Plcl1 (phospholipase C-like 1) - Rat Genome Database
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Gene: Plcl1 (phospholipase C-like 1) Rattus norvegicus
Analyze
Symbol: Plcl1
Name: phospholipase C-like 1
RGD ID: 708420
Description: Exhibits GABA receptor binding activity. Predicted to be involved in several processes, including gamma-aminobutyric acid signaling pathway; negative regulation of cold-induced thermogenesis; and phosphatidylinositol-mediated signaling. Predicted to localize to plasma membrane. Orthologous to human PLCL1 (phospholipase C like 1 (inactive)); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 130kDa-Ins(1,4,5)P3 binding protein; inactive phospholipase C-like protein 1; LOC84587; p130; phospholipase C-related but catalytically inactive protein; PLC-L1; PRIP1
Orthologs:
Homo sapiens (human) : PLCL1 (phospholipase C like 1 (inactive))  HGNC  Alliance
Mus musculus (house mouse) : Plcl1 (phospholipase C-like 1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Plcl1 (phospholipase C like 1 (inactive))
Pan paniscus (bonobo/pygmy chimpanzee) : PLCL1 (phospholipase C like 1 (inactive))
Canis lupus familiaris (dog) : PLCL1 (phospholipase C like 1 (inactive))
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Plcl1 (phospholipase C like 1 (inactive))
Sus scrofa (pig) : PLCL1 (phospholipase C like 1)
Chlorocebus sabaeus (African green monkey) : PLCL1 (phospholipase C like 1 (inactive))
Heterocephalus glaber (naked mole-rat) : Plcl1 (phospholipase C like 1 (inactive))
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0962,016,112 - 62,349,244 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl962,291,405 - 62,349,309 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0961,824,561 - 62,158,071 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4954,207,542 - 54,546,228 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1954,335,647 - 54,676,737 (+)NCBI
Celera954,380,510 - 54,712,666 (+)NCBICelera
Cytogenetic Map9q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
plasma membrane  (IEA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:15464766  


Genomics

Comparative Map Data
Plcl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0962,016,112 - 62,349,244 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl962,291,405 - 62,349,309 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0961,824,561 - 62,158,071 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4954,207,542 - 54,546,228 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1954,335,647 - 54,676,737 (+)NCBI
Celera954,380,510 - 54,712,666 (+)NCBICelera
Cytogenetic Map9q31NCBI
PLCL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2197,804,593 - 198,572,581 (+)EnsemblGRCh38hg38GRCh38
GRCh382197,804,593 - 198,149,873 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372198,669,426 - 199,014,608 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362198,539,545 - 198,721,293 (+)NCBINCBI36hg18NCBI36
Build 342198,656,805 - 198,838,554NCBI
Celera2192,425,193 - 192,770,374 (+)NCBI
Cytogenetic Map2q33.1NCBI
HuRef2190,521,603 - 190,866,928 (+)NCBIHuRef
CHM1_12198,675,428 - 199,020,595 (+)NCBICHM1_1
Plcl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39155,442,722 - 55,793,444 (+)NCBI
GRCm38155,405,946 - 55,754,285 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl155,405,921 - 55,754,285 (+)EnsemblGRCm38mm10GRCm38
MGSCv37155,462,790 - 55,811,129 (+)NCBIGRCm37mm9NCBIm37
MGSCv36155,653,237 - 56,014,883 (+)NCBImm8
Celera155,926,260 - 56,273,512 (+)NCBICelera
Cytogenetic Map1C1.2NCBI
Plcl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554032,641,360 - 2,693,352 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554032,643,092 - 2,904,651 (-)NCBIChiLan1.0ChiLan1.0
PLCL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B202,947,931 - 203,286,656 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B202,947,927 - 203,286,649 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B85,054,907 - 85,397,171 (+)NCBIMhudiblu_PPA_v0panPan3
PLCL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl377,235,424 - 7,562,708 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1377,235,403 - 7,575,429 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Plcl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365061,124,318 - 1,457,842 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLCL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15101,623,818 - 101,957,516 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115101,602,336 - 102,424,225 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215112,689,632 - 113,486,939 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLCL1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1083,574,894 - 83,642,768 (+)Ensembl
ChlSab1.11083,291,683 - 83,640,634 (+)NCBI
Plcl1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248892,225,082 - 2,559,379 (-)NCBI

