Cyp2d5 (cytochrome P450, family 2, subfamily d, polypeptide 5) - Rat Genome Database

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Gene: Cyp2d5 (cytochrome P450, family 2, subfamily d, polypeptide 5) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cyp2d5
Name: cytochrome P450, family 2, subfamily d, polypeptide 5
RGD ID: 628630
Description: Predicted to enable heme binding activity and oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen. Predicted to be involved in arachidonate metabolic process and xenobiotic metabolic process. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in cytoplasm. 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 (gene/pseudogene)) and 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-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Cyp2d10; CYPIID10; cytochrome P450 2D10; cytochrome P450, family 2, subfamily d, polypeptide 10; cytochrome P450-CMF1B; cytochrome P450-DB5; cytochrome P450CMF1b; debrisoquine 4-hydroxylase; MGC108540; P450-CMF1B; P450-DB5
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,779,981 - 115,784,554 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.27113,899,905 - 113,904,458 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,899,890 - 113,904,495 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7115,655,109 - 115,659,619 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,879,239 - 117,883,749 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,848,689 - 117,853,199 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd7117,819,149 - 117,823,657 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive7118,760,591 - 118,765,097 (-)NCBILyon_Normotensive
Lyon_Hypertensive7118,886,276 - 118,890,782 (-)NCBILyon_Hypertensive
F344_StmMcwi7117,377,432 - 117,381,940 (-)NCBIF344_StmMcwi
Rnor_6.07123,616,596 - 123,621,102 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,616,596 - 123,621,102 (-)Ensemblrn6Rnor6.0
Rnor_5.07123,601,168 - 123,605,674 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47120,760,434 - 120,764,940 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7110,214,833 - 110,219,339 (-)NCBICelera
RGSC_v3.17120,794,663 - 120,799,170 (-)NCBI
Cytogenetic Map7q34NCBI
JBrowse:




Gene-Chemical Interaction 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. 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.
2. 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.
3. Cytochrome P450CMF cDNA: nucleotide sequence of P450CMF1b. Ishida N, etal., Nucleic Acids Res 1989 Aug 11;17(15):6407.
4. 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.
5. 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.
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Variants

.
Variants in Cyp2d5
20 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:76
Count of miRNA genes:71
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000046024
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
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 4 38 107 81 82 59 45 59 5 260 104 7 85 77 79 23 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000046024   ⟹   ENSRNOP00000040266
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,899,904 - 113,904,495 (-)Ensembl
Rnor_6.0 Ensembl7123,616,596 - 123,621,102 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095995   ⟹   ENSRNOP00000091804
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,899,904 - 113,904,495 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102522   ⟹   ENSRNOP00000087916
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,899,890 - 113,904,495 (-)Ensembl
RefSeq Acc Id: NM_173304   ⟹   NP_775426
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,779,981 - 115,784,487 (-)NCBI
mRatBN7.27113,899,905 - 113,904,411 (-)NCBI
Dahl_SR_JrHsd7117,819,149 - 117,823,657 (-)NCBI
Lyon_Normotensive7118,760,591 - 118,765,097 (-)NCBI
Lyon_Hypertensive7118,886,276 - 118,890,782 (-)NCBI
F344_StmMcwi7117,377,432 - 117,381,940 (-)NCBI
Rnor_6.07123,616,596 - 123,621,102 (-)NCBI
Rnor_5.07123,601,168 - 123,605,674 (-)NCBI
RGSC_v3.47120,760,434 - 120,764,940 (-)RGD
Celera7110,214,833 - 110,219,339 (-)RGD
Sequence:
RefSeq Acc Id: XM_039078529   ⟹   XP_038934457
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,779,981 - 115,784,554 (-)NCBI
mRatBN7.27113,899,905 - 113,904,395 (-)NCBI
RefSeq Acc Id: XM_039078530   ⟹   XP_038934458
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,779,981 - 115,784,554 (-)NCBI
mRatBN7.27113,899,906 - 113,904,458 (-)NCBI
RefSeq Acc Id: XM_039078531   ⟹   XP_038934459
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87115,780,862 - 115,784,554 (-)NCBI
mRatBN7.27113,900,788 - 113,904,458 (-)NCBI
RefSeq Acc Id: NP_775426   ⟸   NM_173304
- UniProtKB: P12939 (UniProtKB/Swiss-Prot),   F7FD56 (UniProtKB/TrEMBL),   Q5I0P9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000040266   ⟸   ENSRNOT00000046024
RefSeq Acc Id: XP_038934457   ⟸   XM_039078529
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GJ89 (UniProtKB/TrEMBL),   F7FD56 (UniProtKB/TrEMBL),   Q5I0P9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038934458   ⟸   XM_039078530
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZWE8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038934459   ⟸   XM_039078531
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000087916   ⟸   ENSRNOT00000102522
Ensembl Acc Id: ENSRNOP00000091804   ⟸   ENSRNOT00000095995

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P12939-F1-model_v2 AlphaFold P12939 1-504 view protein structure

Transcriptome

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

Promoters
RGD ID:13695536
Promoter ID:EPDNEW_R6061
Type:multiple initiation site
Name:Cyp2d5_1
Description:cytochrome P450, family 2, subfamily d, polypeptide 5
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_6.07123,621,159 - 123,621,219EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628630 AgrOrtholog
BioCyc Gene G2FUF-32621 BioCyc
Ensembl Genes ENSRNOG00000029128 Ensembl
  ENSRNOG00000077236 ENTREZGENE
Ensembl Transcript ENSRNOT00000046024 ENTREZGENE
  ENSRNOT00000095995 ENTREZGENE
  ENSRNOT00000151808 ENTREZGENE
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7369436 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:286963 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108540 IMAGE-MGC_LOAD
NCBI Gene 286963 ENTREZGENE
PANTHER CYTOCHROME P450 2D10-RELATED UniProtKB/Swiss-Prot
  CYTOCHROME P450 508A4-RELATED UniProtKB/Swiss-Prot
Pfam p450 UniProtKB/Swiss-Prot
PhenoGen Cyp2d5 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot
  EP450ICYP2D UniProtKB/Swiss-Prot
  P450 UniProtKB/Swiss-Prot
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000029128 RatGTEx
  ENSRNOG00000077236 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot
UniProt A0A8I5ZWE8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GJ89 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0KZR6_RAT UniProtKB/TrEMBL
  CP2DA_RAT UniProtKB/Swiss-Prot
  F7FD56 ENTREZGENE, UniProtKB/TrEMBL
  P12939 ENTREZGENE
  Q5I0P9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-07-06 Cyp2d5  cytochrome P450, family 2, subfamily d, polypeptide 5  Cyp2d10  cytochrome P450, family 2, subfamily d, polypeptide 10  Name updated 1299863 APPROVED
2004-09-10 Cyp2d10  cytochrome P450, family 2, subfamily d, polypeptide 10  Cyp2d5  cytochrome P450CMF1b  Symbol and Name updated 1299863 APPROVED
2003-02-27 Cyp2d5  cytochrome P450CMF1b      Symbol and Name status set to provisional 70820 PROVISIONAL