Lgi1 (leucine-rich, glioma inactivated 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Lgi1 (leucine-rich, glioma inactivated 1) Rattus norvegicus
Analyze
Symbol: Lgi1
Name: leucine-rich, glioma inactivated 1
RGD ID: 628742
Description: Predicted to enable signaling receptor binding activity. Involved in positive regulation of synaptic transmission. Located in axon initial segment; dendrite; and extracellular space. Used to study epilepsy and epilepsy with generalized tonic-clonic seizures. Human ortholog(s) of this gene implicated in familial temporal lobe epilepsy 1. Orthologous to human LGI1 (leucine rich glioma inactivated 1); INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: leucine-rich glioma-inactivated protein 1; leucine-rich glioma-inactivated protein 1-like; leucine-rich repeat LGI family, member 1; MGC105310
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Lgi1m1Kyo  
Genetic Models: F344-Lgi1m1Kyo
Is Marker For: Strains:   F344.NER-(D1Mgh6-D1Rat73)(D5Mgh4-D5Rat36)Lgi1m1/Kyo   F344-Lgi1m1Kyo  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81245,455,691 - 245,497,036 (+)NCBIGRCr8
mRatBN7.21236,043,269 - 236,084,617 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1236,042,954 - 236,084,616 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1244,465,730 - 244,506,680 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01251,360,549 - 251,401,450 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01244,198,790 - 244,239,705 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01256,955,944 - 256,996,835 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1256,955,652 - 256,999,253 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01264,436,441 - 264,477,332 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41242,593,236 - 242,634,141 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11242,809,453 - 242,810,274 (+)NCBI
Celera1233,136,652 - 233,177,516 (+)NCBICelera
Cytogenetic Map1q53NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon initial segment  (IDA)
cytoplasm  (ISO,ISS)
dendrite  (IDA)
extracellular space  (IBA,IDA,IEA,ISO,ISS,NAS)
glutamatergic synapse  (ISO)
synapse  (IEA)
synaptic cleft  (ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. A rat model for LGI1-related epilepsies. Baulac S, etal., Hum Mol Genet. 2012 Aug 15;21(16):3546-57. doi: 10.1093/hmg/dds184. Epub 2012 May 15.
2. Epilepsy-related ligand/receptor complex LGI1 and ADAM22 regulate synaptic transmission. Fukata Y, etal., Science. 2006 Sep 22;313(5794):1792-5.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. ADAM22 and ADAM23 modulate the targeting of the Kv1 channel-associated protein LGI1 to the axon initial segment. Hivert B, etal., J Cell Sci. 2019 Jan 16;132(2). pii: jcs.219774. doi: 10.1242/jcs.219774.
6. Down-Regulation of Astrocytic Kir4.1 Channels during the Audiogenic Epileptogenesis in Leucine-Rich Glioma-Inactivated 1 (Lgi1) Mutant Rats. Kinboshi M, etal., Int J Mol Sci. 2019 Feb 26;20(5). pii: ijms20051013. doi: 10.3390/ijms20051013.
7. Suppression of the cell proliferation and invasion phenotypes in glioma cells by the LGI1 gene. Kunapuli P, etal., Oncogene 2003 Jun 26;22(26):3985-91.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. 5 alpha-pregnane-3 alpha, 21-diol-20-one (THDOC) attenuates mild stress-induced increases in plasma corticosterone via a non-glucocorticoid mechanism: comparison with alprazolam. Owens MJ, etal., Brain Res 1992 Feb 28;573(2):353-5.
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. A common protein interaction domain links two recently identified epilepsy genes. Scheel H, etal., Hum Mol Genet 2002 Jul 15;11(15):1757-62.
14. The epilepsy-linked Lgi1 protein assembles into presynaptic Kv1 channels and inhibits inactivation by Kvbeta1. Schulte U, etal., Neuron. 2006 Mar 2;49(5):697-706.
15. Identification of the promoter, genomic structure, and mouse ortholog of LGI1. Somerville RP, etal., Mamm Genome 2000 Aug;11(8):622-7.
16. The novel EPTP repeat defines a superfamily of proteins implicated in epileptic disorders. Staub E, etal., Trends Biochem Sci 2002 Sep;27(9):441-4.
Additional References at PubMed
PMID:12477932   PMID:15857855   PMID:17067999   PMID:19756693   PMID:20133599   PMID:20463223   PMID:23525710   PMID:24406746   PMID:25931508   PMID:35294724  


