Idi2 (isopentenyl-diphosphate delta isomerase 2) - Rat Genome Database

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Gene: Idi2 (isopentenyl-diphosphate delta isomerase 2) Rattus norvegicus
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Symbol: Idi2
Name: isopentenyl-diphosphate delta isomerase 2
RGD ID: 1559783
Description: Predicted to enable isopentenyl-diphosphate delta-isomerase activity. Predicted to be involved in isoprenoid biosynthetic process. Predicted to act upstream of or within isopentenyl diphosphate metabolic process and negative regulation of cholesterol biosynthetic process. Predicted to be located in peroxisome. Orthologous to human IDI2 (isopentenyl-diphosphate delta isomerase 2); INTERACTS WITH bisphenol A; indole-3-methanol; trichloroethene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC498787; LOC502143; RGD1559783; RGD1562352; similar to isopentenyl diphosphate delta-isomerase type 2
RGD Orthologs
Human
Mouse
Bonobo
Squirrel
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81766,022,731 - 66,026,333 (-)NCBIGRCr8
mRatBN7.21761,331,385 - 61,334,987 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1761,331,669 - 61,334,285 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1764,536,701 - 64,554,862 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01768,539,775 - 68,542,369 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01762,700,065 - 62,702,673 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01763,107,152 - 63,107,469 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01759,623,815 - 59,625,531 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41772,124,491 - 72,127,107 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map17q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17202134   PMID:21873635  


Genomics

Comparative Map Data
Idi2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81766,022,731 - 66,026,333 (-)NCBIGRCr8
mRatBN7.21761,331,385 - 61,334,987 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1761,331,669 - 61,334,285 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1764,536,701 - 64,554,862 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01768,539,775 - 68,542,369 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01762,700,065 - 62,702,673 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01763,107,152 - 63,107,469 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01759,623,815 - 59,625,531 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41772,124,491 - 72,127,107 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map17q12.1NCBI
IDI2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38101,018,910 - 1,025,859 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl101,018,910 - 1,025,859 (-)EnsemblGRCh38hg38GRCh38
GRCh37101,064,850 - 1,071,799 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36101,054,847 - 1,061,799 (-)NCBINCBI36Build 36hg18NCBI36
Build 34101,054,846 - 1,061,799NCBI
Celera101,015,125 - 1,022,085 (-)NCBICelera
Cytogenetic Map10p15.3NCBI
HuRef101,004,316 - 1,011,280 (-)NCBIHuRef
CHM1_1101,064,005 - 1,070,958 (-)NCBICHM1_1
T2T-CHM13v2.0101,016,077 - 1,023,009 (-)NCBIT2T-CHM13v2.0
Idi2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39139,002,899 - 9,010,981 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl139,002,899 - 9,010,981 (+)EnsemblGRCm39 Ensembl
GRCm38138,952,863 - 8,960,935 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl138,952,863 - 8,960,945 (+)EnsemblGRCm38mm10GRCm38
MGSCv37138,952,109 - 8,960,181 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36138,952,109 - 8,960,181 (+)NCBIMGSCv36mm8
MGSCv36138,882,858 - 8,889,698 (+)NCBIMGSCv36mm8
Celera138,898,570 - 8,935,208 (+)NCBICelera
Cytogenetic Map13A1NCBI
cM Map133.63NCBI
IDI2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2813,544,217 - 13,549,473 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11013,547,866 - 13,556,621 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0101,056,280 - 1,062,070 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1101,102,655 - 1,108,261 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl101,102,655 - 1,108,246 (-)Ensemblpanpan1.1panPan2
Idi2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934436,921,702 - 36,927,150 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648413,088,030 - 13,092,291 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648413,086,928 - 13,092,291 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC110258909
(Sus scrofa - pig)
No map positions available.

Variants

.
Variants in Idi2
102 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:72
Count of miRNA genes:58
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000045035
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
7394837Memor18Memory QTL 18exploratory behavior trait (VT:0010471)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)171864018263640182Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173136839162109574Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173136839173951021Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173455084373951021Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173583708569599340Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)174207316069599340Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)174207316069599340Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175349882882479847Rat
70210Cm15Cardiac mass QTL 156.5heart right ventricle mass (VT:0007033)heart right ventricle wet weight (CMO:0000072)175724672370156904Rat
1600398Edcs5Endometrial carcinoma susceptibility QTL 52.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)175724672370852846Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)175724684382046127Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)175900564977910000Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)176078142686533673Rat

