GO) - Biological Process for SCRN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006887 exocytosis IBA --
genes like me logo Genes that share ontologies with SCRN3: view

No data available for Pathways by source and SIGNOR curated interactions for SCRN3 Gene

Drugs & Compounds for SCRN3 Gene

No Compound Related Data Available

Transcripts for SCRN3 Gene

Unigene Clusters for SCRN3 Gene

Secernin 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCRN3 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b
SP1: -
SP3: -

Relevant External Links for SCRN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCRN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SCRN3 Gene

Protein differential expression in normal tissues from HIPED for SCRN3 Gene

This gene is overexpressed in Oral epithelium (6.7) and Heart (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SCRN3 Gene

Protein tissue co-expression partners for SCRN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SCRN3 Gene:


SOURCE GeneReport for Unigene cluster for SCRN3 Gene:


Evidence on tissue expression from TISSUES for SCRN3 Gene

  • Nervous system(4.7)
  • Kidney(4.3)
  • Lung(4.3)
genes like me logo Genes that share expression patterns with SCRN3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SCRN3 Gene

Orthologs for SCRN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for SCRN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCRN3 33 34
  • 99.69 (n)
(Canis familiaris)
Mammalia SCRN3 33 34
  • 92.6 (n)
(Bos Taurus)
Mammalia SCRN3 33 34
  • 91.41 (n)
(Rattus norvegicus)
Mammalia Scrn3 33
  • 86.18 (n)
(Mus musculus)
Mammalia Scrn3 33 16 34
  • 84.89 (n)
(Monodelphis domestica)
Mammalia SCRN3 34
  • 75 (a)
(Ornithorhynchus anatinus)
Mammalia SCRN3 34
  • 71 (a)
(Gallus gallus)
Aves SCRN3 33 34
  • 69.83 (n)
(Anolis carolinensis)
Reptilia SCRN3 34
  • 72 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia scrn3 33
  • 67.49 (n)
(Danio rerio)
Actinopterygii scrn3 33 34
  • 61.11 (n)
wufd60b06 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001959 33
  • 45.08 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG10098 33 34
  • 42.35 (n)
Species where no ortholog for SCRN3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SCRN3 Gene

Gene Tree for SCRN3 (if available)
Gene Tree for SCRN3 (if available)

Paralogs for SCRN3 Gene

Paralogs for SCRN3 Gene

(2) SIMAP similar genes for SCRN3 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with SCRN3: view

Variants for SCRN3 Gene

Sequence variations from dbSNP and Humsavar for SCRN3 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000053905 -- 174,396,494(+) G/A 5_prime_UTR_variant, intron_variant
rs1000065902 -- 174,421,665(+) A/G intron_variant
rs1000169259 -- 174,400,618(+) G/A intron_variant
rs1000289039 -- 174,402,799(+) C/A intron_variant
rs1000387836 -- 174,395,386(+) C/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SCRN3 Gene

Variant ID Type Subtype PubMed ID
esv3332152 CNV insertion 20981092
esv3893507 CNV loss 25118596
nsv1150413 CNV duplication 26484159
nsv526187 CNV loss 19592680
nsv583667 CNV loss 21841781

Variation tolerance for SCRN3 Gene

Residual Variation Intolerance Score: 81.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.98; 87.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SCRN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCRN3 Gene

Disorders for SCRN3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SCRN3 Gene - From: GeneCards

Disorder Aliases PubMed IDs
  • acrodysplasia
- elite association - COSMIC cancer census association via MalaCards
Search SCRN3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SCRN3

genes like me logo Genes that share disorders with SCRN3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SCRN3 Gene

Publications for SCRN3 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Purification and identification of secernin, a novel cytosolic protein that regulates exocytosis in mast cells. (PMID: 12221138) Way G … O'Sullivan AJ (Molecular biology of the cell 2002) 2 3 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for SCRN3 Gene

Sources for SCRN3 Gene

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