Genomics

Comparative Map Data
Lgi1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81245,455,691 - 245,497,036 (+)NCBIGRCr8
mRatBN7.21236,043,269 - 236,084,617 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1236,042,954 - 236,084,616 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1244,465,730 - 244,506,680 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01251,360,549 - 251,401,450 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01244,198,790 - 244,239,705 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01256,955,944 - 256,996,835 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1256,955,652 - 256,999,253 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01264,436,441 - 264,477,332 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41242,593,236 - 242,634,141 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11242,809,453 - 242,810,274 (+)NCBI
Celera1233,136,652 - 233,177,516 (+)NCBICelera
Cytogenetic Map1q53NCBI
LGI1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381093,757,936 - 93,798,159 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1093,757,840 - 93,806,272 (+)EnsemblGRCh38hg38GRCh38
GRCh371095,517,693 - 95,557,916 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361095,507,668 - 95,547,906 (+)NCBINCBI36Build 36hg18NCBI36
Build 341095,507,667 - 95,547,906NCBI
Celera1089,258,689 - 89,298,048 (+)NCBICelera
Cytogenetic Map10q23.33NCBI
HuRef1089,145,309 - 89,184,670 (+)NCBIHuRef
CHM1_11095,800,134 - 95,839,500 (+)NCBICHM1_1
T2T-CHM13v2.01094,637,831 - 94,677,073 (+)NCBIT2T-CHM13v2.0
Lgi1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391938,253,135 - 38,297,387 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1938,252,984 - 38,300,662 (+)EnsemblGRCm39 Ensembl
GRCm381938,264,687 - 38,308,939 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1938,264,536 - 38,312,214 (+)EnsemblGRCm38mm10GRCm38
MGSCv371938,339,272 - 38,383,429 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361938,329,926 - 38,374,083 (+)NCBIMGSCv36mm8
Celera1939,059,488 - 39,103,642 (+)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1932.9NCBI
Lgi1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955507267,892 - 305,026 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955507268,032 - 304,949 (+)NCBIChiLan1.0ChiLan1.0
LGI1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28105,797,941 - 105,838,409 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110105,803,256 - 105,843,724 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01090,506,131 - 90,546,582 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11094,016,703 - 94,056,820 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1094,016,703 - 94,056,820 (+)Ensemblpanpan1.1panPan2
LGI1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1287,966,485 - 8,005,995 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl287,966,593 - 8,012,313 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha288,142,279 - 8,181,152 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0288,226,366 - 8,265,262 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl288,225,835 - 8,272,347 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1287,945,864 - 7,984,726 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0287,975,424 - 8,014,295 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0288,145,234 - 8,184,124 (+)NCBIUU_Cfam_GSD_1.0
Lgi1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721339,607,174 - 39,643,265 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366011,239,771 - 1,275,850 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366011,242,022 - 1,275,842 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LGI1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14105,219,896 - 105,256,648 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114105,219,901 - 105,251,423 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214114,951,215 - 114,982,754 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LGI1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1986,993,964 - 87,033,725 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl986,994,307 - 87,035,807 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604847,769,144 - 47,809,266 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lgi1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247375,024,414 - 5,060,329 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247375,024,691 - 5,060,248 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lgi1
65 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:53
Count of miRNA genes:41
Interacting mature miRNAs:52
Transcripts:ENSRNOT00000020411
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316896Gluco57Glucose level QTL 577.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1228985440245907899Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1197814409242814409Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1196248093241248093Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233190394258625266Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1178810256240830002Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1193113876238113876Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1196248093241248093Rat
1581544Rf52Renal function QTL 520.05urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1232156370259647894Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1218748008257976495Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1203995416244113296Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
61400Niddm1Non-insulin dependent diabetes mellitus QTL 111blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1218753689245907899Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1218753816256448513Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1224054293243747962Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
2292216Bw80Body weight QTL 803.230.0019body mass (VT:0001259)body weight (CMO:0000012)1213533809243914901Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1233948574260522016Rat
61455Niddm7Non-insulin dependent diabetes mellitus QTL 75.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1214537555238757011Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1197697768238755659Rat
1358916Kidm22Kidney mass QTL 223.32kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210702053240947965Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1197814409242814409Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1197670404242670404Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1224054293243747962Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1213707201252085212Rat

Markers in Region
T15408  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21236,084,255 - 236,084,444 (+)MAPPERmRatBN7.2
Rnor_6.01256,996,821 - 256,997,009NCBIRnor6.0
Rnor_5.01264,477,318 - 264,477,506UniSTSRnor5.0
RGSC_v3.41242,634,127 - 242,634,315UniSTSRGSC3.4
Celera1233,177,502 - 233,177,690UniSTS
Cytogenetic Map1q53UniSTS
BQ202124  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21236,060,732 - 236,060,892 (+)MAPPERmRatBN7.2
Rnor_6.01256,973,299 - 256,973,458NCBIRnor6.0
Rnor_5.01264,453,796 - 264,453,955UniSTSRnor5.0
RGSC_v3.41242,610,605 - 242,610,764UniSTSRGSC3.4
Celera1233,153,980 - 233,154,139UniSTS
RH 3.4 Map11582.4UniSTS
Cytogenetic Map1q53UniSTS


