Pgrmc1 (progesterone receptor membrane component 1) - Rat Genome Database

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Gene: Pgrmc1 (progesterone receptor membrane component 1) Rattus norvegicus
Analyze
Symbol: Pgrmc1
Name: progesterone receptor membrane component 1
RGD ID: 70890
Description: Predicted to have heme binding activity and protein homodimerization activity. Involved in several processes, including learning or memory; modification of synaptic structure; and positive regulation of protein localization to plasma membrane. Localizes to neuron projection; neuronal cell body; and synapse. Orthologous to human PGRMC1 (progesterone receptor membrane component 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 25-Dx; 25Dx; acidic 25 kDa protein; membrane-associated progesterone receptor component 1; membrane-bound progesterone receptor; MPR; VEMA; ventral midline antigen
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X115,832,865 - 115,841,060 (+)NCBI
Rnor_6.0 EnsemblX123,205,869 - 123,213,882 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X123,205,869 - 123,213,880 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X123,352,144 - 123,360,155 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X8,265,543 - 8,273,667 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X8,271,098 - 8,279,223 (-)NCBI
CeleraX115,065,055 - 115,073,267 (+)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
afimoxifene  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
captan  (ISO)
carbamazepine  (EXP)
carbon nanotube  (ISO)
cetrorelix  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
desogestrel  (ISO)
diethyl maleate  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
felbamate  (EXP)
fipronil  (EXP)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
gefitinib  (ISO)
genistein  (ISO)
glafenine  (EXP)
isotretinoin  (ISO)
L-ethionine  (EXP)
menadione  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
omeprazole  (EXP)
oxaliplatin  (EXP)
p-toluidine  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP)
phenytoin  (EXP)
pirinixic acid  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
procymidone  (EXP)
progesterone  (EXP)
rac-lactic acid  (ISO)
resveratrol  (EXP)
SB 431542  (ISO)
sodium arsenite  (ISO)
tamoxifen  (ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
valproic acid  (ISO)
venlafaxine hydrochloride  (EXP)
vincaleukoblastine  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:11087948   PMID:15033482   PMID:15207350   PMID:15489334   PMID:15570619   PMID:15934950   PMID:16279947   PMID:16641100   PMID:17991724   PMID:19946888   PMID:20144686   PMID:20977928  
PMID:21148105   PMID:21730960   PMID:22147012   PMID:22719051   PMID:22778217   PMID:23211561   PMID:23242527   PMID:23376485   PMID:23653459   PMID:25002582   PMID:25253729   PMID:26335282  
PMID:26988023   PMID:27599036   PMID:31748741  


Genomics

Comparative Map Data
Pgrmc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X115,832,865 - 115,841,060 (+)NCBI
Rnor_6.0 EnsemblX123,205,869 - 123,213,882 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X123,205,869 - 123,213,880 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X123,352,144 - 123,360,155 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X8,265,543 - 8,273,667 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X8,271,098 - 8,279,223 (-)NCBI
CeleraX115,065,055 - 115,073,267 (+)NCBICelera
Cytogenetic MapXq35NCBI
PGRMC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX119,236,245 - 119,244,466 (+)EnsemblGRCh38hg38GRCh38
GRCh38X119,236,285 - 119,244,466 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X118,370,248 - 118,378,429 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X118,254,291 - 118,262,457 (+)NCBINCBI36hg18NCBI36
Build 34X118,152,144 - 118,160,310NCBI
CeleraX118,824,941 - 118,833,159 (+)NCBI
Cytogenetic MapXq24NCBI
HuRefX107,864,078 - 107,872,271 (+)NCBIHuRef
CHM1_1X118,281,443 - 118,289,662 (+)NCBICHM1_1
Pgrmc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X35,861,846 - 35,869,732 (+)NCBIGRCm39mm39
GRCm39 EnsemblX35,861,859 - 35,869,732 (+)Ensembl
GRCm38X36,598,193 - 36,606,079 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX36,598,206 - 36,606,079 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X34,138,220 - 34,146,074 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X33,029,670 - 33,037,524 (+)NCBImm8
CeleraX23,322,277 - 23,330,131 (+)NCBICelera
Cytogenetic MapXA3.3NCBI
Pgrmc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955534698,734 - 706,946 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955534698,895 - 706,586 (-)NCBIChiLan1.0ChiLan1.0
PGRMC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X118,711,495 - 118,719,714 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX118,711,495 - 118,719,714 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X108,282,958 - 108,291,187 (+)NCBIMhudiblu_PPA_v0panPan3
PGRMC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X91,329,243 - 91,337,951 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX91,329,243 - 91,337,951 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX77,405,200 - 77,413,908 (+)NCBI
ROS_Cfam_1.0X93,069,899 - 93,078,605 (+)NCBI
UMICH_Zoey_3.1X90,522,743 - 90,531,448 (+)NCBI
UNSW_CanFamBas_1.0X92,281,492 - 92,290,197 (+)NCBI
UU_Cfam_GSD_1.0X92,010,000 - 92,018,705 (+)NCBI
Pgrmc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X90,353,427 - 90,361,506 (+)NCBI
SpeTri2.0NW_00493647910,625,989 - 10,634,058 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PGRMC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX97,735,328 - 97,743,421 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X97,735,402 - 97,743,424 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X113,925,761 - 113,933,800 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PGRMC1
(Chlorocebus sabaeus - African green monkey)
No map positions available.
Pgrmc1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248953,265,326 - 3,273,531 (+)NCBI

