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Aliases for ISYNA1 Gene

Aliases for ISYNA1 Gene

  • Inositol-3-Phosphate Synthase 1 2 3 5
  • Myo-Inositol 1-Phosphate Synthase A1 3 4
  • Myo-Inositol 1-Phosphate Synthase 2 4
  • MI-1-P Synthase 3 4
  • MIP Synthase 3 4
  • EC 4 56
  • IPS 1 3 4
  • INO1 3 4
  • Testis Secretory Sperm-Binding Protein Li 200a 3
  • IPS-1 3
  • HINO1 4
  • INOS 3
  • HIPS 4
  • IPS 3

External Ids for ISYNA1 Gene

Previous GeneCards Identifiers for ISYNA1 Gene

  • GC19M019039
  • GC19M018937
  • GC19M018390
  • GC19M018545
  • GC19M018108

Summaries for ISYNA1 Gene

Entrez Gene Summary for ISYNA1 Gene

  • This gene encodes an inositol-3-phosphate synthase enzyme. The encoded protein plays a critical role in the myo-inositol biosynthesis pathway by catalyzing the rate-limiting conversion of glucose 6-phosphate to myoinositol 1-phosphate. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the short arm of chromosome 4. [provided by RefSeq, Nov 2011]

GeneCards Summary for ISYNA1 Gene

ISYNA1 (Inositol-3-Phosphate Synthase 1) is a Protein Coding gene. Diseases associated with ISYNA1 include Fungal Meningitis and Whipple Disease. Among its related pathways are Metabolism and Inositol phosphate metabolism (REACTOME). Gene Ontology (GO) annotations related to this gene include inositol-3-phosphate synthase activity.

UniProtKB/Swiss-Prot for ISYNA1 Gene

  • Key enzyme in myo-inositol biosynthesis pathway that catalyzes the conversion of glucose 6-phosphate to 1-myo-inositol 1-phosphate in a NAD-dependent manner. Rate-limiting enzyme in the synthesis of all inositol-containing compounds.

Additional gene information for ISYNA1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ISYNA1 Gene

Genomics for ISYNA1 Gene

GeneHancer (GH) Regulatory Elements for ISYNA1 Gene

Promoters and enhancers for ISYNA1 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
GH19I018436 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 550.8 -1.2 -1201 6.5 HDGF PKNOX1 ZFP64 SIN3A FEZF1 ZNF2 ZBTB7B ZNF766 ZNF213 E2F8 ENSG00000268199 ISYNA1 ENSG00000268030 NR2C2AP IQCN ENSG00000268938 UPF1 MEF2B SSBP4 KXD1
GH19I018414 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 2.3 +19.6 19606 9.2 SLC30A9 ZNF143 ZNF548 ZNF263 SP3 MEF2D SSRP1 ZNF610 GLIS1 RCOR2 SSBP4 NR2C2AP ENSG00000268030 UPF1 COLGALT1 MAU2 ENSG00000268938 IQCN ENSG00000269191 TMEM161A
GH19I018431 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 0.8 +4.9 4876 2.9 HDGF HNRNPUL1 PKNOX1 SIN3A ZNF2 YY1 ZNF207 ZNF143 KLF13 SP3 PIR44614 GC19M018436 NR2C2AP ENSG00000268030 UPF1 SSBP4 COLGALT1 ENSG00000268938 ENSG00000269191 MAU2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ISYNA1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ISYNA1 gene promoter:

Genomic Locations for ISYNA1 Gene

Genomic Locations for ISYNA1 Gene
3,914 bases
Minus strand

Genomic View for ISYNA1 Gene

Genes around ISYNA1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ISYNA1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ISYNA1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ISYNA1 Gene

Proteins for ISYNA1 Gene

  • Protein details for ISYNA1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Inositol-3-phosphate synthase 1
    Protein Accession:
    Secondary Accessions:
    • B3KRT1
    • G5E9U0
    • Q6NXT5
    • Q7Z525
    • Q9BT65
    • Q9H2Y2
    • Q9NSU0
    • Q9NVW7

    Protein attributes for ISYNA1 Gene

    558 amino acids
    Molecular mass:
    61068 Da
    Name=NAD(+); Xref=ChEBI:CHEBI:57540;
    Quaternary structure:
    No Data Available
    • Sequence=AAP97151.1; Type=Frameshift; Positions=82, 85, 496; Evidence={ECO:0000305};

    Alternative splice isoforms for ISYNA1 Gene


neXtProt entry for ISYNA1 Gene

Selected DME Specific Peptides for ISYNA1 Gene


Post-translational modifications for ISYNA1 Gene

  • Ubiquitination at posLast=155155, isoforms=2, 3222, and posLast=312312
  • Modification sites at PhosphoSitePlus

Domains & Families for ISYNA1 Gene

Gene Families for ISYNA1 Gene

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

Suggested Antigen Peptide Sequences for ISYNA1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the myo-inositol 1-phosphate synthase family.
  • Belongs to the myo-inositol 1-phosphate synthase family.
genes like me logo Genes that share domains with ISYNA1: view

