Lsamp (limbic system-associated membrane protein) - 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 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   new 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
Gene: Lsamp (limbic system-associated membrane protein) Rattus norvegicus
Analyze
Symbol: Lsamp
Name: limbic system-associated membrane protein
RGD ID: 71102
Description: Predicted to be involved in cell adhesion. Predicted to act upstream of or within locomotory exploration behavior. Is active in postsynaptic membrane and presynaptic membrane. Orthologous to human LSAMP (limbic system associated membrane protein); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MGC105298
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81172,053,285 - 74,223,019 (-)NCBIGRCr8
mRatBN7.21158,547,533 - 60,717,328 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1158,554,805 - 60,717,029 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1167,367,903 - 68,009,280 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01160,030,195 - 60,671,566 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01159,072,347 - 59,731,794 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01158,795,884 - 59,442,772 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1158,803,140 - 59,110,562 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01162,949,745 - 63,593,038 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41160,170,406 - 60,870,875 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11160,227,994 - 60,928,464 (-)NCBI
Celera1158,097,179 - 58,730,179 (-)NCBICelera
Cytogenetic Map11q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Gene Data Set MGD Curation, June 12, 2002
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. The limbic system-associated membrane protein is an Ig superfamily member that mediates selective neuronal growth and axon targeting. Pimenta AF, etal., Neuron 1995 Aug;15(2):287-97.
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Isolation, biochemical characterization and ultrastructural analysis of the limbic system-associated membrane protein (LAMP), a protein expressed by neurons comprising functional neural circuits. Zacco A, etal., J Neurosci. 1990 Jan;10(1):73-90. doi: 10.1523/JNEUROSCI.10-01-00073.1990.
Additional References at PubMed
PMID:12477932   PMID:14625014   PMID:15081109   PMID:18199495   PMID:28801670   PMID:29476059  


Genomics

Comparative Map Data
Lsamp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81172,053,285 - 74,223,019 (-)NCBIGRCr8
mRatBN7.21158,547,533 - 60,717,328 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1158,554,805 - 60,717,029 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1167,367,903 - 68,009,280 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01160,030,195 - 60,671,566 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01159,072,347 - 59,731,794 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01158,795,884 - 59,442,772 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1158,803,140 - 59,110,562 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01162,949,745 - 63,593,038 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41160,170,406 - 60,870,875 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11160,227,994 - 60,928,464 (-)NCBI
Celera1158,097,179 - 58,730,179 (-)NCBICelera
Cytogenetic Map11q21NCBI
LSAMP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383115,802,374 - 116,445,487 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3115,802,374 - 117,139,389 (-)EnsemblGRCh38hg38GRCh38
GRCh373115,521,221 - 116,164,334 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363117,011,832 - 117,647,068 (-)NCBINCBI36Build 36hg18NCBI36
Build 343117,011,833 - 117,647,068NCBI
Celera3113,929,271 - 114,572,430 (-)NCBICelera
Cytogenetic Map3q13.31NCBI
HuRef3112,897,118 - 113,540,663 (-)NCBIHuRef
CHM1_13115,484,952 - 116,127,889 (-)NCBICHM1_1
T2T-CHM13v2.03118,522,573 - 119,165,711 (-)NCBIT2T-CHM13v2.0
Lsamp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391639,804,674 - 42,002,042 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1639,804,723 - 42,002,042 (+)EnsemblGRCm39 Ensembl
GRCm381639,984,254 - 42,181,679 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1639,984,361 - 42,181,679 (+)EnsemblGRCm38mm10GRCm38
MGSCv371641,533,455 - 42,146,326 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361641,452,674 - 42,065,545 (+)NCBIMGSCv36mm8
Celera1641,901,502 - 42,509,283 (+)NCBICelera
Cytogenetic Map16B4NCBI
Lsamp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542715,873,278 - 17,911,903 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542715,871,178 - 16,475,975 (-)NCBIChiLan1.0ChiLan1.0
LSAMP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22113,806,256 - 114,436,270 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13113,812,916 - 114,441,047 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03112,952,837 - 113,582,708 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13119,869,117 - 120,496,648 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3119,871,236 - 120,496,120 (-)Ensemblpanpan1.1panPan2
