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
Name: cytochrome P450, family 2, subfamily d, polypeptide 1
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. 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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7115,789,023 - 115,793,479 (-)EnsemblGRCr8
mRatBN7.27113,908,950 - 113,913,420 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,908,947 - 113,922,084 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7115,664,160 - 115,668,558 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,888,290 - 117,892,688 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,857,740 - 117,862,138 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,625,641 - 123,630,045 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,625,590 - 123,638,765 (-)Ensemblrn6Rnor6.0
Rnor_5.07123,610,230 - 123,614,634 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47120,769,701 - 120,774,105 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7110,224,046 - 110,228,450 (-)NCBICelera
RGSC_v3.17120,803,930 - 120,808,335 (-)NCBI
Cytogenetic Map7q34NCBI
JBrowse:




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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7115,789,023 - 115,793,479 (-)EnsemblGRCr8
mRatBN7.27113,908,950 - 113,913,420 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,908,947 - 113,922,084 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7115,664,160 - 115,668,558 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,888,290 - 117,892,688 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,857,740 - 117,862,138 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,625,641 - 123,630,045 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,625,590 - 123,638,765 (-)Ensemblrn6Rnor6.0
Rnor_5.07123,610,230 - 123,614,634 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47120,769,701 - 120,774,105 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7110,224,046 - 110,228,450 (-)NCBICelera
RGSC_v3.17120,803,930 - 120,808,335 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh372242,535,587 - 42,540,484 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,866,158 - 40,870,519 (-)NCBIBuild 36Build 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
31 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)792388565119280177Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)782111245123048330Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)773618702118618702Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)773557047118557047Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)782111245123048330Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)796700404118618702Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
10450862Kidm55Kidney mass QTL 554.9kidney mass (VT:0002707)kidney weight (CMO:0000081)772725037117725037Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
10450856Livw4Liver weight QTL 43.8liver mass (VT:0003402)liver weight (CMO:0000092)772725037117725037Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)778682549123682549Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)771621154119349044Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 17 37 49 117 74 9 33 36 32 10 10

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
GRCr8 Ensembl7115,789,103 - 115,793,479 (-)Ensembl
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
GRCr8 Ensembl7115,789,023 - 115,793,479 (-)Ensembl
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
GRCr8 Ensembl7115,789,023 - 115,793,479 (-)Ensembl
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:
Protein Sequences
Protein RefSeqs NP_695225 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41001 (Get FASTA)   NCBI Sequence Viewer  
  AAA41043 (Get FASTA)   NCBI Sequence Viewer  
  AAA41054 (Get FASTA)   NCBI Sequence Viewer  
  AAH78696 (Get FASTA)   NCBI Sequence Viewer  
  BAA23122 (Get FASTA)   NCBI Sequence Viewer  
  EDM15648 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071519
GenBank Protein P10633 (Get FASTA)   NCBI Sequence Viewer  
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
  ENSRNOG00000084482 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000092017 ENTREZGENE
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7126263 IMAGE-MGC_LOAD
InterPro Cyt_P450 UniProtKB/Swiss-Prot
  Cyt_P450_CS UniProtKB/Swiss-Prot
  Cyt_P450_E_grp-I UniProtKB/Swiss-Prot
  Cyt_P450_E_grp-I_CYP2D-like UniProtKB/Swiss-Prot
  Cyt_P450_sf UniProtKB/Swiss-Prot
  Cytochrome_P450_fam2 UniProtKB/Swiss-Prot
KEGG Report rno:266684 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93082 IMAGE-MGC_LOAD
NCBI Gene 266684 ENTREZGENE
PANTHER CYTOCHROME P450 2D10-RELATED UniProtKB/Swiss-Prot
  CYTOCHROME P450 508A4-RELATED UniProtKB/Swiss-Prot
Pfam p450 UniProtKB/Swiss-Prot
PhenoGen Cyp2d1 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot
  EP450ICYP2D UniProtKB/Swiss-Prot
  P450 UniProtKB/Swiss-Prot
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000029179 RatGTEx
  ENSRNOG00000084482 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot
UniProt A0A0G2JSU8_RAT UniProtKB/TrEMBL
  A0A0G2K0N7 ENTREZGENE, 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