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Aliases for RCN3 Gene

Aliases for RCN3 Gene

  • Reticulocalbin 3 2 3 5
  • Reticulocalbin 3, EF-Hand Calcium Binding Domain 2 3
  • EF-Hand Calcium-Binding Protein RLP49 3 4
  • Reticulocalbin-3 3
  • Reticulocabin 3
  • RLP49 3

External Ids for RCN3 Gene

Previous GeneCards Identifiers for RCN3 Gene

  • GC19P054706
  • GC19P054722
  • GC19P050030
  • GC19P046407

Summaries for RCN3 Gene

GeneCards Summary for RCN3 Gene

RCN3 (Reticulocalbin 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is RCN1.

Additional gene information for RCN3 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 RCN3 Gene

Genomics for RCN3 Gene

GeneHancer (GH) Regulatory Elements for RCN3 Gene

Promoters and enhancers for RCN3 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
GH19I049527 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 550.8 +0.8 767 2.5 HDAC1 PKNOX1 ATF1 RB1 ARNT ZBTB40 ETS1 ZNF280A POLR2B E2F8 RCN3 FCGRT GC19M049536
GH19I049511 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 14.8 -13.2 -13223 5.7 HDGF PKNOX1 MLX ARID4B SIN3A ZNF48 TCF12 ZNF121 GLIS2 RUNX3 FCGRT PRR12 RCN3 SNORD32A SNORD33 SNORD34 SNORD35A RPL13A PRRG2 NOSIP
GH19I049558 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE dbSUPER 12.9 +33.1 33146 4.3 HDAC1 BCOR TFAP4 ZMYM3 ZNF664 ZFHX2 FOXK2 EGR1 ADNP VEZF1 NOSIP PIR42034 PRR12 RCN3 FCGRT MIR150 RPS11 SNORD35B SNORD35A SNORD34
GH19I049546 Enhancer 1.2 Ensembl ENCODE 16.6 +19.5 19519 1.3 PKNOX1 CLOCK ATF1 FOXA2 ARNT ARID4B SIN3A ZNF213 ARID2 ZNF143 PRR12 RCN3 PIR42034 GC19M049536
GH19I049532 Enhancer 1.1 Ensembl ENCODE 17.1 +6.3 6254 2.3 HDGF PKNOX1 CLOCK ATF1 SIN3A GLIS2 ZNF143 ATF7 KLF13 SP3 GC19M049536 RCN3 FCGRT PRR12
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RCN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RCN3 gene promoter:

Genomic Locations for RCN3 Gene

Genomic Locations for RCN3 Gene
chr19:49,527,579-49,546,962
(GRCh38/hg38)
Size:
19,384 bases
Orientation:
Plus strand
chr19:50,030,875-50,050,219
(GRCh37/hg19)

Genomic View for RCN3 Gene

Genes around RCN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RCN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RCN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RCN3 Gene

Proteins for RCN3 Gene

  • Protein details for RCN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96D15-RCN3_HUMAN
    Recommended name:
    Reticulocalbin-3
    Protein Accession:
    Q96D15
    Secondary Accessions:
    • Q9HBZ8

    Protein attributes for RCN3 Gene

    Size:
    328 amino acids
    Molecular mass:
    37493 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RCN3 Gene

Post-translational modifications for RCN3 Gene

Other Protein References for RCN3 Gene

No data available for DME Specific Peptides for RCN3 Gene

Domains & Families for RCN3 Gene

Gene Families for RCN3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for RCN3 Gene

Suggested Antigen Peptide Sequences for RCN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96D15

UniProtKB/Swiss-Prot:

RCN3_HUMAN :
  • Belongs to the CREC family.
Family:
  • Belongs to the CREC family.
genes like me logo Genes that share domains with RCN3: view

Function for RCN3 Gene

Phenotypes From GWAS Catalog for RCN3 Gene

Gene Ontology (GO) - Molecular Function for RCN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IPI 16189514
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RCN3: view
genes like me logo Genes that share phenotypes with RCN3: view

miRNA for RCN3 Gene

miRTarBase miRNAs that target RCN3

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RCN3 Gene

Localization for RCN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RCN3 Gene

Endoplasmic reticulum lumen.