Function for ISYNA1 Gene

Molecular function for ISYNA1 Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=0.57 mM for 6-phosphate {ECO:0000269 PubMed:15024000}; KM=8 uM for NAD {ECO:0000269 PubMed:15024000}; pH dependence: Optimum pH is 8.0. {ECO:0000269 PubMed:15024000};
UniProtKB/Swiss-Prot CatalyticActivity:
D-glucose 6-phosphate = 1D-myo-inositol 3-phosphate.
UniProtKB/Swiss-Prot EnzymeRegulation:
Inhibited by mood-stabilizing drugs such as valproate (VPA) and lithium.
UniProtKB/Swiss-Prot Function:
Key enzyme in myo-inositol biosynthesis pathway that catalyzes the conversion of glucose 6-phosphate to 1-myo-inositol 1-phosphate in a NAD-dependent manner. Rate-limiting enzyme in the synthesis of all inositol-containing compounds.
UniProtKB/Swiss-Prot Induction:
By glucose and lovastain. Up-regulation is prevented by mevalonic acid, farnesol, and geranylgeraniol. Up-regulated by E2F1.

Enzyme Numbers (IUBMB) for ISYNA1 Gene

Phenotypes From GWAS Catalog for ISYNA1 Gene

Gene Ontology (GO) - Molecular Function for ISYNA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004512 inositol-3-phosphate synthase activity TAS --
GO:0005515 protein binding IPI 21044950
GO:0016853 isomerase activity IEA --
genes like me logo Genes that share ontologies with ISYNA1: view
genes like me logo Genes that share phenotypes with ISYNA1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for ISYNA1

miRNA for ISYNA1 Gene

miRTarBase miRNAs that target ISYNA1

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ISYNA1 Gene

Localization for ISYNA1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ISYNA1 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 ISYNA1 gene
Compartment Confidence
cytosol 5
nucleus 2
endoplasmic reticulum 2
plasma membrane 1
peroxisome 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for ISYNA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with ISYNA1: view

Pathways & Interactions for ISYNA1 Gene

genes like me logo Genes that share pathways with ISYNA1: view

Pathways by source for ISYNA1 Gene

UniProtKB/Swiss-Prot Q9NPH2-INO1_HUMAN

  • Pathway: Polyol metabolism; myo-inositol biosynthesis; myo-inositol from D-glucose 6-phosphate: step 1/2.

Gene Ontology (GO) - Biological Process for ISYNA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006021 inositol biosynthetic process IEA --
GO:0006629 lipid metabolic process IEA --
GO:0008654 phospholipid biosynthetic process IEA --
GO:0043647 inositol phosphate metabolic process TAS --
genes like me logo Genes that share ontologies with ISYNA1: view

No data available for SIGNOR curated interactions for ISYNA1 Gene

Drugs & Compounds for ISYNA1 Gene

(6) Drugs for ISYNA1 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Glycerol Approved, Investigational Pharma Target 175
NADH Approved Nutra 0
2-Deoxy-D-Glucitol 6-(E)-Vinylhomophosphonate Experimental Pharma Target 0
2-Deoxy-Glucitol-6-Phosphate Experimental Pharma Target 0
Glucose 6-phosphate Experimental Pharma 0

(3) Additional Compounds for ISYNA1 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
1D-myo-Inositol 3-phosphate
  • 1D-Myo-Inositol 3-monophosphate
  • 1L-Myo-Inositol 1-phosphate
  • D-Myo-Inositol 3-monophosphate
  • D-Myo-Inositol 3-phosphate
  • Inositol 3-monophosphate
Inositol phosphate
  • 1D-Myo-Inositol 1-monophosphate
  • 1D-Myo-Inositol 1-phosphate
  • D-Myo-Inositol-1-Phosphate
  • Inositol 1-monophosphate
Myo-inositol 1-phosphate
  • 1-(Dihydrogen phosphate) DL-myo-Inositol
  • 1-(Dihydrogen phosphate) myo-Inositol
  • DL-myo-Inositol 1-phosphate
  • Myo-Inositol 1-monophosphate
  • Myo-Inositol 1-phosphate
genes like me logo Genes that share compounds with ISYNA1: view

Transcripts for ISYNA1 Gene

Unigene Clusters for ISYNA1 Gene

Inositol-3-phosphate synthase 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ISYNA1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c · 4d ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b ·
SP1: - - - -
SP2: - - - - - -
SP3: - -
SP4: - -
SP5: - - - - - - - -
SP6: - - - - - - -
SP7: - - - - - - -
SP8: - - - - - - - - -
SP9: -
SP10: - -
SP11: - - -
SP12: - - -
SP14: - - - - - - -
SP15: -

ExUns: 11c ^ 12a · 12b · 12c
SP1: -
SP2: -
SP3: -
SP4: -

Relevant External Links for ISYNA1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ISYNA1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ISYNA1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ISYNA1 Gene

This gene is overexpressed in Testis (x7.3).