Markers in Region
RH142604  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21761,331,618 - 61,331,779 (+)MAPPERmRatBN7.2
mRatBN7.21761,331,618 - 61,331,779 (-)MAPPERmRatBN7.2
Rnor_6.01763,107,359 - 63,107,519NCBIRnor6.0
Rnor_6.01757,814,489 - 57,814,649NCBIRnor6.0
Rnor_5.01764,878,252 - 64,878,412UniSTSRnor5.0
Rnor_5.01759,623,765 - 59,623,925UniSTSRnor5.0
RH 3.4 Map17631.0UniSTS
Cytogenetic Map17q12.1UniSTS


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000105326   ⟹   ENSRNOP00000079162
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1761,331,669 - 61,334,285 (-)Ensembl
RefSeq Acc Id: NM_001192008   ⟹   NP_001178937
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81766,022,731 - 66,026,333 (-)NCBI
mRatBN7.21761,331,385 - 61,334,987 (-)NCBI
Rnor_6.01763,107,152 - 63,107,469 (+)NCBI
Rnor_5.01759,623,815 - 59,625,531 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063276715   ⟹   XP_063132785
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81766,023,015 - 66,025,687 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001178937 (Get FASTA)   NCBI Sequence Viewer  
  XP_063132785 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045142.4
  ENSRNOP00000079162
  ENSRNOP00000079162.1
RefSeq Acc Id: NP_001178937   ⟸   NM_001192008
- UniProtKB: A0A8I6G2W8 (UniProtKB/TrEMBL),   D4AEN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000079162   ⟸   ENSRNOT00000105326
RefSeq Acc Id: XP_063132785   ⟸   XM_063276715
- Peptide Label: isoform X1
- UniProtKB: A0A8I6G2W8 (UniProtKB/TrEMBL)
Protein Domains
Nudix hydrolase

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559783 AgrOrtholog
BioCyc Gene G2FUF-8898 BioCyc
BioCyc Pathway PWY-922 [mevalonate pathway I (eukaryotes and bacteria)] BioCyc
BioCyc Pathway Image PWY-922 BioCyc
Ensembl Genes ENSRNOG00000066336 UniProtKB/TrEMBL
  ENSRNOG00000069625 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051570.4 UniProtKB/TrEMBL
  ENSRNOT00000105326 ENTREZGENE
  ENSRNOT00000105326.1 UniProtKB/TrEMBL
Gene3D-CATH Nucleoside Triphosphate Pyrophosphohydrolase UniProtKB/TrEMBL
InterPro IsopentenylPP_isomerase_typ1 UniProtKB/TrEMBL
  NUDIX_hydrolase-like_dom_sf UniProtKB/TrEMBL
  NUDIX_hydrolase_dom UniProtKB/TrEMBL
KEGG Report rno:502143 UniProtKB/TrEMBL
NCBI Gene 502143 ENTREZGENE
PANTHER ISOPENTENYL-DIPHOSPHATE DELTA-ISOMERASE UniProtKB/TrEMBL
  ISOPENTENYL-DIPHOSPHATE DELTA-ISOMERASE 2 UniProtKB/TrEMBL
Pfam NUDIX UniProtKB/TrEMBL
PhenoGen Idi2 PhenoGen
PIRSF Isopntndiph_ism UniProtKB/TrEMBL
PROSITE NUDIX UniProtKB/TrEMBL
RatGTEx ENSRNOG00000066336 RatGTEx
  ENSRNOG00000069625 RatGTEx
Superfamily-SCOP SSF55811 UniProtKB/TrEMBL
UniProt A0A8I6G2W8 ENTREZGENE, UniProtKB/TrEMBL
  D4AEN4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-01 Idi2  isopentenyl-diphosphate delta isomerase 2  RGD1562352  similar to isopentenyl diphosphate delta-isomerase type 2  Data merged from RGD:1562352 737654 APPROVED
2008-04-30 RGD1562352  similar to isopentenyl diphosphate delta-isomerase type 2   RGD1562352_predicted  similar to isopentenyl diphosphate delta-isomerase type 2 (predicted)  'predicted' is removed 2292626 APPROVED
2008-02-28 Idi2  isopentenyl-diphosphate delta isomerase 2  RGD1559783_predicted  similar to isopentenyl diphosphate delta-isomerase type 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562352_predicted  similar to isopentenyl diphosphate delta-isomerase type 2 (predicted)  LOC498787  similar to isopentenyl diphosphate delta-isomerase type 2  Symbol and Name status set to approved 1299863 APPROVED
2006-03-07 RGD1559783_predicted  similar to isopentenyl diphosphate delta-isomerase type 2 (predicted)  LOC502143  similar to isopentenyl diphosphate delta-isomerase type 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498787  similar to isopentenyl diphosphate delta-isomerase type 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-02-09 LOC502143  similar to isopentenyl diphosphate delta-isomerase type 2      Symbol and Name status set to provisional 70820 PROVISIONAL