Psen2 (presenilin 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Psen2 (presenilin 2) Rattus norvegicus
Analyze
Symbol: Psen2
Name: presenilin 2
RGD ID: 621060
Description: Predicted to enable aspartic endopeptidase activity, intramembrane cleaving. Involved in response to hypoxia. Located in early endosome; synaptic membrane; and synaptic vesicle. Is active in presynaptic membrane. Human ortholog(s) of this gene implicated in Alzheimer's disease; Alzheimer's disease 4; breast cancer; and dilated cardiomyopathy 1V. Orthologous to human PSEN2 (presenilin 2); PARTICIPATES IN altered Notch signaling pathway involving the macromolecules modifying the main players; Alzheimer's disease pathway; Notch signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: presenilin-2; PS-2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81394,499,451 - 94,528,419 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1394,499,928 - 94,525,116 (-)EnsemblGRCr8
mRatBN7.21391,967,506 - 91,993,240 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1391,967,983 - 91,993,174 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1394,473,112 - 94,489,800 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01395,873,282 - 95,889,973 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,047,983 - 93,064,680 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01398,513,600 - 98,539,347 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,513,570 - 98,530,724 (-)Ensemblrn6Rnor6.0
Rnor_5.013103,521,460 - 103,547,174 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41395,934,674 - 95,951,836 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1391,515,731 - 91,532,398 (-)NCBICelera
RGSC_v3.11396,123,177 - 96,145,989 (-)NCBI
Cytogenetic Map13q26NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(S)-naringenin  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
2-hydroxybenzoic acid (3,3,5-trimethylcyclohexyl) ester  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
aldrin  (ISO)
aminoguanidine  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcium dichloride  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
crocidolite asbestos  (ISO)
cycloheximide  (ISO)
D-glucose  (ISO)
deguelin  (ISO)
dibutyl phthalate  (EXP)
diethyldithiocarbamic acid  (ISO)
dioxygen  (EXP)
doxorubicin  (ISO)
drometrizole  (ISO)
enzalutamide  (ISO)
epoxiconazole  (ISO)
flutamide  (EXP)
FR900359  (ISO)
fucoxanthin  (ISO)
genistein  (EXP)
gentamycin  (EXP)
glucose  (ISO)
glyphosate  (ISO)
lipopolysaccharide  (ISO)
methoxychlor  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
niclosamide  (ISO)
nimesulide  (ISO)
ozone  (EXP)
paracetamol  (EXP,ISO)
parathion  (ISO)
picoxystrobin  (ISO)
pifithrin-alpha hydrobromide  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
prostaglandin E2  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
retinyl acetate  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
sarin  (ISO)
scopolamine  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium azide  (ISO)
staurosporine  (ISO)
taurine  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thiram  (ISO)
titanium dioxide  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid precursor protein catabolic process  (IEA,ISO)
amyloid-beta formation  (IBA,IEA,ISO,ISS)
amyloid-beta metabolic process  (ISO)
brain morphogenesis  (ISO)
calcium ion homeostasis  (IBA)
calcium ion transport  (ISO)
cardiac muscle contraction  (ISO)
cell fate specification  (ISO)
dorsal/ventral neural tube patterning  (ISO)
embryonic limb morphogenesis  (ISO)
endoplasmic reticulum calcium ion homeostasis  (ISO)
forebrain development  (ISO)
hair follicle development  (ISO)
hematopoietic progenitor cell differentiation  (ISO)
intracellular signal transduction  (IEA)
learning or memory  (ISO)
locomotion  (ISO)
lung alveolus development  (ISO)
membrane protein ectodomain proteolysis  (IBA,IEA,ISO)
memory  (ISO)
mitochondrion-endoplasmic reticulum membrane tethering  (IEA,ISO)
myeloid leukocyte differentiation  (ISO)
