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Aliases for RGN Gene

Aliases for RGN Gene

  • Regucalcin 2 3 3 5
  • Gluconolactonase 2 3 4
  • Senescence Marker Protein 30 3 4
  • SMP30 3 4
  • GNL 3 4
  • RC 3 4
  • Regucalcin (Senescence Marker Protein-30) 2
  • Epididymis Secretory Protein Li 41 3
  • Senescence Marker Protein-30 2
  • EC 3.1.1.17 4
  • HEL-S-41 3
  • SMP-30 4

External Ids for RGN Gene

Previous GeneCards Identifiers for RGN Gene

  • GC0XP045740
  • GC0XP045198
  • GC0XP045983
  • GC0XP046695
  • GC0XP046822
  • GC0XP046937
  • GC0XP044651

Summaries for RGN Gene

Entrez Gene Summary for RGN Gene

  • The protein encoded by this gene is a highly conserved, calcium-binding protein, that is preferentially expressed in the liver and kidney. It may have an important role in calcium homeostasis. Studies in rat indicate that this protein may also play a role in aging, as it shows age-associated down-regulation. This gene is part of a gene cluster on chromosome Xp11.3-Xp11.23. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2013]

GeneCards Summary for RGN Gene

RGN (Regucalcin) is a Protein Coding gene. Among its related pathways are Metabolism and Pentose phosphate pathway. GO annotations related to this gene include calcium ion binding and gluconolactonase activity.

UniProtKB/Swiss-Prot for RGN Gene

  • Gluconolactonase with low activity towards other sugar lactones, including gulonolactone and galactonolactone. Can also hydrolyze diisopropyl phosphorofluoridate and phenylacetate (in vitro). Calcium-binding protein. Modulates Ca(2+) signaling, and Ca(2+)-dependent cellular processes and enzyme activities (By similarity).

Gene Wiki entry for RGN Gene

Additional gene information for RGN Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RGN Gene

Genomics for RGN Gene

Regulatory Elements for RGN Gene

Enhancers for RGN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XH047143 1.1 ENCODE 35.6 +66.9 66948 3 PKNOX1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF143 FOS SP3 SP5 RGN INE1 NDUFB11 RBM10
GH0XH047297 0.6 ENCODE 26.3 +219.5 219545 1 ZNF217 SMARCE1 CTBP1 CREB1 FOS CEBPG DPF2 RGN SNORA11C LOC100419232 ENSG00000203402 PIR34305
GH0XH047077 0.9 ENCODE 14.2 +1.5 1527 4 TBP FOXA2 MLX ARID4B RARA YY1 HSF1 CREM MIXL1 THAP11 RGN CHST7 GC0XP047088
GH0XH047321 1 FANTOM5 ENCODE 8 +243.5 243515 1 ATF1 HCFC1 YY2 SIX5 YY1 POLR2A NR2C1 RUNX3 CREM EGR2 SNORA11C LOC100419232 RGN UBA1 CDK16 ELK1 PIR34305 GC0XM047351
GH0XH047315 0.6 ENCODE 5.7 +238.4 238361 2 SCRT1 MXI1 RFX1 RFX3 POLR2A MAX BMI1 INE1 UBA1 SNORA11C LOC100419232 RGN PIR34305 ENSG00000203402
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RGN on UCSC Golden Path with GeneCards custom track

Promoters for RGN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000246380 345 1000 SOX13 TBP SAP130 CEBPG ZNF384 HNF4G NR2F6 CREM CEBPB KAT8

Genomic Location for RGN Gene

Chromosome:
X
Start:
47,078,355 bp from pter
End:
47,093,314 bp from pter
Size:
14,960 bases
Orientation:
Plus strand

Genomic View for RGN Gene

Genes around RGN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for RGN Gene

Proteins for RGN Gene

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

    Protein Symbol:
    Q15493-RGN_HUMAN
    Recommended name:
    Regucalcin
    Protein Accession:
    Q15493
    Secondary Accessions:
    • A4FTW1
    • A8K271
    • Q53FC9
    • Q5JRR5

    Protein attributes for RGN Gene

    Size:
    299 amino acids
    Molecular mass:
    33253 Da
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105; Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Name=Ca(2+); Xref=ChEBI:CHEBI:29108; Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Monomer.