Related Rat Strains
The following Strains have been annotated to Lgi1


Genetic Models
This gene Lgi1 is modified in the following models/strains:


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 54
Low 2 4 12 10 11 10 8 9 20 2 22 11 8
Below cutoff 1 20 36 22 8 22 2 22 18

Sequence


RefSeq Acc Id: ENSRNOT00000020411   ⟹   ENSRNOP00000020411
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1236,042,954 - 236,084,616 (+)Ensembl
Rnor_6.0 Ensembl1256,955,652 - 256,999,253 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113976   ⟹   ENSRNOP00000078389
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1236,043,269 - 236,084,616 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117091   ⟹   ENSRNOP00000097545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1236,043,269 - 236,084,616 (+)Ensembl
RefSeq Acc Id: NM_145769   ⟹   NP_665712
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81245,455,691 - 245,497,036 (+)NCBI
mRatBN7.21236,043,269 - 236,084,617 (+)NCBI
Rnor_6.01256,955,944 - 256,996,835 (+)NCBI
Rnor_5.01264,436,441 - 264,477,332 (+)NCBI
RGSC_v3.41242,593,236 - 242,634,141 (+)RGD
Celera1233,136,652 - 233,177,516 (+)RGD
Sequence:
RefSeq Acc Id: NP_665712   ⟸   NM_145769
- Peptide Label: precursor
- UniProtKB: Q5FWS7 (UniProtKB/Swiss-Prot),   Q8K4Y5 (UniProtKB/Swiss-Prot),   A6I186 (UniProtKB/TrEMBL),   A0A8L2QA98 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020411   ⟸   ENSRNOT00000020411
RefSeq Acc Id: ENSRNOP00000078389   ⟸   ENSRNOT00000113976
RefSeq Acc Id: ENSRNOP00000097545   ⟸   ENSRNOT00000117091
Protein Domains
LRRCT   LRRNT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8K4Y5-F1-model_v2 AlphaFold Q8K4Y5 1-557 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:628742 AgrOrtholog
BioCyc Gene G2FUF-55782 BioCyc
Ensembl Genes ENSRNOG00000014758 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055028207 UniProtKB/Swiss-Prot
  ENSRNOG00060029382 UniProtKB/Swiss-Prot
  ENSRNOG00065028674 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000020411.8 UniProtKB/TrEMBL
  ENSRNOT00000113976 ENTREZGENE
  ENSRNOT00000113976.1 UniProtKB/Swiss-Prot
  ENSRNOT00000117091.1 UniProtKB/TrEMBL
  ENSRNOT00055048799 UniProtKB/Swiss-Prot
  ENSRNOT00060051027 UniProtKB/Swiss-Prot
  ENSRNOT00065049450 UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7320899 IMAGE-MGC_LOAD
InterPro Cys-rich_flank_reg_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EPTP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:252892 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105310 IMAGE-MGC_LOAD
NCBI Gene 252892 ENTREZGENE
PANTHER LEUCINE-RICH GLIOMA-INACTIVATED PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LEUCINE-RICH REPEAT-CONTAINING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EPTP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lgi1 PhenoGen
PROSITE EAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014758 RatGTEx
  ENSRNOG00055028207 RatGTEx
  ENSRNOG00060029382 RatGTEx
  ENSRNOG00065028674 RatGTEx
SMART LRR_TYP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AT54_RAT UniProtKB/TrEMBL
  A0A8L2QA98 ENTREZGENE, UniProtKB/TrEMBL
  A6I186 ENTREZGENE, UniProtKB/TrEMBL
  LGI1_RAT UniProtKB/Swiss-Prot
  Q5FWS7 ENTREZGENE
  Q8K4Y5 ENTREZGENE
UniProt Secondary Q5FWS7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Lgi1  leucine-rich, glioma inactivated 1  LOC100361792  leucine-rich glioma-inactivated protein 1-like  Data merged from RGD:2319482 1643240 APPROVED
2010-05-05 LOC100361792  leucine-rich glioma-inactivated protein 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-11-04 Lgi1  leucine-rich, glioma inactivated 1  Lgi1  leucine-rich repeat LGI family, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Lgi1  leucine-rich repeat LGI family, member 1    leucine-rich, glioma inactivated 1  Name updated 1299863 APPROVED
2004-12-14 Lgi1  leucine-rich, glioma inactivated 1      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Lgi1  leucine-rich, glioma inactivated 1      Symbol and Name status set to provisional 70820 PROVISIONAL