negative regulation of apoptotic signaling pathway  (ISO)
negative regulation of epidermal growth factor receptor signaling pathway  (ISO)
negative regulation of protein phosphorylation  (ISO)
negative regulation of protein-containing complex assembly  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of ubiquitin-dependent protein catabolic process  (ISO)
neuroinflammatory response  (ISO)
neuron cellular homeostasis  (ISO)
Notch receptor processing, ligand-dependent  (IEA,ISO,ISS)
Notch signaling pathway  (IBA,IEA,ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of coagulation  (ISO)
positive regulation of extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
positive regulation of proteasomal ubiquitin-dependent protein catabolic process  (ISO)
positive regulation of receptor recycling  (ISO)
protein catabolic process at postsynapse  (ISO)
protein maturation  (ISO)
protein processing  (IBA,IEA,ISO)
protein transport  (ISO)
proteolysis  (IEA)
regulation of calcium import into the mitochondrion  (IEA,ISO)
regulation of postsynapse organization  (ISO)
regulation of synaptic plasticity  (ISO)
response to hypoxia  (IEP)
skin morphogenesis  (ISO)
somitogenesis  (ISO)
T cell activation involved in immune response  (ISO)
T cell receptor signaling pathway  (ISO)
thymus development  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The role of presenilin 1 in the genetics of Alzheimer's disease. Clark RF, etal., Cold Spring Harb Symp Quant Biol 1996;61:551-8.
2. Cell and molecular biology of Notch. Fiuza UM and Arias AM, J Endocrinol. 2007 Sep;194(3):459-74.
3. Purification and characterization of the human gamma-secretase complex. Fraering PC, etal., Biochemistry 2004 Aug 3;43(30):9774-89.
4. Synaptic and endosomal localization of active gamma-secretase in rat brain. Frykman S, etal., PLoS One. 2010 Jan 28;5(1):e8948. doi: 10.1371/journal.pone.0008948.
5. 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.
6. Presenilin 2 deficiency causes a mild pulmonary phenotype and no changes in amyloid precursor protein processing but enhances the embryonic lethal phenotype of presenilin 1 deficiency. Herreman A, etal., Proc Natl Acad Sci U S A 1999 Oct 12;96(21):11872-7.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Mammalian APH-1 interacts with presenilin and nicastrin and is required for intramembrane proteolysis of amyloid-beta precursor protein and Notch. Lee SF, etal., J Biol Chem 2002 Nov 22;277(47):45013-9. Epub 2002 Sep 23.
9. Familial Alzheimer's disease: site of mutation influences clinical phenotype. Lippa CF, etal., Ann Neurol. 2000 Sep;48(3):376-9.
10. Uncommon polymorphism in the presenilin genes in human familial Alzheimer's disease: not to be mistaken with a pathogenic mutation. Lleo A, etal., Neurosci Lett 2002 Feb 1;318(3):166-8.
11. Alzheimer's disease-linked mutation of presenilin 2 (N141I-PS2) drastically lowers APPalpha secretion: control by the proteasome. Marambaud P, etal., Biochem Biophys Res Commun 1998 Nov 9;252(1):134-8.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Presenilins in the heart: presenilin-2 expression is increased by low glucose and by hypoxia in cardiac cells. Mohuczy D, etal., Regul Pept 2002 Dec 31;110(1):1-7.
14. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
16. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
17. GOA pipeline RGD automated data pipeline
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Comprehensive gene review and curation RGD comprehensive gene curation
21. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
22. Cloning of cDNA and expression of the gene encoding rat presenilin-2. Takahashi H, etal., Gene 1997 Sep 15;197(1-2):383-7.
23. Cloning of the cDNA encoding rat presenilin-2. Tanahashi H and Tabira T, Biochim Biophys Acta 1998 Mar 13;1396(3):259-62.
24. Functional characterization of novel presenilin-2 variants identified in human breast cancers. To MD, etal., Oncogene. 2006 Jun 15;25(25):3557-64. Epub 2006 Feb 13.
