Plekhn1 (pleckstrin homology domain containing N1) - Rat Genome Database

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Gene: Plekhn1 (pleckstrin homology domain containing N1) Rattus norvegicus
Analyze
Symbol: Plekhn1
Name: pleckstrin homology domain containing N1
RGD ID: 1311019
Description: Predicted to enable phospholipid binding activity. Predicted to be involved in 3'-UTR-mediated mRNA destabilization; positive regulation of apoptotic process; and response to hypoxia. Predicted to be located in mitochondrion. Predicted to be active in cytoskeleton and mitochondrial membrane. Orthologous to human PLEKHN1 (pleckstrin homology domain containing N1); INTERACTS WITH acetamide; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC298694; LOC298694; pleckstrin homology domain containing, family N member 1; pleckstrin homology domain-containing family N member 1; RGD1311019; similar to hypothetical protein DKFZp434H2010
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25166,805,309 - 166,813,339 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5166,804,837 - 166,813,155 (-)Ensembl
Rnor_6.05173,646,055 - 173,654,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,646,195 - 173,653,905 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05177,120,095 - 177,128,194 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45173,056,074 - 173,063,784 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15173,066,841 - 173,073,718 (-)NCBI
Celera5165,007,290 - 165,015,000 (-)NCBICelera
Cytogenetic Map5q36NCBI
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18191643   PMID:27616329   PMID:29180010   PMID:29531808  


Genomics

Comparative Map Data
Plekhn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25166,805,309 - 166,813,339 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5166,804,837 - 166,813,155 (-)Ensembl
Rnor_6.05173,646,055 - 173,654,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,646,195 - 173,653,905 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05177,120,095 - 177,128,194 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45173,056,074 - 173,063,784 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15173,066,841 - 173,073,718 (-)NCBI
Celera5165,007,290 - 165,015,000 (-)NCBICelera
Cytogenetic Map5q36NCBI
PLEKHN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381966,482 - 975,865 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1966,482 - 975,865 (+)EnsemblGRCh38hg38GRCh38
GRCh371901,862 - 911,245 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361891,740 - 900,351 (+)NCBINCBI36hg18NCBI36
Celera11,681,246 - 1,689,796 (-)NCBI
Cytogenetic Map1p36.33NCBI
HuRef1171,515 - 180,127 (+)NCBIHuRef
CHM1_11888,807 - 897,417 (+)NCBICHM1_1
T2T-CHM13v2.01395,193 - 404,574 (+)NCBI
Plekhn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394156,305,913 - 156,312,999 (-)NCBIGRCm39mm39
GRCm39 Ensembl4156,305,913 - 156,314,174 (-)Ensembl
GRCm384156,221,456 - 156,228,542 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4156,221,456 - 156,234,857 (-)EnsemblGRCm38mm10GRCm38
MGSCv374155,595,565 - 155,602,651 (-)NCBIGRCm37mm9NCBIm37
MGSCv364155,595,565 - 155,601,994 (-)NCBImm8
Celera4158,477,941 - 158,485,021 (-)NCBICelera
Cytogenetic Map4E2NCBI
Plekhn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,737,365 - 9,744,111 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,736,801 - 9,744,659 (-)NCBIChiLan1.0ChiLan1.0
PLEKHN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11864,966 - 874,854 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1865,290 - 873,575 (+)Ensemblpanpan1.1panPan2
PLEKHN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,193,824 - 56,202,340 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,194,583 - 56,202,293 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,271,872 - 56,280,394 (+)NCBI
ROS_Cfam_1.0556,397,340 - 56,405,868 (+)NCBI
ROS_Cfam_1.0 Ensembl556,398,103 - 56,405,826 (+)Ensembl
UMICH_Zoey_3.1556,388,428 - 56,396,950 (+)NCBI
UNSW_CanFamBas_1.0556,280,346 - 56,288,867 (+)NCBI
UU_Cfam_GSD_1.0556,670,364 - 56,678,889 (+)NCBI
Plekhn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,385,380 - 27,397,721 (+)NCBI
SpeTri2.0NW_0049367372,072,857 - 2,079,855 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLEKHN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,322,314 - 63,336,140 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,328,054 - 63,336,140 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2657,936,303 - 57,942,555 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLEKHN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,456,993 - 130,467,189 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,458,267 - 130,466,472 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605435,087,081 - 35,096,878 (-)NCBIVero_WHO_p1.0
Plekhn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,537,631 - 8,544,676 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248188,537,044 - 8,545,393 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
BE096480  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25166,811,449 - 166,811,614 (+)MAPPERmRatBN7.2
Rnor_6.05173,652,200 - 173,652,364NCBIRnor6.0
Rnor_5.05177,126,240 - 177,126,404UniSTSRnor5.0
RGSC_v3.45173,062,079 - 173,062,243UniSTSRGSC3.4
Celera5165,013,295 - 165,013,459UniSTS
RH 3.4 Map51171.7UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:55
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000038556
Prediction methods: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 2 2 3 51 11 2
Low 1 41 50 34 16 34 8 10 23 34 30 9 8
Below cutoff 7 7 7 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038556   ⟹   ENSRNOP00000031799
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5166,805,445 - 166,813,155 (-)Ensembl
Rnor_6.0 Ensembl5173,646,195 - 173,653,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105894   ⟹   ENSRNOP00000082942
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5166,804,837 - 166,813,155 (-)Ensembl
RefSeq Acc Id: NM_001134523   ⟹   NP_001127995
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,445 - 166,813,155 (-)NCBI
Rnor_6.05173,646,195 - 173,653,905 (-)NCBI
Rnor_5.05177,120,095 - 177,128,194 (-)NCBI
RGSC_v3.45173,056,074 - 173,063,784 (-)RGD
Celera5165,007,290 - 165,015,000 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239564   ⟹   XP_006239626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,309 - 166,813,339 (-)NCBI
Rnor_6.05173,646,055 - 173,654,140 (-)NCBI
Rnor_5.05177,120,095 - 177,128,194 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239565   ⟹   XP_006239627
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,309 - 166,813,339 (-)NCBI
Rnor_6.05173,646,055 - 173,654,140 (-)NCBI
Rnor_5.05177,120,095 - 177,128,194 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239566   ⟹   XP_006239628
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,309 - 166,813,339 (-)NCBI
Rnor_6.05173,646,055 - 173,654,140 (-)NCBI
Rnor_5.05177,120,095 - 177,128,194 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109730   ⟹   XP_038965658
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,309 - 166,812,553 (-)NCBI
RefSeq Acc Id: XM_039109731   ⟹   XP_038965659
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25166,805,309 - 166,812,553 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001127995   ⟸   NM_001134523
- UniProtKB: D3Z815 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239628   ⟸   XM_006239566
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006239627   ⟸   XM_006239565
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006239626   ⟸   XM_006239564
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000031799   ⟸   ENSRNOT00000038556
RefSeq Acc Id: XP_038965659   ⟸   XM_039109731
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965658   ⟸   XM_039109730
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000082942   ⟸   ENSRNOT00000105894
Protein Domains
PH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z815-F1-model_v2 AlphaFold D3Z815 1-615 view protein structure