Position Markers
RH139267  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01934,204,203 - 34,204,330NCBIRnor6.0
Rnor_5.01945,084,621 - 45,084,748UniSTSRnor5.0
RGSC_v3.41932,324,466 - 32,324,593UniSTSRGSC3.4
Celera1929,992,287 - 29,992,414UniSTS
RH 3.4 Map19234.8UniSTS
Cytogenetic Map19q11UniSTS
Cytogenetic MapXq12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X70352120127888215Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X82930791127930791Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X101333032146333032Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX107886746152409805Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X110957467155957467Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X110957467155957467Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118715462159970021Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX120045041143145818Rat
5685004Bss104Bone structure and strength QTL 1043.9tibia area (VT:1000281)tibia area measurement (CMO:0001382)X121442246134627946Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:311
Count of miRNA genes:188
Interacting mature miRNAs:235
Transcripts:ENSRNOT00000017101
Prediction methods:Miranda, Pita, Pita,Targetscan, 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.


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
Medium 3 43 57 41 19 41 4 4 74 35 41 11 4
Low 4 7 4
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017101   ⟹   ENSRNOP00000017101
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX123,205,869 - 123,213,882 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079231   ⟹   ENSRNOP00000071066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX123,205,891 - 123,212,727 (+)Ensembl
RefSeq Acc Id: NM_021766   ⟹   NP_068534
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X115,832,865 - 115,841,060 (+)NCBI
Rnor_6.0X123,205,869 - 123,213,880 (+)NCBI
Rnor_5.0X123,352,144 - 123,360,155 (+)NCBI
RGSC_v3.4X8,265,543 - 8,273,667 (-)RGD
CeleraX115,065,055 - 115,073,267 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_068534 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB07125 (Get FASTA)   NCBI Sequence Viewer  
  AAF17359 (Get FASTA)   NCBI Sequence Viewer  
  AAH62073 (Get FASTA)   NCBI Sequence Viewer  
  CAA06732 (Get FASTA)   NCBI Sequence Viewer  
  P70580 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_068534   ⟸   NM_021766
- Sequence:
RefSeq Acc Id: ENSRNOP00000071066   ⟸   ENSRNOT00000079231
RefSeq Acc Id: ENSRNOP00000017101   ⟸   ENSRNOT00000017101
Protein Domains
Cytochrome b5 heme-binding

Transcriptome

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

Promoters
RGD ID:13701981
Promoter ID:EPDNEW_R12504
Type:multiple initiation site
Name:Pgrmc1_1
Description:progesterone receptor membrane component 1
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_6.0X123,205,872 - 123,205,932EPDNEW

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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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:70890 AgrOrtholog
Ensembl Genes ENSRNOG00000012786 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017101 UniProtKB/TrEMBL
  ENSRNOP00000071066 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017101 UniProtKB/TrEMBL
  ENSRNOT00000079231 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.120.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5599449 IMAGE-MGC_LOAD
InterPro Cyt_B5-like_heme/steroid-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_B5-like_heme/steroid_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:291948 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72462 IMAGE-MGC_LOAD
NCBI Gene 291948 ENTREZGENE
Pfam Cyt-b5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pgrmc1 PhenoGen
SMART Cyt-b5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55856 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0H2UHK2_RAT UniProtKB/TrEMBL
  P70580 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O70606 UniProtKB/Swiss-Prot
  Q549C4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-07-09 Pgrmc1  progesterone receptor membrane component 1      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_drugs mRNA expression is induced by 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 70623