25. Participation of presenilin 2 in apoptosis: enhanced basal activity conferred by an Alzheimer mutation. Wolozin B, etal., Science 1996 Dec 6;274(5293):1710-3.
Additional References at PubMed
PMID:8940094   PMID:9203550   PMID:9298903   PMID:9353287   PMID:9535056   PMID:9632714   PMID:9950750   PMID:10557208   PMID:10846187   PMID:11943765   PMID:12460542   PMID:12646573  
PMID:12684521   PMID:15066262   PMID:15122901   PMID:15148382   PMID:15280425   PMID:15489334   PMID:15525534   PMID:15886206   PMID:16169548   PMID:16204356   PMID:16257512   PMID:16603547  
PMID:17097608   PMID:17418105   PMID:17556541   PMID:17614943   PMID:17626841   PMID:17698590   PMID:17920016   PMID:19376115   PMID:19779553   PMID:19946888   PMID:20208556   PMID:21285369  
PMID:21703454   PMID:25429133   PMID:26721367   PMID:27804997  


Genomics

Comparative Map Data
Psen2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81394,499,451 - 94,528,419 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1394,499,928 - 94,525,116 (-)EnsemblGRCr8
mRatBN7.21391,967,506 - 91,993,240 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1391,967,983 - 91,993,174 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1394,473,112 - 94,489,800 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01395,873,282 - 95,889,973 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,047,983 - 93,064,680 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01398,513,600 - 98,539,347 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,513,570 - 98,530,724 (-)Ensemblrn6Rnor6.0
Rnor_5.013103,521,460 - 103,547,174 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41395,934,674 - 95,951,836 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1391,515,731 - 91,532,398 (-)NCBICelera
RGSC_v3.11396,123,177 - 96,145,989 (-)NCBI
Cytogenetic Map13q26NCBI
PSEN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381226,870,616 - 226,903,668 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1226,870,184 - 226,927,726 (+)Ensemblhg38GRCh38
GRCh371227,058,317 - 227,083,799 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361225,124,896 - 225,150,427 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341223,365,694 - 223,390,532NCBI
Celera1200,249,068 - 200,274,610 (+)NCBICelera
Cytogenetic Map1q42.13NCBI
HuRef1197,575,178 - 197,600,711 (+)NCBIHuRef
CHM1_11228,331,030 - 228,356,564 (+)NCBICHM1_1
T2T-CHM13v2.01226,058,503 - 226,091,743 (+)NCBIT2T-CHM13v2.0
Psen2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391180,054,569 - 180,091,030 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1180,054,569 - 180,091,003 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381180,227,004 - 180,263,467 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1180,227,004 - 180,263,438 (-)Ensemblmm10GRCm38
MGSCv371182,157,135 - 182,186,431 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361182,063,681 - 182,082,576 (-)NCBIMGSCv36mm8
Celera1187,291,668 - 187,320,266 (-)NCBICelera
Cytogenetic Map1H4NCBI
cM Map184.19NCBI
Psen2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554065,727,367 - 5,752,234 (+)Ensembl
ChiLan1.0NW_0049554065,727,367 - 5,748,798 (+)NCBIChiLan1.0ChiLan1.0
PSEN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2122,644,288 - 22,669,733 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1122,592,732 - 22,618,185 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01202,328,987 - 202,354,440 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11207,320,937 - 207,346,295 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1207,320,937 - 207,346,295 (+)EnsemblpanPan2panpan1.1
PSEN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1738,147,157 - 38,163,023 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl738,147,173 - 38,166,722 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha737,629,753 - 37,654,335 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0737,981,322 - 38,006,377 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl737,980,700 - 38,006,369 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1737,820,678 - 37,845,261 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0737,827,826 - 37,852,402 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0738,098,241 - 38,122,853 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Psen2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934451,135,578 - 51,163,137 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365263,584,188 - 3,614,074 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365263,584,194 - 3,611,719 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSEN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1014,532,767 - 14,577,251 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11014,532,556 - 14,561,862 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21016,862,708 - 16,891,775 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap10p16-p11NCBI
