Cyp2d2 (cytochrome P450, family 2, subfamily d, polypeptide 2) - Rat Genome Database

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Gene: Cyp2d2 (cytochrome P450, family 2, subfamily d, polypeptide 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cyp2d2
Name: cytochrome P450, family 2, subfamily d, polypeptide 2
RGD ID: 2471
Description: Enables monooxygenase activity. Involved in female pregnancy and response to xenobiotic stimulus. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in cytoplasm and intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in several diseases, including autoimmune hepatitis; extrapyramidal and movement disease; head and neck squamous cell carcinoma; leukemia (multiple); and major depressive disorder. Orthologous to human CYP2D6 (cytochrome P450 family 2 subfamily D member 6) and CYP2D7 (cytochrome P450 family 2 subfamily D member 7 (gene/pseudogene)); PARTICIPATES IN phase I biotransformation pathway via cytochrome P450; INTERACTS WITH (+)-schisandrin B; 1,2-dichlorobenzene; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cyp2d26; CYPIID26; cytochrome P450 2D26; cytochrome P450, family 2, subfamily d, polypeptide 26; Cytochrome P450, subfamily IID2; cytochrome P450-CMF2; cytochrome P450-DB2; debrisoquine 4-hydroxylase; P450-CMF2; P450-DB2
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,815,212 - 115,819,281 (-)NCBIGRCr8
mRatBN7.27113,935,138 - 113,939,209 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,935,138 - 113,939,209 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7115,690,180 - 115,694,258 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,914,310 - 117,918,388 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,883,760 - 117,887,838 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,651,827 - 123,655,896 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,651,827 - 123,655,896 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,636,789 - 123,640,858 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,796,210 - 120,800,279 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17120,830,439 - 120,834,509 (-)NCBI
Celera7110,250,322 - 110,254,396 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Changes in maternal liver Cyp2c and Cyp2d expression and activity during rat pregnancy. Dickmann LJ, etal., Biochem Pharmacol. 2008 Apr 15;75(8):1677-87. Epub 2008 Feb 7.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Differential expression of cytochrome P450 enzymes in cultured and intact foetal rat ventral mesencephalon. Gilbert EA, etal., J Neural Transm 2003 Oct;110(10):1091-101.
4. Debrisoquine 4-hydroxylase: characterization of a new P450 gene subfamily, regulation, chromosomal mapping, and molecular analysis of the DA rat polymorphism. Gonzalez FJ, etal., DNA 1987 Apr;6(2):149-61.
5. Metabolic activity of cytochrome p450 isoforms in hepatocytes cryopreserved with wheat protein extract. Grondin M, etal., Drug Metab Dispos. 2008 Oct;36(10):2121-9. Epub 2008 Jul 10.
6. Four species of cDNAs for cytochrome P450 isozymes immunorelated to P450C-M/F encode for members of P450IID subfamily, increasing the number of members within the subfamily. Ishida N, etal., Biochem Biophys Res Commun 1988 Oct 31;156(2):681-8.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Down-regulation of hepatic cytochrome P450 enzymes associated with cisplatin-induced acute renal failure in male rats. Masubuchi Y, etal., Arch Toxicol. 2006 Jun;80(6):347-53. Epub 2006 Feb 17.
9. The rat P450 IID subfamily: complete sequences of four closely linked genes and evidence that gene conversions maintained sequence homogeneity at the heme-binding region of the cytochrome P450 active site. Matsunaga E, etal., J Mol Evol 1990 Feb;30(2):155-69.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
13. GOA pipeline RGD automated data pipeline
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
16. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17. Expression of four rat CYP2D isoforms in Saccharomyces cerevisiae and their catalytic specificity. Wan J, etal., Arch Biochem Biophys 1997 Dec 15;348(2):383-90.
Additional References at PubMed
PMID:2819073   PMID:15474473   PMID:15489334   PMID:18191824   PMID:22162298   PMID:29415952  


Genomics

Variants

.
Variants in Cyp2d2
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:53
Count of miRNA genes:51
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000012413
Prediction methods:Miranda, Rnahybrid, Targetscan
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
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat

Markers in Region
D7Wox21  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,938,271 - 113,938,544 (+)MAPPERmRatBN7.2
Rnor_6.07123,654,961 - 123,655,231NCBIRnor6.0
Rnor_5.07123,639,923 - 123,640,193UniSTSRnor5.0
RGSC_v3.47120,799,343 - 120,799,614RGDRGSC3.4
RGSC_v3.47120,799,344 - 120,799,614UniSTSRGSC3.4
RGSC_v3.17120,833,573 - 120,833,844RGD
Celera7110,253,456 - 110,253,731UniSTS
RH 3.4 Map7902.1UniSTS
RH 3.4 Map7902.1RGD
RH 2.0 Map7680.4RGD
Cytogenetic Map7q34UniSTS
BE110228  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,934,793 - 113,934,959 (+)MAPPERmRatBN7.2
Rnor_6.07123,651,483 - 123,651,648NCBIRnor6.0
Rnor_5.07123,636,445 - 123,636,610UniSTSRnor5.0
RGSC_v3.47120,795,866 - 120,796,031UniSTSRGSC3.4
Celera7110,249,978 - 110,250,143UniSTS
RH 3.4 Map7895.5UniSTS
Cytogenetic Map7q34UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 10 10 10
Medium 25 25 25 23 1 1
Low 3 2 21 6 14 6 3 3 6 8 24 8 3
Below cutoff 19 1 5 5 6 55 4 16 2 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000012413   ⟹   ENSRNOP00000012413
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,935,138 - 113,939,209 (-)Ensembl
Rnor_6.0 Ensembl7123,651,827 - 123,655,896 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082473   ⟹   ENSRNOP00000070699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,935,138 - 113,939,109 (-)Ensembl
RefSeq Acc Id: NM_012730   ⟹   NP_036862
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,815,212 - 115,819,281 (-)NCBI
mRatBN7.27113,935,138 - 113,939,209 (-)NCBI
Rnor_6.07123,651,827 - 123,655,896 (-)NCBI
Rnor_5.07123,636,789 - 123,640,858 (-)NCBI
RGSC_v3.47120,796,210 - 120,800,279 (-)RGD
Celera7110,250,322 - 110,254,396 (-)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_036862   ⟸   NM_012730
- UniProtKB: P10634 (UniProtKB/Swiss-Prot),   A6HT76 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000012413   ⟸   ENSRNOT00000012413
RefSeq Acc Id: ENSRNOP00000070699   ⟸   ENSRNOT00000082473

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P10634-F1-model_v2 AlphaFold P10634 1-500 view protein structure

Transcriptome

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

Promoters
RGD ID:13695540
Promoter ID:EPDNEW_R6064
Type:multiple initiation site
Name:Cyp2d2_1
Description:cytochrome P450, family 2, subfamily d, polypeptide 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07123,655,867 - 123,655,927EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2471 AgrOrtholog
BioCyc Gene G2FUF-32618 BioCyc
Ensembl Genes ENSRNOG00000008988 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055029804 UniProtKB/Swiss-Prot
  ENSRNOG00060025615 UniProtKB/Swiss-Prot
  ENSRNOG00065032069 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012413 ENTREZGENE
  ENSRNOT00000012413.5 UniProtKB/Swiss-Prot
  ENSRNOT00000082473.2 UniProtKB/TrEMBL
  ENSRNOT00055051650 UniProtKB/Swiss-Prot
  ENSRNOT00060044361 UniProtKB/Swiss-Prot
  ENSRNOT00065055230 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109496 IMAGE-MGC_LOAD
InterPro Cyt_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_E_grp-I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_E_grp-I_CYP2D-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25053 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93631 IMAGE-MGC_LOAD
NCBI Gene 25053 ENTREZGENE
PANTHER CYTOCHROME P450 2D26 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYTOCHROME P450 508A4-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyp2d2 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EP450ICYP2D UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000008988 RatGTEx
  ENSRNOG00055029804 RatGTEx
  ENSRNOG00060025615 RatGTEx
  ENSRNOG00065032069 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC230168
UniProt A0A0G2JYL2_RAT UniProtKB/TrEMBL
  A6HT76 ENTREZGENE, UniProtKB/TrEMBL
  CP2DQ_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-07-06 Cyp2d2  cytochrome P450, family 2, subfamily d, polypeptide 2  Cyp2d26  cytochrome P450, family 2, subfamily d, polypeptide 26  Name updated 1299863 APPROVED
2004-09-10 Cyp2d26  cytochrome P450, family 2, subfamily d, polypeptide 26  Cyp2d2  Cytochrome P450, subfamily IID2  Symbol and Name updated 1299863 APPROVED
2002-06-10 Cyp2d2  Cytochrome P450, subfamily IID2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a conserved heme binding region 727679
gene_transcript gene contains nine exons 727761