Position Markers
D9Rat122  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,132,598 - 62,132,816NCBIRnor6.0
Rnor_5.0961,941,425 - 61,941,643UniSTSRnor5.0
RGSC_v3.4954,325,895 - 54,326,111RGDRGSC3.4
RGSC_v3.4954,325,893 - 54,326,111UniSTSRGSC3.4
RGSC_v3.1954,453,955 - 54,454,385RGD
Cytogenetic Map9q31UniSTS
SHRSP x BN Map941.0298RGD
SHRSP x BN Map941.0298UniSTS
D9Got62  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,221,114 - 62,221,250NCBIRnor6.0
Rnor_5.0962,029,941 - 62,030,077UniSTSRnor5.0
RGSC_v3.4954,414,941 - 54,415,078RGDRGSC3.4
RGSC_v3.4954,414,942 - 54,415,078UniSTSRGSC3.4
RGSC_v3.1954,543,002 - 54,543,138RGD
Celera954,582,264 - 54,582,400UniSTS
Cytogenetic Map9q31UniSTS
RH 3.4 Map9483.7UniSTS
RH 3.4 Map9483.7RGD
RH 2.0 Map9548.7RGD
D9Wox13  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,347,866 - 62,348,143NCBIRnor6.0
Rnor_5.0962,156,693 - 62,156,970UniSTSRnor5.0
RGSC_v3.4954,544,850 - 54,545,127UniSTSRGSC3.4
Celera954,711,289 - 54,711,565UniSTS
Cytogenetic Map9q31UniSTS
D9Mco79  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,303,232 - 62,303,472NCBIRnor6.0
Rnor_5.0962,112,059 - 62,112,299UniSTSRnor5.0
RGSC_v3.4954,496,906 - 54,497,146UniSTSRGSC3.4
Celera954,664,260 - 54,664,500UniSTS
Cytogenetic Map9q31UniSTS
RH132590  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,063,623 - 62,063,808NCBIRnor6.0
Rnor_5.0961,872,072 - 61,872,257UniSTSRnor5.0
RGSC_v3.4954,255,623 - 54,255,808UniSTSRGSC3.4
Celera954,428,376 - 54,428,561UniSTS
Cytogenetic Map9q31UniSTS
RH 3.4 Map9477.98UniSTS
AI072447  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,347,590 - 62,347,770NCBIRnor6.0
Rnor_5.0962,156,417 - 62,156,597UniSTSRnor5.0
RGSC_v3.4954,544,574 - 54,544,754UniSTSRGSC3.4
Celera954,711,013 - 54,711,193UniSTS
Cytogenetic Map9q31UniSTS
RH 3.4 Map9481.7UniSTS
AU049778  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0962,251,509 - 62,251,678NCBIRnor6.0
Rnor_5.0962,060,336 - 62,060,505UniSTSRnor5.0
RGSC_v3.4954,445,337 - 54,445,506UniSTSRGSC3.4
Celera954,612,952 - 54,613,121UniSTS
Cytogenetic Map9q31UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92488509969885099Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92569237370692373Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92748603663264281Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92748603666757620Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92907507983686404Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93238513377385133Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93764235182642351Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93764235182642351Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94695242783686153Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat
1598849Memor17Memory QTL 172.2exploratory 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)95488504176677636Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96081029882732466Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)961186278106186278Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)96173092382890620Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:42
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000051463
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 14 6 64 23 23
Low 3 42 36 34 13 34 8 10 8 12 18 11 8
Below cutoff 1 7 7 7 1 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07067765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060129 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060130 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060132 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060134 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060138 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01060146 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC107179 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC122091 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC141583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D45920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB877082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB895716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC934491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC953125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000051463   ⟹   ENSRNOP00000050087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl962,291,405 - 62,347,768 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090621   ⟹   ENSRNOP00000073112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl962,291,809 - 62,349,309 (+)Ensembl
RefSeq Acc Id: NM_053456   ⟹   NP_445908
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0962,016,112 - 62,349,244 (+)NCBI
Rnor_5.0961,824,561 - 62,158,071 (+)NCBI
RGSC_v3.4954,207,542 - 54,546,228 (+)RGD
Celera954,380,510 - 54,712,666 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_445908   ⟸   NM_053456
- UniProtKB: Q62688 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073112   ⟸   ENSRNOT00000090621
RefSeq Acc Id: ENSRNOP00000050087   ⟸   ENSRNOT00000051463
Protein Domains
C2   PH   PI-PLC X-box   PI-PLC Y-box

Transcriptome

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


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)
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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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
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)
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)
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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)
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)
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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:708420 AgrOrtholog
Ensembl Genes ENSRNOG00000032659 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000050087 UniProtKB/TrEMBL
  ENSRNOP00000073112 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051463 UniProtKB/TrEMBL
  ENSRNOT00000090621 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.20.20.190 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-like_Pdiesterase_TIM-brl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC_EF-hand-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLCL1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_C_PInositol-sp_X_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_C_Pinositol-sp_Y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84587 UniProtKB/Swiss-Prot
NCBI Gene 84587 ENTREZGENE
PANTHER PTHR10336 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10336:SF102 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EF-hand_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC-X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC-Y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Plcl1 PhenoGen
PRINTS PHPHLIPASEC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PIPLC_X_DOMAIN UniProtKB/Swiss-Prot
  PIPLC_Y_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PLCXc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLCYc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF51695 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.10684 ENTREZGENE
UniProt A0A0G2K4N6_RAT UniProtKB/TrEMBL
  F1LP62_RAT UniProtKB/TrEMBL
  PLCL1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-08 Plcl1  phospholipase C-like 1  LOC84587  130kDa-Ins(1,4,5)P3 binding protein  Symbol and Name updated 1299863 APPROVED