PSEN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1252,862,354 - 2,888,735 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl252,862,251 - 2,877,386 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660552,849,316 - 2,875,698 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psen2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477117,183,447 - 17,224,188 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477117,183,538 - 17,205,460 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Psen2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11058,560,433 - 58,585,230 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Psen2
320 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:40
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000040203
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1368983334109350286Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1367635937109350286Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)1371610804109350286Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1383286150109350286Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137298450699745408Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1367635937109350286Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1367635937109350286Rat

Markers in Region
RH142771  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21391,986,573 - 91,986,728 (+)MAPPERmRatBN7.2
Rnor_6.01398,532,666 - 98,532,820NCBIRnor6.0
Rnor_5.013103,540,526 - 103,540,680UniSTSRnor5.0
RGSC_v3.41395,953,778 - 95,953,932UniSTSRGSC3.4
Celera1391,534,340 - 91,534,494UniSTS
RH 3.4 Map13617.2UniSTS
Cytogenetic Map13q26UniSTS
RH140726  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21391,967,785 - 91,967,913 (+)MAPPERmRatBN7.2
Rnor_6.01398,513,880 - 98,514,007NCBIRnor6.0
Rnor_5.013103,521,740 - 103,521,867UniSTSRnor5.0
RGSC_v3.41395,934,520 - 95,934,647UniSTSRGSC3.4
Celera1391,515,577 - 91,515,704UniSTS
RH 3.4 Map13630.9UniSTS
Cytogenetic Map13q26UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 162 91 90 59 92 59 6 356 192 11 141 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB004454 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC139413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D83700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X99267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000040203   ⟹   ENSRNOP00000049605
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1394,499,928 - 94,525,116 (-)Ensembl
mRatBN7.2 Ensembl1391,967,983 - 91,993,174 (-)Ensembl
Rnor_6.0 Ensembl1398,514,034 - 98,530,724 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000091715   ⟹   ENSRNOP00000070964
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1398,513,570 - 98,529,040 (-)Ensembl
RefSeq Acc Id: NM_031087   ⟹   NP_112349
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,885 - 94,516,575 (-)NCBI
mRatBN7.21391,967,940 - 91,984,632 (-)NCBI
Rnor_6.01398,514,034 - 98,530,724 (-)NCBI
Rnor_5.013103,521,460 - 103,547,174 (-)NCBI
RGSC_v3.41395,934,674 - 95,951,836 (-)RGD
Celera1391,515,731 - 91,532,398 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250405   ⟹   XP_006250467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,119 (-)NCBI
mRatBN7.21391,967,506 - 91,993,170 (-)NCBI
Rnor_6.01398,513,600 - 98,539,331 (-)NCBI
Rnor_5.013103,521,460 - 103,547,174 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250407   ⟹   XP_006250469
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,151 (-)NCBI
mRatBN7.21391,967,506 - 91,993,171 (-)NCBI
Rnor_6.01398,513,600 - 98,539,313 (-)NCBI
Rnor_5.013103,521,460 - 103,547,174 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250408   ⟹   XP_006250470
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,182 (-)NCBI
mRatBN7.21391,967,506 - 91,993,240 (-)NCBI
Rnor_6.01398,513,600 - 98,539,347 (-)NCBI
Rnor_5.013103,521,460 - 103,547,174 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250410   ⟹   XP_006250472
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,122 (-)NCBI
mRatBN7.21391,967,506 - 91,985,636 (-)NCBI
Rnor_6.01398,513,600 - 98,531,794 (-)NCBI
