Parl (presenilin associated, rhomboid-like) - Rat Genome Database
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Gene: Parl (presenilin associated, rhomboid-like) Rattus norvegicus
Analyze
Symbol: Parl
Name: presenilin associated, rhomboid-like
RGD ID: 1306191
Description: Predicted to have serine-type endopeptidase activity. Involved in neuron differentiation and response to nutrient levels. Localizes to mitochondrion and nucleus. Human ortholog(s) of this gene implicated in Leber hereditary optic neuropathy; coronary artery disease; hyperinsulinism; myopia; and type 2 diabetes mellitus. Orthologous to human PARL (presenilin associated rhomboid like); PARTICIPATES IN mitochondrial autophagy pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC287979; MGC125008; mitochondrial intramembrane-cleaving protease PARL; presenilins-associated rhomboid-like protein, mitochondrial; Psarl
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
mRatBN7.21180,594,059 - 80,620,506 (+)NCBI
Rnor_6.0 Ensembl1184,517,368 - 84,544,462 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01184,517,368 - 84,544,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01187,581,642 - 87,607,939 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41182,836,666 - 82,864,977 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11182,894,267 - 82,922,572 (+)NCBI
Celera1179,434,291 - 79,460,794 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Andrew T, etal., PLoS Genet. 2008 Oct;4(10):e1000220. doi: 10.1371/journal.pgen.1000220. Epub 2008 Oct 10.
2. Borengasser SJ, etal., Physiol Genomics. 2014 Dec 1;46(23):841-50. doi: 10.1152/physiolgenomics.00059.2014. Epub 2014 Oct 21.
3. Canzoneri R, etal., Tumour Biol. 2014 Feb;35(2):1451-8. doi: 10.1007/s13277-013-1199-8. Epub 2013 Nov 2.
4. Cipolat S, etal., Cell. 2006 Jul 14;126(1):163-75.
5. Civitarese AE, etal., Cell Metab. 2010 May 5;11(5):412-26. doi: 10.1016/j.cmet.2010.04.004.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Hatunic M, etal., Diabetes Res Clin Pract. 2009 Mar;83(3):316-9. doi: 10.1016/j.diabres.2008.12.004. Epub 2009 Jan 29.
8. Phasukkijwatana N, etal., Hum Genet. 2010 Jul;128(1):39-49. doi: 10.1007/s00439-010-0821-8. Epub 2010 Apr 21.
9. Powell BL, etal., Hum Genet. 2008 Oct;124(3):263-70. doi: 10.1007/s00439-008-0552-2. Epub 2008 Aug 30.
10. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. RGD automated import pipeline for gene-chemical interactions
12. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
13. Sík A, etal., J Biol Chem. 2004 Apr 9;279(15):15323-9. Epub 2004 Jan 19.
14. Tang H, etal., Endocrine. 2009 Dec;36(3):524-9. doi: 10.1007/s12020-009-9270-3. Epub 2009 Oct 27.
15. Walder K, etal., Diabetologia. 2005 Mar;48(3):459-68. Epub 2005 Feb 24.
16. Wu H and Chen Q, Antioxid Redox Signal. 2015 Apr 20;22(12):1032-46. doi: 10.1089/ars.2014.6204. Epub 2015 Feb 10.
17. Yoshioka H, etal., J Cereb Blood Flow Metab. 2013 Nov;33(11):1658-65. doi: 10.1038/jcbfm.2013.139. Epub 2013 Aug 7.
18. Zhang AM, etal., Hum Genet. 2010 Oct;128(4):465-8. doi: 10.1007/s00439-010-0875-7. Epub 2010 Aug 14.
Additional References at PubMed
PMID:15489334   PMID:18614015   PMID:21138942   PMID:21355049   PMID:21426348   PMID:22354088  


