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Aliases for IDI2 Gene

Aliases for IDI2 Gene

  • Isopentenyl-Diphosphate Delta Isomerase 2 2 3 5
  • Isopentenyl Pyrophosphate Isomerase 2 3 4
  • IPP Isomerase 2 3 4
  • IPPI2 3 4
  • Diphosphate Dimethylallyl Diphosphate Isomerase 2 3
  • Isopentenyl-Diphosphate Delta-Isomerase 2 3
  • EC 4

External Ids for IDI2 Gene

Previous GeneCards Identifiers for IDI2 Gene

  • GC10M001035
  • GC10M001018
  • GC10M001054
  • GC10M001004

Summaries for IDI2 Gene

Entrez Gene Summary for IDI2 Gene

  • The protein encoded by this gene catalyzes the conversion of isopentenyl diphosphate to dimethylallyl diphosphate, which is a precursor for the synthesis of cholesterol and other isoprenoids. This gene, which is a product of an ancestral gene duplication event, encodes a protein that may be involved in the aggregation of alpha-synuclein in the cerebral cortex of patients with Lewy body disease. In addition, segmental copy number gains in this locus have been associated with sporadic amyotrophic lateral sclerosis. [provided by RefSeq, Jul 2016]

GeneCards Summary for IDI2 Gene

IDI2 (Isopentenyl-Diphosphate Delta Isomerase 2) is a Protein Coding gene. Among its related pathways are Terpenoid backbone biosynthesis and Metabolism. GO annotations related to this gene include hydrolase activity and isopentenyl-diphosphate delta-isomerase activity. An important paralog of this gene is IDI1.

UniProtKB/Swiss-Prot for IDI2 Gene

  • Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IDI2 Gene

Genomics for IDI2 Gene

Regulatory Elements for IDI2 Gene

Enhancers for IDI2 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
GH10G000968 1.2 Ensembl ENCODE 9.9 +55.0 54967 4.9 PKNOX1 FOXA2 ATF1 MLX ARID4B ZNF48 YY1 ZNF207 PAF1 JUNB WDR37 GTPBP4 LOC101927762 IDI2 PIR35547 LOC105376341
GH10G001060 1.3 Ensembl ENCODE dbSUPER 7.8 -37.0 -37030 5.5 SIN3A RAD21 GATA2 ZNF143 ETV6 FOS CREM ZNF654 JUNB REST IDI2 WDR37 ADARB2 IDI1 PIR60283
GH10G001042 0.9 ENCODE dbSUPER 8.6 -18.8 -18780 4.1 PAF1 TBP SMAD5 WRNIP1 MAX CEBPG ZNF394 ZIC2 POLR2A SCRT2 WDR37 IDI2-AS1 LOC107984285 GTPBP4 IDI2
GH10G001035 1 ENCODE dbSUPER 6.8 -10.5 -10477 1.9 USF1 JUN BACH1 MAX EBF1 FOSL1 POLR2A EED FOSL2 FOS WDR37 IDI2-AS1 IDI2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around IDI2 on UCSC Golden Path with GeneCards custom track

Genomic Location for IDI2 Gene

1,018,907 bp from pter
1,025,859 bp from pter
6,953 bases
Minus strand

Genomic View for IDI2 Gene

Genes around IDI2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IDI2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IDI2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IDI2 Gene

Proteins for IDI2 Gene

  • Protein details for IDI2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Isopentenyl-diphosphate delta-isomerase 2
    Protein Accession:

    Protein attributes for IDI2 Gene

    227 amino acids
    Molecular mass:
    26753 Da
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for IDI2 Gene

neXtProt entry for IDI2 Gene

Post-translational modifications for IDI2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for IDI2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for IDI2 Gene

Domains & Families for IDI2 Gene

Gene Families for IDI2 Gene

Suggested Antigen Peptide Sequences for IDI2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the IPP isomerase type 1 family.
  • Belongs to the IPP isomerase type 1 family.
genes like me logo Genes that share domains with IDI2: view

Function for IDI2 Gene

Molecular function for IDI2 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Isopentenyl diphosphate = dimethylallyl diphosphate.
UniProtKB/Swiss-Prot Function:
Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).

Enzyme Numbers (IUBMB) for IDI2 Gene

Gene Ontology (GO) - Molecular Function for IDI2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004452 isopentenyl-diphosphate delta-isomerase activity IDA 17202134
GO:0016787 hydrolase activity IEA --
GO:0016853 isomerase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with IDI2: view
genes like me logo Genes that share phenotypes with IDI2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for IDI2

No data available for Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for IDI2 Gene

Localization for IDI2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IDI2 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 IDI2 gene
Compartment Confidence
peroxisome 5
cytosol 5
extracellular 1
cytoskeleton 1
nucleus 1

Gene Ontology (GO) - Cellular Components for IDI2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005777 peroxisome IEA,IDA 17202134
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with IDI2: view

Pathways & Interactions for IDI2 Gene

genes like me logo Genes that share pathways with IDI2: view

UniProtKB/Swiss-Prot Q9BXS1-IDI2_HUMAN

  • Pathway: Isoprenoid biosynthesis; dimethylallyl diphosphate biosynthesis; dimethylallyl diphosphate from isopentenyl diphosphate: step 1/1.

