Cyp2a1 (cytochrome P450, family 2, subfamily a, polypeptide 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cyp2a1 (cytochrome P450, family 2, subfamily a, polypeptide 1) Rattus norvegicus
Analyze
Symbol: Cyp2a1
Name: cytochrome P450, family 2, subfamily a, polypeptide 1
RGD ID: 2463
Description: Exhibits steroid hydroxylase activity. Involved in coumarin metabolic process. Localizes to intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in nicotine dependence and warfarin resistance. Orthologous to human CYP2A13 (cytochrome P450 family 2 subfamily A member 13); CYP2A6 (cytochrome P450 family 2 subfamily A member 6); and CYP2A7 (cytochrome P450 family 2 subfamily A member 7); PARTICIPATES IN phase I biotransformation pathway via cytochrome P450; vitamin A deficiency pathway; caffeine metabolic pathway; INTERACTS WITH (+)-schisandrin B; (S)-nicotine; 1,3,5-trinitro-1,3,5-triazinane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CYPIIA1; cytochrome P450 2A1; cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1); cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene; cytochrome P450-UT-F; P450-UT-F; RATCYP2A1; Shdl; Shdl_mapped; steroid hormones 7-alpha-hydroxylase; steroid hydroxylase, hepatic; steroid hydroxylase, hepatic (mapped); testosterone 7-alpha-hydroxylase
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2182,231,611 - 82,244,887 (+)NCBI
Rnor_6.0 Ensembl183,653,234 - 83,766,484 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0183,711,223 - 83,725,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0184,925,733 - 84,938,423 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4182,006,828 - 82,020,282 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1182,084,938 - 82,098,390 (+)NCBI
Celera176,649,089 - 76,662,287 (+)NCBICelera
Cytogenetic Map1q21NCBI
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
(+)-schisandrin B  (EXP)
(S)-nicotine  (EXP,ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1-benzylpiperazine  (EXP)
1-naphthol  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-acetamidofluorene  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-methylcholanthrene  (EXP)
3-methyleneindolenine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-oxo-4-(pyridin-3-yl)butanal  (ISO)
5-Hydroxyflavone  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
9-phenanthrol  (ISO)
acenaphthene  (ISO)
acenaphthylene  (ISO)
acetophenones  (ISO)
aflatoxin B1  (ISO)
Aflatoxin G1  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
alpha-hexachlorocyclohexane  (EXP)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
amodiaquine  (ISO)
Aroclor 1254  (EXP)
benzbromarone  (EXP)
benzene  (EXP)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP,ISO)
bexarotene  (EXP)
biphenyl  (ISO)
biphenyl-4-amine  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (EXP)
chlorohydrocarbon  (EXP)
cholic acid  (EXP)
chrysin  (ISO)
clofibrate  (EXP)
clomipramine  (EXP)
coumarin  (ISO)
cyhalothrin  (EXP)
cylindrospermopsin  (ISO)
DDT  (EXP)
deoxycholic acid  (EXP)
dexamethasone  (EXP)
dichloroacetic acid  (ISO)
endosulfan  (ISO)
ethanol  (EXP)
farnesol  (EXP)
fipronil  (EXP)
flavonoids  (EXP)
flutamide  (EXP)
Furafylline  (EXP)
gamma-hexachlorocyclohexane  (EXP)
genistein  (EXP)
glafenine  (EXP)
hexamethylphosphoric triamide  (ISO)
imipramine  (EXP)
ketoconazole  (EXP)
L-ethionine  (EXP)
leflunomide  (EXP)
lipopolysaccharide  (ISO)
lithocholic acid  (EXP)
m-xylene  (EXP)
methimazole  (EXP)
methoxsalen  (EXP,ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (EXP)
metyrapone  (ISO)
miconazole  (ISO)
monosodium L-glutamate  (EXP)
N'-Nitrosoanabasine  (ISO)
N'-Nitrosoanatabine  (ISO)
N'-Nitrosonornicotine  (ISO)
N,N-diethyl-m-toluamide  (ISO)
N,N-dimethylaniline  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-Nitrosoguvacoline  (ISO)
N-Nitrosopyrrolidine  (ISO)
NADP zwitterion  (ISO)
NADP(+)  (ISO)
naphthalene  (ISO)
nicotine  (EXP,ISO)
nimesulide  (EXP)
O-methyleugenol  (ISO)
omeprazole  (EXP)
organoselenium compound  (ISO)
oxycodone  (EXP)
phenanthrene  (ISO)
phenanthrenes  (ISO)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
pyrrolidine dithiocarbamate  (ISO)
quinomethionate  (ISO)
raloxifene  (EXP)
rifampicin  (EXP,ISO)
semicarbazide  (EXP)
senecionine  (ISO)
skatole  (ISO)
sodium dichromate  (EXP)
streptozocin  (EXP,ISO)
tamoxifen  (EXP)
taurocholic acid  (EXP)
testosterone  (EXP)
testosterone enanthate  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
toluene  (EXP)
tranylcypromine  (ISO)
trichloroethene  (EXP)
Triptolide  (ISO)
vinclozolin  (EXP)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:2650624   PMID:3436956   PMID:22217848  