Transcriptome

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

Promoters
RGD ID:13694347
Promoter ID:EPDNEW_R4871
Type:initiation region
Name:Plekhn1_1
Description:pleckstrin homology domain containing N1
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_6.05173,653,386 - 173,653,446EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 173647830 173647831 C A snv SR/JrHsd (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 177121870 177121871 C A snv SR/JrHsd (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 173057709 173057710 C A snv SR/JrHsd (MCW)
5 173058553 173058554 C T snv LE/Stm (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311019 AgrOrtholog
BioCyc Gene G2FUF-38857 BioCyc
Ensembl Genes ENSRNOG00000020295 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000031799 ENTREZGENE
  ENSRNOP00000031799.4 UniProtKB/TrEMBL
  ENSRNOP00000082942 ENTREZGENE
  ENSRNOP00000082942.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038556 ENTREZGENE
  ENSRNOT00000038556.5 UniProtKB/TrEMBL
  ENSRNOT00000105894 ENTREZGENE
  ENSRNOT00000105894.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/TrEMBL
InterPro PH_type UniProtKB/TrEMBL
  Pleckstrin_homology UniProtKB/TrEMBL
  PLEKHN1 UniProtKB/TrEMBL
  PLEKHN1_PH UniProtKB/TrEMBL
KEGG Report rno:298694 UniProtKB/TrEMBL
NCBI Gene 298694 ENTREZGENE
PANTHER PTHR46882 UniProtKB/TrEMBL
PhenoGen Plekhn1 PhenoGen
SMART SM00233 UniProtKB/TrEMBL
UniProt A0A8I5ZUH3_RAT UniProtKB/TrEMBL
  D3Z815 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Plekhn1  pleckstrin homology domain containing N1  Plekhn1  pleckstrin homology domain containing, family N member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Plekhn1  pleckstrin homology domain containing, family N member 1  RGD1311019  similar to hypothetical protein DKFZp434H2010  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311019  similar to hypothetical protein DKFZp434H2010   RGD1311019_predicted  similar to hypothetical protein DKFZp434H2010 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311019_predicted  similar to hypothetical protein DKFZp434H2010 (predicted)  LOC298694_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC298694_predicted  similar to hypothetical protein DKFZp434H2010 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL