Cyp2d1 (cytochrome P450, family 2, subfamily d, polypeptide 1) - Rat Genome Database

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Gene: Cyp2d1 (cytochrome P450, family 2, subfamily d, polypeptide 1) Rattus norvegicus
Analyze
Symbol: Cyp2d1 (Ensembl: Cyp2d3)
Name: cytochrome P450, family 2, subfamily d, polypeptide 1 (Ensembl:cytochrome P450, family 2, subfamily d, polypeptide 3)
RGD ID: 708427
Description: Enables monooxygenase activity. Involved in response to nicotine and response to xenobiotic stimulus. Predicted to be located in mitochondrion. Predicted to be active in cytoplasm and intracellular membrane-bounded organelle. Biomarker of depressive disorder. Orthologous to human CYP2D7 (cytochrome P450 family 2 subfamily D member 7 (gene/pseudogene)); PARTICIPATES IN phase I biotransformation pathway via cytochrome P450; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dibromophenyl 2,4,5-tribromophenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Cyp2d9; CYPIID1; cytochrome P450 2D1; cytochrome P450, family 2, subfamily d, polypeptide 9; cytochrome P450-CMF1A; cytochrome P450-DB1; cytochrome P450-UT-7; debrisoquine 4-hydroxylase; P450-CMF1A; P450-DB1; P450-UT-7
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,789,026 - 115,793,430 (-)NCBIGRCr8
mRatBN7.27113,908,950 - 113,913,420 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,908,947 - 113,922,084 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7115,664,160 - 115,668,558 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,888,290 - 117,892,688 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,857,740 - 117,862,138 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,625,641 - 123,630,045 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,625,590 - 123,638,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,610,230 - 123,614,634 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,769,701 - 120,774,105 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17120,803,930 - 120,808,335 (-)NCBI
Celera7110,224,046 - 110,228,450 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. Splenda alters gut microflora and increases intestinal p-glycoprotein and cytochrome p-450 in male rats. Abou-Donia MB, etal., J Toxicol Environ Health A. 2008;71(21):1415-29.
2. Immunohistochemical analysis of expressions of hepatic cytochrome P450 in F344 rats following oral treatment with kava extract. Clayton NP, etal., Exp Toxicol Pathol. 2007 Jan;58(4):223-36. Epub 2006 Oct 23.
3. The metabolism of amiodarone by various CYP isoenzymes of human and rat, and the inhibitory influence of ketoconazole. Elsherbiny ME, etal., J Pharm Pharm Sci. 2008;11(1):147-59.
4. 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.
5. 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.
6. 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.
7. 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.
8. Hepatic drug metabolizing profile of Flinders Sensitive Line rat model of depression. Kotsovolou O, etal., Prog Neuropsychopharmacol Biol Psychiatry. 2010 Aug 16;34(6):1075-84. Epub 2010 Jun 4.
9. The CYP2D gene subfamily: analysis of the molecular basis of the debrisoquine 4-hydroxylase deficiency in DA rats. Matsunaga E, etal., Biochemistry 1989 Sep 5;28(18):7349-55.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. 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.
15. 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.
16. Chronic nicotine treatment induces rat CYP2D in the brain but not in the liver: an investigation of induction and time course. Yue J, etal., J Psychiatry Neurosci. 2008 Jan;33(1):54-63.
Additional References at PubMed
PMID:15051713   PMID:15474473   PMID:18191824   PMID:18838503   PMID:19504095   PMID:24924387   PMID:26913515   PMID:27390106   PMID:33091481   PMID:34943983   PMID:39063146  


Genomics

Comparative Map Data
Cyp2d1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,789,026 - 115,793,430 (-)NCBIGRCr8
mRatBN7.27113,908,950 - 113,913,420 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,908,947 - 113,922,084 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7115,664,160 - 115,668,558 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,888,290 - 117,892,688 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,857,740 - 117,862,138 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,625,641 - 123,630,045 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,625,590 - 123,638,765 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,610,230 - 123,614,634 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,769,701 - 120,774,105 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17120,803,930 - 120,808,335 (-)NCBI
Celera7110,224,046 - 110,228,450 (-)NCBICelera
Cytogenetic Map7q34NCBI
CYP2D7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382242,139,576 - 42,144,483 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2242,140,203 - 42,149,455 (-)EnsemblGRCh38hg38GRCh38
GRCh372242,535,587 - 42,540,484 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,866,158 - 40,870,519 (-)NCBINCBI36Build 36hg18NCBI36
Build 342240,860,713 - 40,865,074NCBI
Celera2226,342,407 - 26,346,769 (-)NCBICelera
Cytogenetic Map22q13.2NCBI
HuRef2225,502,024 - 25,506,388 (-)NCBIHuRef
CHM1_12242,495,953 - 42,500,315 (-)NCBICHM1_1
T2T-CHM13v2.02242,619,075 - 42,623,972 (-)NCBIT2T-CHM13v2.0

Variants

.
Variants in Cyp2d1
15 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:82
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000050002
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
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
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat

Markers in Region
Cyp2d9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,901,546 - 113,902,650 (+)MAPPERmRatBN7.2
mRatBN7.27113,910,587 - 113,911,702 (+)MAPPERmRatBN7.2
Rnor_6.07123,627,279 - 123,628,393NCBIRnor6.0
Rnor_6.07123,618,238 - 123,619,341NCBIRnor6.0
Rnor_5.07123,611,868 - 123,612,982UniSTSRnor5.0
Rnor_5.07123,602,810 - 123,603,913UniSTSRnor5.0
RGSC_v3.47120,762,076 - 120,763,179UniSTSRGSC3.4
RGSC_v3.47120,771,339 - 120,772,453UniSTSRGSC3.4
Celera7110,225,684 - 110,226,798UniSTS
Celera7110,216,475 - 110,217,578UniSTS
Cytogenetic Map7q34UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSRNOT00000044470   ⟹   ENSRNOP00000048711
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,917,715 - 113,922,084 (-)Ensembl
Rnor_6.0 Ensembl7123,634,400 - 123,638,757 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000050002   ⟹   ENSRNOP00000041174
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,908,949 - 113,922,077 (-)Ensembl
Rnor_6.0 Ensembl7123,625,641 - 123,630,045 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000082473   ⟹   ENSRNOP00000070699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7123,634,050 - 123,638,702 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092017   ⟹   ENSRNOP00000071519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,908,947 - 113,913,403 (-)Ensembl
Rnor_6.0 Ensembl7123,625,590 - 123,638,765 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104727   ⟹   ENSRNOP00000083649
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,908,947 - 113,913,403 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114422   ⟹   ENSRNOP00000078915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,908,950 - 113,913,403 (-)Ensembl
RefSeq Acc Id: NM_153313   ⟹   NP_695225
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,789,026 - 115,793,430 (-)NCBI
mRatBN7.27113,908,950 - 113,913,354 (-)NCBI
Rnor_6.07123,625,641 - 123,630,045 (-)NCBI
Rnor_5.07123,610,230 - 123,614,634 (-)NCBI
RGSC_v3.47120,769,701 - 120,774,105 (-)RGD
Celera7110,224,046 - 110,228,450 (-)RGD
Sequence:
RefSeq Acc Id: NP_695225   ⟸   NM_153313
- UniProtKB: Q6AZ78 (UniProtKB/Swiss-Prot),   O35105 (UniProtKB/Swiss-Prot),   P10633 (UniProtKB/Swiss-Prot),   A0A0G2K0N7 (UniProtKB/TrEMBL),   A6HT74 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071519   ⟸   ENSRNOT00000092017
Ensembl Acc Id: ENSRNOP00000070699   ⟸   ENSRNOT00000082473
Ensembl Acc Id: ENSRNOP00000048711   ⟸   ENSRNOT00000044470
Ensembl Acc Id: ENSRNOP00000041174   ⟸   ENSRNOT00000050002
Ensembl Acc Id: ENSRNOP00000083649   ⟸   ENSRNOT00000104727
Ensembl Acc Id: ENSRNOP00000078915   ⟸   ENSRNOT00000114422

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P10633-F1-model_v2 AlphaFold P10633 1-504 view protein structure

Transcriptome

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

Promoters
RGD ID:13695537
Promoter ID:EPDNEW_R6062
Type:initiation region
Name:Cyp2d3_1
Description:cytochrome P450, family 2, subfamily d, polypeptide 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6063  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07123,630,067 - 123,630,127EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708427 AgrOrtholog
BioCyc Gene G2FUF-32620 BioCyc
Ensembl Genes ENSRNOG00000029179 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050002.4 UniProtKB/TrEMBL
  ENSRNOT00000092017.2 UniProtKB/TrEMBL
  ENSRNOT00000114422.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7126263 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
  Cytochrome_P450_fam2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:266684 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93082 IMAGE-MGC_LOAD
NCBI Gene 266684 ENTREZGENE
PANTHER CYTOCHROME P450 2D10-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYTOCHROME P450 508A4-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyp2d1 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 ENSRNOG00000029179 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSU8_RAT UniProtKB/TrEMBL
  A0A0G2K0N7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZLX8_RAT UniProtKB/TrEMBL
  A6HT74 ENTREZGENE, UniProtKB/TrEMBL
  CP2D1_RAT UniProtKB/Swiss-Prot
  O35105 ENTREZGENE
  P10633 ENTREZGENE
  Q6AZ78 ENTREZGENE
UniProt Secondary O35105 UniProtKB/Swiss-Prot
  Q6AZ78 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-07-06 Cyp2d1  cytochrome P450, family 2, subfamily d, polypeptide 1  Cyp2d9  cytochrome P450, family 2, subfamily d, polypeptide 9  Name updated 1299863 APPROVED
2004-09-10 Cyp2d9  cytochrome P450, family 2, subfamily d, polypeptide 9  Cyp2d1  cytochrome P450 2D1  Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed at birth 727761