Ppil6 (peptidylprolyl isomerase like 6) - Rat Genome Database

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Gene: Ppil6 (peptidylprolyl isomerase like 6) Rattus norvegicus
Analyze
Symbol: Ppil6
Name: peptidylprolyl isomerase like 6
RGD ID: 1592581
Description: Predicted to be involved in protein folding and protein peptidyl-prolyl isomerization. Predicted to localize to cytoplasm. Orthologous to human PPIL6 (peptidylprolyl isomerase like 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC685567; peptidyl-prolyl cis-trans isomerase-like 6; peptidylprolyl isomerase (cyclophilin)-like 6; probable inactive peptidyl-prolyl cis-trans isomerase-like 6; similar to peptidylprolyl isomerase (cyclophilin)-like 6
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
mRatBN7.22044,989,509 - 45,017,833 (+)NCBI
Rnor_6.0 Ensembl2046,215,379 - 46,243,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02046,215,317 - 46,244,522 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02047,907,634 - 47,936,073 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42045,452,083 - 45,479,879 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2054,935,648 - 54,964,134 (-)NCBICelera
Cytogenetic Map20q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:20676357  


Genomics

Comparative Map Data
Ppil6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22044,989,509 - 45,017,833 (+)NCBI
Rnor_6.0 Ensembl2046,215,379 - 46,243,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02046,215,317 - 46,244,522 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02047,907,634 - 47,936,073 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42045,452,083 - 45,479,879 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2054,935,648 - 54,964,134 (-)NCBICelera
Cytogenetic Map20q12NCBI
PPIL6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6109,390,215 - 109,441,171 (-)EnsemblGRCh38hg38GRCh38
GRCh386109,390,215 - 109,441,171 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376109,711,418 - 109,762,374 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366109,820,624 - 109,868,524 (-)NCBINCBI36hg18NCBI36
Build 346109,820,623 - 109,868,522NCBI
Celera6110,458,002 - 110,508,958 (-)NCBI
Cytogenetic Map6q21NCBI
HuRef6107,277,598 - 107,328,460 (-)NCBIHuRef
CHM1_16109,974,514 - 110,025,457 (-)NCBICHM1_1
Ppil6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391041,366,414 - 41,390,291 (+)NCBIGRCm39mm39
GRCm39 Ensembl1041,366,435 - 41,390,282 (+)Ensembl
GRCm381041,490,371 - 41,514,295 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1041,490,439 - 41,514,286 (+)EnsemblGRCm38mm10GRCm38
MGSCv371041,210,245 - 41,234,094 (+)NCBIGRCm37mm9NCBIm37
MGSCv361041,178,854 - 41,202,705 (+)NCBImm8
Celera1042,376,692 - 42,400,533 (+)NCBICelera
Cytogenetic Map10B1- B2NCBI
Ppil6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541134,452,864 - 34,481,366 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541134,449,508 - 34,481,370 (-)NCBIChiLan1.0ChiLan1.0
PPIL6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16111,242,022 - 111,292,657 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6111,242,022 - 111,292,657 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06107,193,192 - 107,244,193 (-)NCBIMhudiblu_PPA_v0panPan3
PPIL6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11266,316,326 - 66,347,991 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1266,316,425 - 66,342,950 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1266,135,976 - 66,167,216 (-)NCBI
ROS_Cfam_1.01267,198,984 - 67,230,466 (-)NCBI
UMICH_Zoey_3.11266,549,196 - 66,580,435 (-)NCBI
UNSW_CanFamBas_1.01266,398,045 - 66,429,274 (-)NCBI
UU_Cfam_GSD_1.01266,669,784 - 66,701,009 (-)NCBI
Ppil6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946101,258,089 - 101,290,271 (-)NCBI
SpeTri2.0NW_0049365645,533,417 - 5,565,105 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPIL6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl175,463,222 - 75,508,271 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1175,465,290 - 75,508,250 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2184,743,267 - 84,786,213 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PPIL6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11364,426,995 - 64,472,167 (+)NCBI
Ppil6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624916671,373 - 697,867 (-)NCBI

Position Markers
BE106860  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22045,011,117 - 45,011,282 (+)MAPPER
Rnor_6.02046,237,490 - 46,237,654NCBIRnor6.0
Rnor_5.02047,929,845 - 47,930,009UniSTSRnor5.0
RGSC_v3.42045,473,662 - 45,473,826UniSTSRGSC3.4
Celera2054,942,524 - 54,942,688UniSTS
RH 3.4 Map20485.5UniSTS
Cytogenetic Map20q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201887215049108956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:55
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000066634, ENSRNOT00000068693
Prediction methods: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.