Protein differential expression in normal tissues from HIPED for ISYNA1 Gene

This gene is overexpressed in Testis (18.7) and Fetal ovary (7.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ISYNA1 Gene

Protein tissue co-expression partners for ISYNA1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ISYNA1 Gene:


SOURCE GeneReport for Unigene cluster for ISYNA1 Gene:


mRNA Expression by UniProt/SwissProt for ISYNA1 Gene:

Tissue specificity: Highly expressed in testis, ovary, heart, placenta and pancreas. Weakly expressed in blood leukocyte, thymus, skeletal muscle and colon.

Evidence on tissue expression from TISSUES for ISYNA1 Gene

  • Nervous system(4.8)
  • Eye(2.2)
genes like me logo Genes that share expression patterns with ISYNA1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for ISYNA1 Gene

Orthologs for ISYNA1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for ISYNA1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ISYNA1 33 34
  • 99.58 (n)
(Canis familiaris)
Mammalia ISYNA1 33 34
  • 88.25 (n)
(Bos Taurus)
Mammalia ISYNA1 33 34
  • 87.77 (n)
(Mus musculus)
Mammalia Isyna1 33 16 34
  • 82.49 (n)
(Rattus norvegicus)
Mammalia Isyna1 33
  • 82.43 (n)
(Ornithorhynchus anatinus)
Mammalia ISYNA1 34
  • 71 (a)
(Anolis carolinensis)
Reptilia ISYNA1 34
  • 71 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia isyna1 33
  • 65.99 (n)
Str.563 33
African clawed frog
(Xenopus laevis)
Amphibia MGC52653 33
fruit fly
(Drosophila melanogaster)
Insecta Inos 35 33 34
  • 66.73 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011830 33
  • 65.86 (n)
(Caenorhabditis elegans)
Secernentea inos-1 33 34
  • 57.53 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes INO1 33 34
  • 54.13 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D16412g 33
  • 53.07 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons MIPS3 33
  • 59.93 (n)
(Glycine max)
eudicotyledons Gma.15564 33
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.7841 33
(Oryza sativa)
Liliopsida Os03g0192700 33
  • 65 (n)
(Hordeum vulgare)
Liliopsida Hv.974 33
(Triticum aestivum)
Liliopsida Ta.220 33
(Zea mays)
Liliopsida Zm.2986 33
bread mold
(Neurospora crassa)
Ascomycetes NCU06666 33
  • 63.21 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14431 33
Species where no ortholog for ISYNA1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • zebrafish (Danio rerio)

Evolution for ISYNA1 Gene

Gene Tree for ISYNA1 (if available)
Gene Tree for ISYNA1 (if available)

Paralogs for ISYNA1 Gene Pseudogenes for ISYNA1 Gene

genes like me logo Genes that share paralogs with ISYNA1: view

No data available for Paralogs for ISYNA1 Gene

Variants for ISYNA1 Gene

Sequence variations from dbSNP and Humsavar for ISYNA1 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000104116 -- 18,438,463(-) CC/CCC upstream_transcript_variant
rs1000539586 -- 18,438,576(-) C/T upstream_transcript_variant
rs1001141260 -- 18,437,319(-) C/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1001336449 -- 18,439,096(-) GGG/GG upstream_transcript_variant
rs1001719078 -- 18,435,826(-) G/T coding_sequence_variant, missense_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for ISYNA1 Gene

Variant ID Type Subtype PubMed ID
esv2677302 CNV deletion 23128226
nsv482217 CNV gain 20164927
nsv952420 CNV deletion 24416366

Variation tolerance for ISYNA1 Gene

Residual Variation Intolerance Score: 18.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.94; 36.04% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ISYNA1 Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ISYNA1 Gene

Disorders for ISYNA1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for ISYNA1 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
fungal meningitis
  • meningitis, fungal
whipple disease
  • intestinal lipodystrophy
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ISYNA1

genes like me logo Genes that share disorders with ISYNA1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ISYNA1 Gene

Publications for ISYNA1 Gene

  1. Human 1-D-myo-inositol-3-phosphate synthase is functional in yeast. (PMID: 15024000) Ju S … Greenberg ML (The Journal of biological chemistry 2004) 2 3 4 58
  2. cDNA cloning and gene expression analysis of human myo-inositol 1-phosphate synthase. (PMID: 12941308) Guan G … Shechter I (Archives of biochemistry and biophysics 2003) 2 3 4 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. E2F1 regulation of the human myo-inositol 1-phosphate synthase (ISYNA1) gene promoter. (PMID: 15464731) Seelan RS … Parthasarathy RN (Archives of biochemistry and biophysics 2004) 3 4 58
  5. ABCE1 is a highly conserved RNA silencing suppressor. (PMID: 25659154) Kärblane K … Sarmiento C (PloS one 2015) 3 58

Products for ISYNA1 Gene

Sources for ISYNA1 Gene

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