Gene Ontology (GO) - Biological Process for IDI2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process IEA --
GO:0006694 steroid biosynthetic process IEA --
GO:0006695 cholesterol biosynthetic process TAS --
GO:0008202 steroid metabolic process IEA --
GO:0008203 cholesterol metabolic process IEA --
genes like me logo Genes that share ontologies with IDI2: view

No data available for SIGNOR curated interactions for IDI2 Gene

Drugs & Compounds for IDI2 Gene

(3) Drugs for IDI2 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
DIMETHYLALLYL DIPHOSPHATE Experimental Pharma Competitive, Inhibitor 0
Isopentenyl pyrophosphate Experimental Pharma 0
Magnesium Nutra 0
genes like me logo Genes that share compounds with IDI2: view

Transcripts for IDI2 Gene

mRNA/cDNA for IDI2 Gene

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

Unigene Clusters for IDI2 Gene

Isopentenyl-diphosphate delta isomerase 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for IDI2

Alternative Splicing Database (ASD) splice patterns (SP) for IDI2 Gene

No ASD Table

Relevant External Links for IDI2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for IDI2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IDI2 Gene

mRNA differential expression in normal tissues according to GTEx for IDI2 Gene

This gene is overexpressed in Muscle - Skeletal (x51.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for IDI2 Gene

NURSA nuclear receptor signaling pathways regulating expression of IDI2 Gene:


SOURCE GeneReport for Unigene cluster for IDI2 Gene:


mRNA Expression by UniProt/SwissProt for IDI2 Gene:

Tissue specificity: Detected in skeletal muscle.

Evidence on tissue expression from TISSUES for IDI2 Gene

  • Muscle(4.4)
genes like me logo Genes that share expression patterns with IDI2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for IDI2 Gene

Orthologs for IDI2 Gene

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

Orthologs for IDI2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia IDI2 34 35
  • 99.27 (n)
(Rattus norvegicus)
Mammalia RGD1564347 34
  • 75.18 (n)
(Mus musculus)
Mammalia Idi2 35
  • 66 (a)
Gm9745 35
  • 66 (a)
(Monodelphis domestica)
Mammalia IDI2 35
  • 61 (a)
(Gallus gallus)
Aves -- 35
  • 59 (a)
(Anolis carolinensis)
Reptilia -- 35
  • 58 (a)
(Danio rerio)
Actinopterygii idi1 35
  • 48 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG5919 36 35
  • 42 (a)
(Caenorhabditis elegans)
Secernentea idi-1 35
  • 31 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IDI1 35
  • 31 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.9971 35
  • 42 (a)
Species where no ortholog for IDI2 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for IDI2 Gene

Gene Tree for IDI2 (if available)
Gene Tree for IDI2 (if available)

Paralogs for IDI2 Gene

Paralogs for IDI2 Gene

(1) SIMAP similar genes for IDI2 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with IDI2: view

Variants for IDI2 Gene

Sequence variations from dbSNP and Humsavar for IDI2 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000424885 -- 1,024,700(+) TCAAC(A/C)CAGTC intron-variant, reference, missense
rs1000701932 -- 1,020,231(+) TCTTT(C/T)TTTTT intron-variant
rs1000887371 -- 1,024,708(+) GTCAA(C/G)ATTTA intron-variant, reference, missense
rs1000926596 -- 1,023,789(+) GTATT(A/G)TATGT intron-variant
rs1000978949 -- 1,023,524(+) CAACA(C/T)GGATG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for IDI2 Gene

Variant ID Type Subtype PubMed ID
esv2660097 CNV deletion 23128226
esv3622095 CNV loss 21293372
esv3891735 CNV gain 25118596
nsv1046220 CNV gain 25217958
nsv1161921 CNV duplication 26073780
nsv474852 CNV novel sequence insertion 20440878
nsv549765 CNV gain 21841781
nsv549767 CNV loss 21841781

Variation tolerance for IDI2 Gene

Residual Variation Intolerance Score: 38.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.81; 58.42% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for IDI2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IDI2 Gene

Disorders for IDI2 Gene

Relevant External Links for IDI2

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for IDI2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for IDI2 Gene

Publications for IDI2 Gene

  1. IDI2, a second isopentenyl diphosphate isomerase in mammals. (PMID: 17202134) Clizbe D.B. … Krisans S.K. (J. Biol. Chem. 2007) 3 4 22 64
  2. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A. … Goate A. (Am. J. Hum. Genet. 2006) 3 46 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64

Products for IDI2 Gene

  • Addgene plasmids for IDI2

Sources for IDI2 Gene

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