Rnor_5.013103,521,460 - 103,547,174 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769877   ⟹   XP_008768099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,523,702 (-)NCBI
mRatBN7.21391,967,506 - 91,989,929 (-)NCBI
Rnor_6.01398,513,600 - 98,536,024 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091113   ⟹   XP_038947041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,521,790 (-)NCBI
mRatBN7.21391,967,506 - 91,989,931 (-)NCBI
RefSeq Acc Id: XM_063272631   ⟹   XP_063128701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,112 (-)NCBI
RefSeq Acc Id: XM_063272632   ⟹   XP_063128702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,528,419 (-)NCBI
RefSeq Acc Id: XM_063272633   ⟹   XP_063128703
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,515,491 (-)NCBI
RefSeq Acc Id: XM_063272634   ⟹   XP_063128704
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,182 (-)NCBI
RefSeq Acc Id: XM_063272635   ⟹   XP_063128705
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,499,451 - 94,525,169 (-)NCBI
RefSeq Acc Id: NP_112349   ⟸   NM_031087
- UniProtKB: O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O88777 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250470   ⟸   XM_006250408
- Peptide Label: isoform X1
- UniProtKB: O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O88777 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250467   ⟸   XM_006250405
- Peptide Label: isoform X1
- UniProtKB: O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O88777 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250469   ⟸   XM_006250407
- Peptide Label: isoform X1
- UniProtKB: O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O88777 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250472   ⟸   XM_006250410
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008768099   ⟸   XM_008769877
- Peptide Label: isoform X1
- UniProtKB: O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O88777 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000049605   ⟸   ENSRNOT00000040203
Ensembl Acc Id: ENSRNOP00000070964   ⟸   ENSRNOT00000091715
RefSeq Acc Id: XP_038947041   ⟸   XM_039091113
- Peptide Label: isoform X1
- UniProtKB: O88777 (UniProtKB/Swiss-Prot),   O08947 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128702   ⟸   XM_063272632
- Peptide Label: isoform X1
- UniProtKB: O88777 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O08947 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128704   ⟸   XM_063272634
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063128705   ⟸   XM_063272635
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063128701   ⟸   XM_063272631
- Peptide Label: isoform X1
- UniProtKB: O88777 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O08947 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128703   ⟸   XM_063272633
- Peptide Label: isoform X1
- UniProtKB: O88777 (UniProtKB/Swiss-Prot),   O35546 (UniProtKB/Swiss-Prot),   O08947 (UniProtKB/Swiss-Prot),   A6JGG7 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O88777-F1-model_v2 AlphaFold O88777 1-448 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621060 AgrOrtholog
BioCyc Gene G2FUF-17132 BioCyc
Ensembl Genes ENSRNOG00000002879 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000040203 ENTREZGENE
  ENSRNOT00000040203.5 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.472.100 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7109917 IMAGE-MGC_LOAD
InterPro Pept_A22A_PS2 UniProtKB/Swiss-Prot
  Peptidase_A22A UniProtKB/Swiss-Prot
  Preselin/SPP UniProtKB/Swiss-Prot
  Presenilin_C UniProtKB/Swiss-Prot
KEGG Report rno:81751 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93382 IMAGE-MGC_LOAD
NCBI Gene 81751 ENTREZGENE
PANTHER PRESENILIN-2 UniProtKB/Swiss-Prot
  PTHR10202 UniProtKB/Swiss-Prot
Pfam Presenilin UniProtKB/Swiss-Prot
PhenoGen Psen2 PhenoGen
PRINTS PRESENILIN UniProtKB/Swiss-Prot
  PRESENILIN2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002879 RatGTEx
SMART PSN UniProtKB/Swiss-Prot
UniProt A6JGG7 ENTREZGENE, UniProtKB/TrEMBL
  O08947 ENTREZGENE
  O35546 ENTREZGENE
  O88777 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O08947 UniProtKB/Swiss-Prot
  O35546 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Psen2  presenilin 2    presenilin-2  Name updated 1299863 APPROVED
2002-08-07 Psen2  presenilin-2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_homology 95% amino acid identity to human homolog 729647
gene_protein 448 amino acids 729647