    Three dimensional structures from OCA and Proteopedia for RGN Gene

    Alternative splice isoforms for RGN Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RGN Gene

Post-translational modifications for RGN Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RGN Gene

Domains & Families for RGN Gene

Gene Families for RGN Gene

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

Suggested Antigen Peptide Sequences for RGN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q15493

UniProtKB/Swiss-Prot:

RGN_HUMAN :
  • Belongs to the SMP-30/CGR1 family.
Family:
  • Belongs to the SMP-30/CGR1 family.
genes like me logo Genes that share domains with RGN: view

Function for RGN Gene

Molecular function for RGN Gene

GENATLAS Biochemistry:
rat calcium binding protein (regucalcin) homolog
UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=2.7 mM for gluconolactone (with Zn(2+) as cofactor) {ECO:0000269 PubMed:20329768}; KM=0.6 mM for gluconolactone (with Mn(2+) as cofactor) {ECO:0000269 PubMed:20329768}; KM=1.3 mM for gluconolactone (with Mg(2+) as cofactor) {ECO:0000269 PubMed:20329768}; KM=3.7 mM for gluconolactone (with Ca(2+) as cofactor) {ECO:0000269 PubMed:20329768};
UniProtKB/Swiss-Prot CatalyticActivity:
D-glucono-1,5-lactone + H(2)O = D-gluconate.
UniProtKB/Swiss-Prot Function:
Gluconolactonase with low activity towards other sugar lactones, including gulonolactone and galactonolactone. Can also hydrolyze diisopropyl phosphorofluoridate and phenylacetate (in vitro). Calcium-binding protein. Modulates Ca(2+) signaling, and Ca(2+)-dependent cellular processes and enzyme activities (By similarity).

Enzyme Numbers (IUBMB) for RGN Gene

Gene Ontology (GO) - Molecular Function for RGN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004341 gluconolactonase activity IDA,IEA 20329768
GO:0005509 calcium ion binding TAS,ISS --
GO:0008270 zinc ion binding IDA 20329768
GO:0016787 hydrolase activity IEA --
GO:0030234 enzyme regulator activity IEA --
genes like me logo Genes that share ontologies with RGN: view
genes like me logo Genes that share phenotypes with RGN: view

Animal Models for RGN Gene

MGI Knock Outs for RGN:

Animal Model Products

CRISPR Products

miRNA for RGN Gene

miRTarBase miRNAs that target RGN

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGN
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RGN Gene

Localization for RGN Gene

Subcellular locations from UniProtKB/Swiss-Prot for RGN Gene

Cytoplasm.

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 RGN gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 4
plasma membrane 2
mitochondrion 2
cytoskeleton 1
endoplasmic reticulum 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for RGN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IBA --
GO:0005634 nucleus IEA,ISS --
GO:0005737 cytoplasm ISS --
GO:0005829 cytosol IEA --
genes like me logo Genes that share ontologies with RGN: view

Pathways & Interactions for RGN Gene

genes like me logo Genes that share pathways with RGN: view

Pathways by source for RGN Gene

Gene Ontology (GO) - Biological Process for RGN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001822 kidney development IEA --
GO:0001889 liver development IEA --
GO:0001933 negative regulation of protein phosphorylation IEA --
GO:0006469 negative regulation of protein kinase activity IEA --
GO:0006874 cellular calcium ion homeostasis ISS,IEA --
genes like me logo Genes that share ontologies with RGN: view

No data available for SIGNOR curated interactions for RGN Gene

Drugs & Compounds for RGN Gene

(7) Drugs for RGN Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Citrate Approved Pharma Target, ligand 0
Calcium Phosphate Approved Pharma Target, ligand 0
Gluconic acid Approved Pharma 0
Water Approved Pharma 0
Gluconolactone Experimental Pharma 0

(9) Additional Compounds for RGN Gene - From: HMDB and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
6-Hydroxyhexanoic acid
  • 6-Hydroxyhexanoate
  • 6-Hydroxyhexanoic acid
1191-25-9
epsilon-Caprolactone
Gulonic acid
  • D-Gulonate
  • D-Gulonic acid
  • Gulonate
  • L-Gulonate
  • L-Gulonic acid
20246-53-1
L-Gulonolactone
  • gamma-Gulonolactone
  • L-(+)-Gulono-1,4-lactone
  • L-Gulonic acid gamma-lactone
  • L-Gulono-1,4-lactone
  • L-Gulono-gamma-lactone
1128-23-0
genes like me logo Genes that share compounds with RGN: view

Transcripts for RGN Gene

Unigene Clusters for RGN Gene

Regucalcin (senescence marker protein-30):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGN
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9
SP1: - - - -
SP2: -
SP3: - - - - -
SP4:
SP5:

Relevant External Links for RGN Gene

GeneLoc Exon Structure for
RGN
ECgene alternative splicing isoforms for
RGN

Expression for RGN Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Adrenal Gland (x10.0) and Liver (x8.9).

