Ly6e (lymphocyte antigen 6 family member E) - Rat Genome Database

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Gene: Ly6e (lymphocyte antigen 6 family member E) Rattus norvegicus
Analyze
Symbol: Ly6e
Name: lymphocyte antigen 6 family member E
RGD ID: 1565342
Description: Predicted to have acetylcholine receptor binding activity and acetylcholine receptor inhibitor activity. Predicted to be involved in several processes, including epinephrine secretion; negative regulation of viral entry into host cell; and norepinephrine metabolic process. Predicted to localize to anchored component of membrane and plasma membrane. Orthologous to human LY6E (lymphocyte antigen 6 family member E); INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC362934; lymphocyte antigen 6 complex, locus E; lymphocyte antigen 6E; similar to lymphocyte antigen 6 complex, locus E
RGD Orthologs
Human
Mouse
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
mRatBN7.27106,935,530 - 106,939,689 (+)NCBI
Rnor_6.0 Ensembl7116,355,698 - 116,359,862 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07116,355,426 - 116,359,862 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07116,253,329 - 116,257,488 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47113,151,828 - 113,155,521 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7103,308,659 - 103,312,352 (+)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-diaminotoluene  (ISO)
2-acetamidofluorene  (ISO)
2-bromohexadecanoic acid  (ISO)
2-butoxyethanol  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
aconitine  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amphetamine  (EXP)
arsenous acid  (ISO)
atrazine  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
cholesterol  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
etoposide  (ISO)
fumonisin B1  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hydroquinone  (ISO)
lipopolysaccharide  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
mifepristone  (ISO)
N-nitrosodiethylamine  (ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
paracetamol  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
prednisolone  (ISO)
progesterone  (ISO)
selenium atom  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium aurothiomalate  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (EXP,ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thiophenes  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
Triptolide  (EXP)
triptonide  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:11784869   PMID:26276394  


Genomics

Comparative Map Data
Ly6e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27106,935,530 - 106,939,689 (+)NCBI
Rnor_6.0 Ensembl7116,355,698 - 116,359,862 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07116,355,426 - 116,359,862 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07116,253,329 - 116,257,488 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47113,151,828 - 113,155,521 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7103,308,659 - 103,312,352 (+)NCBICelera
Cytogenetic Map7q34NCBI
LY6E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8143,017,982 - 143,023,832 (+)EnsemblGRCh38hg38GRCh38
GRCh388143,018,529 - 143,022,409 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh378144,099,946 - 144,103,826 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 368144,171,300 - 144,175,199 (+)NCBINCBI36hg18NCBI36
Build 348144,171,299 - 144,175,199NCBI
Celera8140,409,515 - 140,413,440 (+)NCBI
Cytogenetic Map8q24.3NCBI
HuRef8139,353,438 - 139,357,363 (+)NCBIHuRef
CHM1_18144,140,603 - 144,144,526 (+)NCBICHM1_1
Ly6e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391574,826,874 - 74,831,753 (+)NCBIGRCm39mm39
GRCm39 Ensembl1574,826,900 - 74,831,754 (+)Ensembl
GRCm381574,955,025 - 74,959,904 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1574,955,051 - 74,959,905 (+)EnsemblGRCm38mm10GRCm38
MGSCv371574,785,481 - 74,790,335 (+)NCBIGRCm37mm9NCBIm37
MGSCv361574,782,911 - 74,786,586 (+)NCBImm8
Celera1576,460,639 - 76,465,493 (+)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1534.29NCBI
LY6E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11336,926,776 - 36,930,265 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1336,925,980 - 36,974,979 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1336,879,527 - 36,883,015 (+)NCBI
ROS_Cfam_1.01337,398,524 - 37,402,004 (+)NCBI
UMICH_Zoey_3.11337,071,189 - 37,074,676 (+)NCBI
UNSW_CanFamBas_1.01337,189,559 - 37,193,039 (+)NCBI
UU_Cfam_GSD_1.01337,666,368 - 37,669,857 (+)NCBI
Ly6e
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244053031,453,118 - 1,455,165 (-)NCBI
SpeTri2.0NW_0049364708,879,217 - 8,880,777 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LY6E
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.141,336,112 - 1,341,112 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LY6E
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18137,265,510 - 137,269,397 (+)NCBI
ChlSab1.1 Ensembl8137,265,535 - 137,269,404 (+)Ensembl
Ly6e
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473513,616,129 - 13,619,538 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)748118835128611831Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)750704769128085642Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)751251919118477612Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)755072862123602998Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)755072862123602998Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)755072862123602998Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)777428105127748511Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)777428234122421148Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)788365265119318087Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)788365265121986709Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)788365265133365265Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)7103815550126525386Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)7103867802126080176Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7112429186126525386Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:263
Count of miRNA genes:153
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000009333
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 25 38 22 19 22 3 74 35 37 11
Low 18 19 19 19 8 8 4 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009333   ⟹   ENSRNOP00000009333
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,169 - 116,359,862 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075873   ⟹   ENSRNOP00000068045
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,330 - 116,359,164 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076182   ⟹   ENSRNOP00000068333
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,355,911 - 116,359,265 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076279   ⟹   ENSRNOP00000068066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,357,783 - 116,359,330 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076364
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,278 - 116,357,160 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076407   ⟹   ENSRNOP00000068134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,324 - 116,358,878 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076412   ⟹   ENSRNOP00000068317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,163 - 116,359,286 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076693   ⟹   ENSRNOP00000068163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,355,698 - 116,359,314 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076790   ⟹   ENSRNOP00000068244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,357,175 - 116,359,862 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077022   ⟹   ENSRNOP00000068165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7116,356,329 - 116,359,141 (+)Ensembl
RefSeq Acc Id: NM_001017467   ⟹   NP_001017467
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,996 - 106,939,689 (+)NCBI
Rnor_6.07116,356,169 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
RGSC_v3.47113,151,828 - 113,155,521 (+)RGD
Celera7103,308,659 - 103,312,352 (+)RGD
Sequence:
RefSeq Acc Id: XM_006241757   ⟹   XP_006241819
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,911 - 106,939,689 (+)NCBI
Rnor_6.07116,356,023 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241759   ⟹   XP_006241821
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,894 - 106,939,689 (+)NCBI
Rnor_6.07116,356,018 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241760   ⟹   XP_006241822
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,894 - 106,939,689 (+)NCBI
Rnor_6.07116,356,018 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241762   ⟹   XP_006241824
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,801 - 106,939,689 (+)NCBI
Rnor_6.07116,355,426 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241763   ⟹   XP_006241825
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27106,935,530 - 106,939,689 (+)NCBI
Rnor_6.07116,355,426 - 116,359,862 (+)NCBI
Rnor_5.07116,253,329 - 116,257,488 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001017467   ⟸   NM_001017467
- Peptide Label: precursor
- UniProtKB: Q6AY73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241825   ⟸   XM_006241763
- Peptide Label: isoform X2
- UniProtKB: Q6AY73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241824   ⟸   XM_006241762
- Peptide Label: isoform X2
- UniProtKB: Q6AY73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241819   ⟸   XM_006241757
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006241822   ⟸   XM_006241760
- Peptide Label: isoform X2
- UniProtKB: Q6AY73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241821   ⟸   XM_006241759
- Peptide Label: isoform X2
- UniProtKB: Q6AY73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068165   ⟸   ENSRNOT00000077022
RefSeq Acc Id: ENSRNOP00000068045   ⟸   ENSRNOT00000075873
RefSeq Acc Id: ENSRNOP00000009333   ⟸   ENSRNOT00000009333
RefSeq Acc Id: ENSRNOP00000068066   ⟸   ENSRNOT00000076279
RefSeq Acc Id: ENSRNOP00000068333   ⟸   ENSRNOT00000076182
RefSeq Acc Id: ENSRNOP00000068163   ⟸   ENSRNOT00000076693
RefSeq Acc Id: ENSRNOP00000068244   ⟸   ENSRNOT00000076790
RefSeq Acc Id: ENSRNOP00000068317   ⟸   ENSRNOT00000076412
RefSeq Acc Id: ENSRNOP00000068134   ⟸   ENSRNOT00000076407
Protein Domains
UPAR/Ly6