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 48 6 15 3
Low 3 34 32 16 19 16 2 2 26 29 26 8 2
Below cutoff 9 25 25 25 5 8 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066634   ⟹   ENSRNOP00000061264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2046,215,379 - 46,236,848 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000068693   ⟹   ENSRNOP00000061000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2046,215,379 - 46,243,707 (+)Ensembl
RefSeq Acc Id: XM_001064326   ⟹   XP_001064326
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22044,989,509 - 45,017,833 (+)NCBI
Rnor_6.02046,215,318 - 46,244,522 (+)NCBI
Rnor_5.02047,907,634 - 47,936,073 (+)NCBI
RGSC_v3.42045,452,083 - 45,479,879 (+)RGD
Sequence:
RefSeq Acc Id: XM_002725882   ⟹   XP_002725928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera2054,935,648 - 54,964,134 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017588088   ⟹   XP_017443577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera2054,935,648 - 54,964,134 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601826   ⟹   XP_017457315
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22044,989,509 - 45,017,833 (+)NCBI
Rnor_6.02046,215,317 - 46,244,522 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099297   ⟹   XP_038955225
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22044,989,509 - 45,014,031 (+)NCBI
Protein Sequences
Protein RefSeqs XP_001064326 (Get FASTA)   NCBI Sequence Viewer  
  XP_017457315 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955225 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_002725928   ⟸   XM_002725882
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_001064326   ⟸   XM_001064326
- Peptide Label: isoform X2
- UniProtKB: D4A1I9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017443577   ⟸   XM_017588088
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457315   ⟸   XM_017601826
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000061000   ⟸   ENSRNOT00000068693
RefSeq Acc Id: ENSRNOP00000061264   ⟸   ENSRNOT00000066634
RefSeq Acc Id: XP_038955225   ⟸   XM_039099297
- Peptide Label: isoform X3
Protein Domains
PPIase cyclophilin-type

Transcriptome

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

Promoters
RGD ID:13701666
Promoter ID:EPDNEW_R12187
Type:single initiation site
Name:Ppil6_1
Description:peptidylprolyl isomerase like 6
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_6.02046,215,360 - 46,215,420EPDNEW

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)
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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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 46240728 46240729 T C snv MR/N (MCW), WKY/NCrl (RGD), SS/Jr (RGD), WKY/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592581 AgrOrtholog
Ensembl Genes ENSRNOG00000043186 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000061000 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000061264 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066634 UniProtKB/TrEMBL
  ENSRNOT00000068693 UniProtKB/TrEMBL
Gene3D-CATH 2.40.100.10 UniProtKB/TrEMBL
InterPro Cyclophilin-like_dom UniProtKB/TrEMBL
  PPIase_cyclophilin UniProtKB/TrEMBL
KEGG Report rno:685567 UniProtKB/TrEMBL
NCBI Gene 685567 ENTREZGENE
Pfam Pro_isomerase UniProtKB/TrEMBL
PhenoGen Ppil6 PhenoGen
PRINTS CSAPPISMRASE UniProtKB/TrEMBL
PROSITE CSA_PPIASE_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF50891 UniProtKB/TrEMBL
UniProt D4A1I9 ENTREZGENE, UniProtKB/TrEMBL
  D4A5Z2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Ppil6  peptidylprolyl isomerase like 6  Ppil6  peptidylprolyl isomerase (cyclophilin)-like 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Ppil6  peptidylprolyl isomerase (cyclophilin)-like 6  LOC684245  similar to peptidylprolyl isomerase (cyclophilin)-like 6  Data Merged 1643240 APPROVED
2008-03-05 Ppil6  peptidylprolyl isomerase (cyclophilin)-like 6  LOC685567  similar to peptidylprolyl isomerase (cyclophilin)-like 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC685567  similar to peptidylprolyl isomerase (cyclophilin)-like 6      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684245  similar to peptidylprolyl isomerase (cyclophilin)-like 6      Symbol and Name status set to provisional 70820 PROVISIONAL