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 RCN3 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 2
mitochondrion 1
peroxisome 1
lysosome 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for RCN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005788 endoplasmic reticulum lumen IEA --
genes like me logo Genes that share ontologies with RCN3: view

Pathways & Interactions for RCN3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RCN3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RCN3 Gene

Drugs & Compounds for RCN3 Gene

No Compound Related Data Available

Transcripts for RCN3 Gene

mRNA/cDNA for RCN3 Gene

(4) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(9) Selected AceView cDNA sequences:
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RCN3 Gene

Reticulocalbin 3, EF-hand calcium binding domain:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RCN3 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7
SP1:
SP2: -
SP3: -

Relevant External Links for RCN3 Gene

GeneLoc Exon Structure for
RCN3
ECgene alternative splicing isoforms for
RCN3

Expression for RCN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RCN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RCN3 Gene

This gene is overexpressed in Bone marrow stromal cell (56.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RCN3 Gene



Protein tissue co-expression partners for RCN3 Gene

NURSA nuclear receptor signaling pathways regulating expression of RCN3 Gene:

RCN3

SOURCE GeneReport for Unigene cluster for RCN3 Gene:

Hs.567550

Evidence on tissue expression from TISSUES for RCN3 Gene

  • Lung(4.2)
  • Liver(4.1)
  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with RCN3: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RCN3 Gene

Orthologs for RCN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RCN3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RCN3 33 34
  • 98.88 (n)
cow
(Bos Taurus)
Mammalia RCN3 33 34
  • 90.65 (n)
dog
(Canis familiaris)
Mammalia RCN3 33 34
  • 90.45 (n)
mouse
(Mus musculus)
Mammalia Rcn3 33 16 34
  • 87.2 (n)
oppossum
(Monodelphis domestica)
Mammalia RCN3 34
  • 87 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rcn3 33
  • 86.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RCN3 34
  • 66 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RCN3 34
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rcn3 33
  • 63.05 (n)
zebrafish
(Danio rerio)
Actinopterygii rcn3 33 34
  • 60.54 (n)
fruit fly
(Drosophila melanogaster)
Insecta scf 34
  • 44 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea calu-1 34
  • 40 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 45 (a)
ManyToMany
-- 34
  • 41 (a)
ManyToMany
CSA.6945 34
  • 40 (a)
ManyToMany
Species where no ortholog for RCN3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • 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 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)

Evolution for RCN3 Gene

ENSEMBL:
Gene Tree for RCN3 (if available)
TreeFam:
Gene Tree for RCN3 (if available)

Paralogs for RCN3 Gene

Paralogs for RCN3 Gene

(3) SIMAP similar genes for RCN3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with RCN3: view

Variants for RCN3 Gene

Sequence variations from dbSNP and Humsavar for RCN3 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000196721 -- 49,532,378(+) T/G intron_variant
rs1000248030 -- 49,529,403(+) A/G intron_variant
rs1000356116 -- 49,540,893(+) G/A/T intron_variant
rs1000376443 -- 49,535,002(+) C/T intron_variant
rs1000930793 -- 49,539,382(+) A/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RCN3 Gene

Variant ID Type Subtype PubMed ID
nsv1160655 CNV deletion 26073780
nsv478163 CNV novel sequence insertion 20440878
nsv833862 CNV loss 17160897
nsv833863 CNV loss 17160897
nsv9739 CNV gain+loss 18304495

Variation tolerance for RCN3 Gene

Residual Variation Intolerance Score: 85.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.71; 78.66% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RCN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RCN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RCN3 Gene

Disorders for RCN3 Gene

Additional Disease Information for RCN3

No disorders were found for RCN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RCN3 Gene

Publications for RCN3 Gene

  1. A proteomic approach reveals transient association of reticulocalbin-3, a novel member of the CREC family, with the precursor of subtilisin-like proprotein convertase, PACE4. (PMID: 16433634) Tsuji A … Matsuda Y (The Biochemical journal 2006) 3 22 58
  2. 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
  3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58
  4. Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning. (PMID: 10931946) Hu RM … Chen JL (Proceedings of the National Academy of Sciences of the United States of America 2000) 3 4 58
  5. Circulating Reticulocalbin 1 and Reticulocalbin 3 in Systemic Sclerosis Patients: Results of a Case Control Study. (PMID: 27468573) Bălănescu P … Dan GA (Clinical laboratory 2016) 3 58

Products for RCN3 Gene

Sources for RCN3 Gene

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