Genomics

Comparative Map Data
Cyp2a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2182,231,611 - 82,244,887 (+)NCBI
Rnor_6.0 Ensembl183,653,234 - 83,766,484 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0183,711,223 - 83,725,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0184,925,733 - 84,938,423 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4182,006,828 - 82,020,282 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1182,084,938 - 82,098,390 (+)NCBI
Celera176,649,089 - 76,662,287 (+)NCBICelera
Cytogenetic Map1q21NCBI
CYP2A13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1941,088,451 - 41,096,195 (+)EnsemblGRCh38hg38GRCh38
GRCh381941,088,451 - 41,096,195 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371941,594,356 - 41,602,100 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361946,286,208 - 46,293,939 (+)NCBINCBI36hg18NCBI36
Build 341946,286,207 - 46,293,939NCBI
Celera1938,394,537 - 38,402,261 (+)NCBI
Cytogenetic Map19q13.2NCBI
HuRef1938,026,475 - 38,034,212 (+)NCBIHuRef
CHM1_11941,594,072 - 41,601,816 (+)NCBICHM1_1
Cyp2a22
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39726,631,056 - 26,638,838 (-)NCBIGRCm39mm39
GRCm39 Ensembl726,631,056 - 26,638,809 (-)Ensembl
GRCm38726,931,631 - 26,939,413 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl726,931,631 - 26,939,384 (-)EnsemblGRCm38mm10GRCm38
MGSCv37727,716,650 - 27,724,405 (-)NCBIGRCm37mm9NCBIm37
MGSCv36726,640,391 - 26,648,146 (-)NCBImm8
MGSCv36719,166,984 - 19,174,739 (-)NCBImm8
Celera721,502,433 - 21,510,189 (-)NCBICelera
Cytogenetic Map7A3NCBI
CYP2A13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,932,246 - 112,938,248 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,931,985 - 112,938,350 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1112,334,931 - 112,340,932 (-)NCBI
ROS_Cfam_1.01113,530,545 - 113,536,550 (-)NCBI
UMICH_Zoey_3.11113,090,324 - 113,096,328 (-)NCBI
UNSW_CanFamBas_1.01112,722,239 - 112,728,251 (-)NCBI
UU_Cfam_GSD_1.01113,716,309 - 113,722,322 (-)NCBI
CYP2A19
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl649,056,578 - 49,064,107 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1649,056,579 - 49,064,111 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2644,872,084 - 44,877,470 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
D1Wox16  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2182,174,743 - 82,174,945 (+)MAPPER
Rnor_6.0183,656,882 - 83,657,083NCBIRnor6.0
Rnor_5.0184,871,364 - 84,871,565UniSTSRnor5.0
RGSC_v3.4181,947,770 - 81,947,972RGDRGSC3.4
RGSC_v3.4181,947,771 - 81,947,972UniSTSRGSC3.4
RGSC_v3.1182,025,881 - 82,026,083RGD
Celera176,593,887 - 76,594,088UniSTS
RH 3.4 Map1826.1UniSTS
RH 3.4 Map1826.1RGD
RH 2.0 Map1515.9RGD
Cytogenetic Map1q21UniSTS
D1Mco22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2182,230,245 - 82,230,468 (+)MAPPER
Rnor_6.0183,709,886 - 83,710,108NCBIRnor6.0
Rnor_5.0184,924,368 - 84,924,590UniSTSRnor5.0
RGSC_v3.4182,005,462 - 82,005,685RGDRGSC3.4
RGSC_v3.4182,005,463 - 82,005,685UniSTSRGSC3.4
RGSC_v3.1182,083,573 - 82,083,796RGD
Celera176,647,724 - 76,647,946UniSTS
Cytogenetic Map1q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13537750894364229Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14190724986907249Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14957857794578577Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15052271494225616Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)164588516125875986Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)166113339122614963Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)16722768394201552Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)179134941113593716Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)179689548124689548Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17968976594909507Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)183502376128502376Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)183656882126240667Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:92
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000028237
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.