Protein differential expression in normal tissues from HIPED for RGN Gene

This gene is overexpressed in Liver, secretome (27.1) and Heart (6.3).

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



Protein tissue co-expression partners for RGN Gene

NURSA nuclear receptor signaling pathways regulating expression of RGN Gene:

RGN

SOURCE GeneReport for Unigene cluster for RGN Gene:

Hs.77854

Evidence on tissue expression from TISSUES for RGN Gene

  • Liver(4.8)
  • Nervous system(4.5)
  • Intestine(4.3)
  • Adrenal gland(2.9)
  • Kidney(2.9)
genes like me logo Genes that share expression patterns with RGN: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RGN Gene

Orthologs for RGN Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for RGN Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RGN 33 34
  • 91.19 (n)
dog
(Canis familiaris)
Mammalia RGN 33 34
  • 89.63 (n)
chimpanzee
(Pan troglodytes)
Mammalia RGN 33 34
  • 88.99 (n)
rat
(Rattus norvegicus)
Mammalia Rgn 33
  • 86.85 (n)
mouse
(Mus musculus)
Mammalia Rgn 33 16 34
  • 86.51 (n)
oppossum
(Monodelphis domestica)
Mammalia RGN 34
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RGN 34
  • 60 (a)
OneToOne
chicken
(Gallus gallus)
Aves RGN 33 34
  • 73.47 (n)
lizard
(Anolis carolinensis)
Reptilia RGN 34
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rgn 33
  • 69.23 (n)
Str.11947 33
African clawed frog
(Xenopus laevis)
Amphibia rgn-A 33
zebrafish
(Danio rerio)
Actinopterygii rgn 33 34
  • 65.08 (n)
Dr.27166 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9879 33
fruit fly
(Drosophila melanogaster)
Insecta regucalcin 35 33 34
  • 48.68 (n)
smp-30 34
  • 33 (a)
OneToMany
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F04301g 33
  • 41.91 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YBR053C 33
  • 40.95 (n)
-- 36
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ABL098W 33
  • 39.23 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 48 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU00326 33
  • 44.24 (n)
Species where no ortholog for RGN was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for RGN Gene

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

Paralogs for RGN Gene

No data available for Paralogs for RGN Gene

Variants for RGN Gene

Sequence variations from dbSNP and Humsavar for RGN Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1000470853 -- 47,077,694(+) GAGAC(A/G)AAGTC upstream-variant-2KB
rs1000606111 -- 47,078,119(+) TTGAA(A/G)TAAGA upstream-variant-2KB
rs1000794627 -- 47,085,523(+) AAAAA(A/T)AAAAG intron-variant
rs1001101222 -- 47,085,285(+) AAGGC(C/T)GAGGC intron-variant
rs1001529586 -- 47,079,923(+) CTGTT(A/G)CCCAG intron-variant

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

Variant ID Type Subtype PubMed ID
esv1734378 CNV insertion 17803354
esv3448339 CNV duplication 20981092
nsv1132239 CNV deletion 24896259
nsv508767 CNV insertion 20534489
nsv513604 CNV insertion 21212237

Variation tolerance for RGN Gene

Residual Variation Intolerance Score: 86.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.74; 32.99% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RGN Gene

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

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

Disorders for RGN Gene

Relevant External Links for RGN

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RGN

No disorders were found for RGN Gene.

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

Publications for RGN Gene

  1. Isolation of cDNA clone encoding human homologue of senescence marker protein-30 (SMP30) and its location on the X chromosome. (PMID: 7548213) Fujita T … Maruyama N (Biochimica et biophysica acta 1995) 2 3 4 22 60
  2. Crystal structure of human senescence marker protein 30: insights linking structural, enzymatic, and physiological functions . (PMID: 20329768) Chakraborti S … Bahnson BJ (Biochemistry 2010) 3 4 22 60
  3. Transcript heterogeneity of the human gene for Ca2+-binding protein regucalcin. (PMID: 10677570) Misawa H … Yamaguchi M (International journal of molecular medicine 2000) 3 4 22 60
  4. Structural basis of the γ-lactone-ring formation in ascorbic acid biosynthesis by the senescence marker protein-30/gluconolactonase. (PMID: 23349732) Aizawa S … Senda T (PloS one 2013) 3 4 60
  5. A strategy for the production of soluble human senescence marker protein-30 in Escherichia coli. (PMID: 20152811) Choi MS … Chilukuri N (Biochemical and biophysical research communications 2010) 3 22 60

Products for RGN Gene

Sources for RGN Gene

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