Genomics

Comparative Map Data
Parl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21180,594,059 - 80,620,506 (+)NCBI
Rnor_6.0 Ensembl1184,517,368 - 84,544,462 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01184,517,368 - 84,544,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01187,581,642 - 87,607,939 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41182,836,666 - 82,864,977 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11182,894,267 - 82,922,572 (+)NCBI
Celera1179,434,291 - 79,460,794 (+)NCBICelera
Cytogenetic Map11q23NCBI
PARL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3183,829,271 - 183,884,933 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl3183,815,568 - 183,884,889 (-)EnsemblGRCh38hg38GRCh38
GRCh383183,826,488 - 183,884,901 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373183,543,522 - 183,602,693 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh373183,547,059 - 183,602,668 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363185,029,867 - 185,085,387 (-)NCBINCBI36hg18NCBI36
Build 343185,029,881 - 185,085,356NCBI
Celera3181,990,550 - 182,046,014 (-)NCBI
Cytogenetic Map3q27.1NCBI
HuRef3180,956,508 - 181,012,355 (-)NCBIHuRef
CHM1_13183,511,499 - 183,567,011 (-)NCBICHM1_1
Parl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391620,098,570 - 20,121,161 (-)NCBIGRCm39mm39
GRCm381620,279,820 - 20,302,395 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1620,279,818 - 20,302,387 (-)EnsemblGRCm38mm10GRCm38
MGSCv371620,279,893 - 20,302,435 (-)NCBIGRCm37mm9NCBIm37
MGSCv361620,193,363 - 20,215,905 (-)NCBImm8
Celera1620,843,305 - 20,865,847 (-)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1612.4NCBI
Parl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542023,549,125 - 23,581,782 (+)NCBIChiLan1.0ChiLan1.0
PARL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13189,032,605 - 189,088,091 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3189,032,816 - 189,088,036 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03180,862,434 - 180,921,197 (-)NCBIMhudiblu_PPA_v0panPan3
PARL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3416,781,139 - 16,837,545 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13416,790,049 - 16,837,557 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Parl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365785,945,765 - 5,992,972 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PARL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.113121,758,734 - 121,813,679 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213131,193,528 - 131,248,518 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PARL
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1155,536,556 - 5,589,522 (+)NCBI
ChlSab1.1 Ensembl155,536,610 - 5,590,825 (+)Ensembl
Parl
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473072,642,828 - 72,683,820 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114309033886714631Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114658320986714631Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114726402386994547Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115785881090463843Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115994302390463843Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116010984287141948Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)116265336586714475Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116265336586714483Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116449467190463843Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116934231986312439Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116964970890463843Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117272002986994795Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)118035840887200449Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:146
Count of miRNA genes:106
Interacting mature miRNAs:113
Transcripts:ENSRNOT00000030837, ENSRNOT00000071076
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

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 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000030837   ⟹   ENSRNOP00000029124
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1184,517,368 - 84,544,462 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000071076   ⟹   ENSRNOP00000064548
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1184,517,410 - 84,544,318 (+)Ensembl
RefSeq Acc Id: NM_001035249   ⟹   NP_001030326
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21180,594,077 - 80,620,497 (+)NCBI
Rnor_6.01184,517,368 - 84,544,463 (+)NCBI
Rnor_5.01187,581,642 - 87,607,939 (+)NCBI
RGSC_v3.41182,836,666 - 82,864,977 (+)RGD
Celera1179,434,291 - 79,460,794 (+)RGD
Sequence:
RefSeq Acc Id: XM_039088087   ⟹   XP_038944015
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21180,594,070 - 80,620,506 (+)NCBI
RefSeq Acc Id: XM_039088088   ⟹   XP_038944016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21180,594,059 - 80,620,506 (+)NCBI
RefSeq Acc Id: XM_039088089   ⟹   XP_038944017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21180,594,060 - 80,620,506 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001030326   ⟸   NM_001035249
- Peptide Label: precursor
- UniProtKB: Q3B8P0 (UniProtKB/Swiss-Prot),   B0BMU4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000064548   ⟸   ENSRNOT00000071076
RefSeq Acc Id: ENSRNOP00000029124   ⟸   ENSRNOT00000030837
RefSeq Acc Id: XP_038944016   ⟸   XM_039088088
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944017   ⟸   XM_039088089
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038944015   ⟸   XM_039088087
- Peptide Label: isoform X1
Protein Domains
Rhomboid

Transcriptome

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

Promoters
RGD ID:13698288
Promoter ID:EPDNEW_R8809
Type:initiation region
Name:Parl_1
Description:presenilin associated, rhomboid-like
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_6.01184,517,397 - 84,517,457EPDNEW

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)
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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:1306191 AgrOrtholog
Ensembl Genes ENSRNOG00000023271 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000029124 UniProtKB/TrEMBL
  ENSRNOP00000064548 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030837 UniProtKB/TrEMBL
  ENSRNOT00000071076 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.1540.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7322400 IMAGE-MGC_LOAD
  IMAGE:8374563 IMAGE-MGC_LOAD
InterPro Peptidase_S54_rhomboid_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rhomboid-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:287979 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:108980 IMAGE-MGC_LOAD
  MGC:187258 IMAGE-MGC_LOAD
NCBI Gene 287979 ENTREZGENE
Pfam Rhomboid UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Parl PhenoGen
UniProt B0BMU4 ENTREZGENE, UniProtKB/TrEMBL
  F1LPN4_RAT UniProtKB/TrEMBL
  M0R589_RAT UniProtKB/TrEMBL
  PARL_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q5I0L2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Parl  presenilin associated, rhomboid-like  Psarl  presenilin associated, rhomboid-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Psarl  presenilin associated, rhomboid-like  Psarl_predicted  presenilin associated, rhomboid-like (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Psarl_predicted  presenilin associated, rhomboid-like (predicted)      Symbol and Name status set to approved 70820 APPROVED