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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 23 23 23 11
Low 17 14 14 2 2 6 1 8 2
Below cutoff 8 17 4 17 4 6 7 24 10 14 6

Sequence


Reference Sequences
RefSeq Acc Id: NM_012692   ⟹   NP_036824
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,231,611 - 82,244,887 (+)NCBI
Rnor_6.0183,711,251 - 83,724,936 (+)NCBI
Rnor_5.0184,925,733 - 84,938,423 (+)NCBI
RGSC_v3.4182,006,828 - 82,020,282 (+)RGD
Celera176,649,089 - 76,662,287 (+)RGD
Sequence:
RefSeq Acc Id: XM_008759105   ⟹   XP_008757327
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,711,223 - 83,725,222 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008759106   ⟹   XP_008757328
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,711,223 - 83,725,222 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_036824 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41020 (Get FASTA)   NCBI Sequence Viewer  
  AAA41030 (Get FASTA)   NCBI Sequence Viewer  
  AAH81848 (Get FASTA)   NCBI Sequence Viewer  
  P11711 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_036824   ⟸   NM_012692
- UniProtKB: P11711 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008757328   ⟸   XM_008759106
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008757327   ⟸   XM_008759105
- Peptide Label: isoform X1
- Sequence:

Transcriptome

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

Promoters
RGD ID:13689839
Promoter ID:EPDNEW_R364
Type:multiple initiation site
Name:Cyp2a1_1
Description:cytochrome P450, family 2, subfamily a, polypeptide 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R365  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,711,245 - 83,711,305EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2463 AgrOrtholog
Ensembl Genes ENSRNOG00000020817 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000028237 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000028249 UniProtKB/TrEMBL
  ENSRNOP00000068901 UniProtKB/TrEMBL
  ENSRNOP00000070405 UniProtKB/TrEMBL
  ENSRNOP00000071749 UniProtKB/TrEMBL
  ENSRNOP00000075563 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028237 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000028249 UniProtKB/TrEMBL
  ENSRNOT00000085008 UniProtKB/TrEMBL
  ENSRNOT00000085245 UniProtKB/TrEMBL
  ENSRNOT00000090071 UniProtKB/TrEMBL
  ENSRNOT00000092008 UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135880 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_CYP2A-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24894 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93632 IMAGE-MGC_LOAD
NCBI Gene 24894 ENTREZGENE
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyp2a1 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EP450ICYP2A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC215723
UniProt A0A0G2JTZ5_RAT UniProtKB/TrEMBL
  A0A0G2JXU4_RAT UniProtKB/TrEMBL
  A0A0G2K193_RAT UniProtKB/TrEMBL
  A0A0G2KAX4_RAT UniProtKB/TrEMBL
  CP2A1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Z4YNS8_RAT UniProtKB/TrEMBL
UniProt Secondary Q642C5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-19 Cyp2a1  cytochrome P450, family 2, subfamily a, polypeptide 1  Cyp2a1  cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-19 Cyp2a1  cytochrome P450, family 2, subfamily a, polypeptide 1  Cyp2a1  cytochrome P450, family 2, subfamily a, polypeptide 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-09-27 Cyp2j5-ps  cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene  Cyp2a1  Cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene  Name updated 1299863 APPROVED
2007-04-26 Cyp2a1  Cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene  Shdl_mapped  steroid hydroxylase, hepatic (mapped)  Data Merged 737654 APPROVED
2005-11-17 Shdl_mapped  steroid hydroxylase, hepatic (mapped)  Shdl  steroid hydroxylase, hepatic  Symbol and Name updated 1556543 APPROVED
2003-04-09 Shdl  steroid hydroxylase, hepatic    Steroid hydroxylase, hepatic  Name updated 629478 APPROVED
2002-06-10 Cyp2a1  Cytochrome P450 IIA1 (hepatic steroid hydroxylase IIA1) gene      Symbol and Name status set to approved 70586 APPROVED
2002-06-10 Shdl  Steroid hydroxylase, hepatic      Symbol and Name status set to approved 70586 APPROVED