LSAMP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13319,833,604 - 20,478,800 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3319,841,111 - 20,478,776 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3319,939,960 - 20,579,121 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03320,079,910 - 20,727,054 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3320,082,975 - 20,727,018 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13319,886,366 - 20,530,790 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03319,934,283 - 20,567,250 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03320,478,555 - 21,125,027 (-)NCBIUU_Cfam_GSD_1.0
Lsamp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602133,775,828 - 134,368,441 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365363,161,345 - 3,745,641 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365363,161,009 - 3,746,148 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSAMP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13143,675,575 - 144,304,151 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113143,675,521 - 144,304,186 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LSAMP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12264,423,191 - 65,069,462 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041101,324,436 - 101,959,791 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsamp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473131,872,494 - 32,542,316 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473131,872,211 - 32,550,089 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lsamp
13038 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:17
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000042024, ENSRNOT00000047907
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat

Markers in Region
D11Got51  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21158,828,731 - 58,828,933 (+)MAPPERmRatBN7.2
Rnor_6.01159,077,526 - 59,077,727NCBIRnor6.0
Rnor_5.01163,228,592 - 63,228,793UniSTSRnor5.0
RGSC_v3.41160,464,437 - 60,464,639RGDRGSC3.4
RGSC_v3.41160,464,438 - 60,464,639UniSTSRGSC3.4
RGSC_v3.11160,522,026 - 60,522,228RGD
Celera1158,364,412 - 58,364,613UniSTS
RH 3.4 Map11528.8UniSTS
RH 3.4 Map11528.8RGD
RH 2.0 Map11222.1RGD
Cytogenetic Map11q21UniSTS
D11Got85  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21159,122,461 - 59,122,625 (+)MAPPERmRatBN7.2
Rnor_6.01159,368,233 - 59,368,396NCBIRnor6.0
Rnor_5.01163,518,924 - 63,519,087UniSTSRnor5.0
RGSC_v3.41160,796,742 - 60,796,906RGDRGSC3.4
RGSC_v3.11160,854,331 - 60,854,495RGD
RH 3.4 Map11541.2RGD
RH 3.4 Map11541.2UniSTS
Cytogenetic Map11q21UniSTS
BF399213  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21158,969,678 - 58,969,870 (+)MAPPERmRatBN7.2
Rnor_6.01159,217,578 - 59,217,769NCBIRnor6.0
Rnor_5.01163,368,512 - 63,368,703UniSTSRnor5.0
RGSC_v3.41160,606,531 - 60,606,722UniSTSRGSC3.4
Celera1158,505,242 - 58,505,433UniSTS
RH 3.4 Map11527.2UniSTS
Cytogenetic Map11q21UniSTS
RH138298  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21158,855,766 - 58,855,909 (+)MAPPERmRatBN7.2
Rnor_6.01159,103,856 - 59,103,998NCBIRnor6.0
Rnor_5.01163,254,850 - 63,254,992UniSTSRnor5.0
RGSC_v3.41160,492,249 - 60,492,391UniSTSRGSC3.4
Celera1158,391,352 - 58,391,494UniSTS
RH 3.4 Map11525.1UniSTS
Cytogenetic Map11q21UniSTS
RH128355  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21159,183,370 - 59,183,590 (+)MAPPERmRatBN7.2
Rnor_6.01159,429,426 - 59,429,645NCBIRnor6.0
Rnor_5.01163,579,692 - 63,579,911UniSTSRnor5.0
RGSC_v3.41160,857,980 - 60,858,199UniSTSRGSC3.4
Celera1158,717,262 - 58,717,481UniSTS
RH 3.4 Map11522.1UniSTS
Cytogenetic Map11q21UniSTS
BF386479  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21158,733,880 - 58,734,042 (+)MAPPERmRatBN7.2
Rnor_6.01158,982,681 - 58,982,842NCBIRnor6.0
Rnor_5.01163,133,902 - 63,134,063UniSTSRnor5.0
RGSC_v3.41160,369,163 - 60,369,324UniSTSRGSC3.4
Celera1158,269,638 - 58,269,799UniSTS
RH 3.4 Map11534.4UniSTS
Cytogenetic Map11q21UniSTS
RH137877  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21158,559,084 - 58,559,219 (+)MAPPERmRatBN7.2
Rnor_6.01158,807,388 - 58,807,522NCBIRnor6.0
Rnor_5.01162,960,559 - 62,960,693UniSTSRnor5.0
RGSC_v3.41160,174,631 - 60,174,765UniSTSRGSC3.4
Celera1158,101,411 - 58,101,545UniSTS
RH 3.4 Map11536.6UniSTS
Cytogenetic Map11q21UniSTS
RH138903  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21159,159,044 - 59,159,183 (+)MAPPERmRatBN7.2
Rnor_6.01159,404,814 - 59,404,952NCBIRnor6.0
Rnor_5.01163,555,080 - 63,555,218UniSTSRnor5.0
RGSC_v3.41160,833,661 - 60,833,799UniSTSRGSC3.4
Celera1158,692,968 - 58,693,106UniSTS
Cytogenetic Map11q21UniSTS


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 31 2 68 17
Low 3 12 37 23 19 23 8 11 6 33 23 11 8
Below cutoff 18 18 18 2 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000042024   ⟹   ENSRNOP00000047121