Transcriptome

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

Promoters
RGD ID:13695383
Promoter ID:EPDNEW_R5906
Type:multiple initiation site
Name:Ly6e_2
Description:lymphocyte antigen 6 family member E
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5907  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07116,355,911 - 116,355,971EPDNEW
RGD ID:13695384
Promoter ID:EPDNEW_R5907
Type:initiation region
Name:Ly6e_1
Description:lymphocyte antigen 6 family member E
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5906  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07116,356,278 - 116,356,338EPDNEW

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)
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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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565342 AgrOrtholog
Ensembl Genes ENSRNOG00000007091 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009333 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068045 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068066 UniProtKB/TrEMBL
  ENSRNOP00000068134 UniProtKB/TrEMBL
  ENSRNOP00000068163 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068165 UniProtKB/TrEMBL
  ENSRNOP00000068244 UniProtKB/TrEMBL
  ENSRNOP00000068317 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068333 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009333 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000075873 UniProtKB/TrEMBL
  ENSRNOT00000076182 UniProtKB/TrEMBL
  ENSRNOT00000076279 UniProtKB/TrEMBL
  ENSRNOT00000076407 UniProtKB/TrEMBL
  ENSRNOT00000076412 UniProtKB/TrEMBL
  ENSRNOT00000076693 UniProtKB/TrEMBL
  ENSRNOT00000076790 UniProtKB/TrEMBL
  ENSRNOT00000077022 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7129625 IMAGE-MGC_LOAD
InterPro LY6_UPA_recep-like UniProtKB/TrEMBL
KEGG Report rno:362934 UniProtKB/TrEMBL
MGC_CLONE MGC:94196 IMAGE-MGC_LOAD
NCBI Gene 362934 ENTREZGENE
Pfam UPAR_LY6 UniProtKB/TrEMBL
PhenoGen Ly6e PhenoGen
SMART SM00134 UniProtKB/TrEMBL
UniProt A0A096MJ95_RAT UniProtKB/TrEMBL
  A0A096MJH8_RAT UniProtKB/TrEMBL
  A0A096MJK7_RAT UniProtKB/TrEMBL
  A0A096MJS6_RAT UniProtKB/TrEMBL
  Q6AY73 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-01 Ly6e  lymphocyte antigen 6 family member E  Ly6e  lymphocyte antigen 6 complex, locus E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Ly6e  lymphocyte antigen 6 complex, locus E  LOC362934  similar to lymphocyte antigen 6 complex, locus E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC362934  similar to lymphocyte antigen 6 complex, locus E      Symbol and Name status set to provisional 70820 PROVISIONAL