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,554,863 - 60,717,029 (-)Ensembl
Rnor_6.0 Ensembl1158,803,198 - 59,110,562 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000047907   ⟹   ENSRNOP00000040165
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,554,805 - 59,196,717 (-)Ensembl
Rnor_6.0 Ensembl1158,803,140 - 59,110,562 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094287   ⟹   ENSRNOP00000089385
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1159,034,970 - 59,196,717 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098604   ⟹   ENSRNOP00000082574
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,584,179 - 59,196,717 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100246   ⟹   ENSRNOP00000085583
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,554,863 - 59,196,717 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101139   ⟹   ENSRNOP00000085637
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,554,998 - 59,196,717 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108300   ⟹   ENSRNOP00000096530
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,554,805 - 59,196,717 (-)Ensembl
RefSeq Acc Id: NM_001414997   ⟹   NP_001401926
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,053,285 - 74,222,967 (-)NCBI
mRatBN7.21158,547,533 - 60,717,324 (-)NCBI
RefSeq Acc Id: NM_017242   ⟹   NP_058938
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,053,285 - 72,702,455 (-)NCBI
mRatBN7.21158,547,533 - 59,196,733 (-)NCBI
Rnor_6.01158,803,219 - 59,442,321 (-)NCBI
Rnor_5.01162,949,745 - 63,593,038 (-)NCBI
RGSC_v3.41160,170,406 - 60,870,875 (-)RGD
Celera1158,097,179 - 58,730,179 (-)RGD
Sequence:
RefSeq Acc Id: XM_039088255   ⟹   XP_038944183
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81172,053,288 - 74,223,019 (-)NCBI
mRatBN7.21158,547,533 - 60,717,328 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_058938   ⟸   NM_017242
- Peptide Label: isoform 2 precursor
- UniProtKB: Q6VUH9 (UniProtKB/Swiss-Prot),   Q62813 (UniProtKB/Swiss-Prot),   A6IR42 (UniProtKB/TrEMBL),   A0A8I5ZZN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000040165   ⟸   ENSRNOT00000047907
RefSeq Acc Id: ENSRNOP00000047121   ⟸   ENSRNOT00000042024
RefSeq Acc Id: XP_038944183   ⟸   XM_039088255
- Peptide Label: isoform X1
- UniProtKB: A0A0H2UHY3 (UniProtKB/TrEMBL),   A0A8I5ZZN4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000096530   ⟸   ENSRNOT00000108300
RefSeq Acc Id: ENSRNOP00000085637   ⟸   ENSRNOT00000101139
RefSeq Acc Id: ENSRNOP00000082574   ⟸   ENSRNOT00000098604
RefSeq Acc Id: ENSRNOP00000089385   ⟸   ENSRNOT00000094287
RefSeq Acc Id: ENSRNOP00000085583   ⟸   ENSRNOT00000100246
RefSeq Acc Id: NP_001401926   ⟸   NM_001414997
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A0H2UHW7 (UniProtKB/TrEMBL)
Protein Domains
Ig-like   Ig-like C2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62813-F1-model_v2 AlphaFold Q62813 1-338 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:71102 AgrOrtholog
BioCyc Gene G2FUF-21309 BioCyc
Ensembl Genes ENSRNOG00000031852 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055003579 UniProtKB/Swiss-Prot
  ENSRNOG00060008175 UniProtKB/Swiss-Prot
  ENSRNOG00065008997 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000042024.4 UniProtKB/TrEMBL
  ENSRNOT00000047907 UniProtKB/TrEMBL
  ENSRNOT00000047907.5 UniProtKB/Swiss-Prot
  ENSRNOT00000094287.1 UniProtKB/TrEMBL
  ENSRNOT00000098604.1 UniProtKB/TrEMBL
  ENSRNOT00000100246 ENTREZGENE
  ENSRNOT00000100246.1 UniProtKB/Swiss-Prot
  ENSRNOT00000101139.1 UniProtKB/TrEMBL
  ENSRNOT00000108300.1 UniProtKB/TrEMBL
  ENSRNOT00055005616 UniProtKB/Swiss-Prot
  ENSRNOT00060013590 UniProtKB/Swiss-Prot
  ENSRNOT00065014385 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7314244 IMAGE-MGC_LOAD
InterPro Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29561 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105298 IMAGE-MGC_LOAD
NCBI Gene 29561 ENTREZGENE
PANTHER IGLON FAMILY OF IMMUNOGLOBULIN SUPERFAMILY-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NEUROTRIMIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lsamp PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031852 RatGTEx
  ENSRNOG00055003579 RatGTEx
  ENSRNOG00060008175 RatGTEx
  ENSRNOG00065008997 RatGTEx
SMART IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0H2UHW7 ENTREZGENE, UniProtKB/TrEMBL
  A0A0H2UHY3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZZN4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ASN4_RAT UniProtKB/TrEMBL
  A0A8I6G7K8_RAT UniProtKB/TrEMBL
  A0A8I6GI20_RAT UniProtKB/TrEMBL
  A6IR42 ENTREZGENE, UniProtKB/TrEMBL
  LSAMP_RAT UniProtKB/Swiss-Prot
  Q5M960_RAT UniProtKB/TrEMBL
  Q62813 ENTREZGENE
  Q6VUH9 ENTREZGENE
UniProt Secondary Q6VUH9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-07-09 Lsamp  limbic system-associated membrane protein      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in limbic-associated cortical and subcortical neurons 70635