Lamp1 (lysosomal-associated membrane protein 1) - Rat Genome Database

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Gene: Lamp1 (lysosomal-associated membrane protein 1) Rattus norvegicus
Analyze
Symbol: Lamp1
Name: lysosomal-associated membrane protein 1
RGD ID: 2989
Description: Predicted to enable enzyme binding activity; ion channel inhibitor activity; and protein domain specific binding activity. Involved in autophagic cell death. Located in several cellular components, including cytoplasmic vesicle; lysosome; and neuronal cell body. Is active in glutamatergic synapse; postsynapse; and synaptic vesicle membrane. Orthologous to human LAMP1 (lysosomal associated membrane protein 1); PARTICIPATES IN autophagy pathway; phagocytosis pathway; tuberculosis pathway; INTERACTS WITH 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 120 kDa lysosomal membrane glycoprotein; CD107 antigen-like family member A; LAMP-1; LGP-120; LGP120; Lysosomal associated membrane protein 1 (120 kDa); lysosomal membrane glycoprotein 1; lysosome-associated membrane glycoprotein 1; lysosome-associated membrane protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81683,058,131 - 83,082,843 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1683,058,385 - 83,075,159 (-)EnsemblGRCr8
mRatBN7.21676,355,982 - 76,380,700 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1676,355,984 - 76,381,883 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1681,636,784 - 81,653,472 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01685,089,361 - 85,106,049 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01680,324,785 - 80,354,680 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01681,689,576 - 81,714,341 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1681,689,335 - 81,714,419 (-)Ensemblrn6Rnor6.0
Rnor_5.01681,175,574 - 81,200,580 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41681,213,165 - 81,230,019 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1674,162,536 - 74,179,021 (-)NCBICelera
RGSC_v3.11681,213,425 - 81,230,284 (-)NCBI
RH 3.4 Map16744.4RGD
Cytogenetic Map16q12.5NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1,3-dichloropropan-2-ol  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dimethoxyphenol  (ISO)
2-bromohexadecanoic acid  (ISO)
2-methylcholine  (ISO)
25-hydroxycholesterol  (ISO)
3',5'-cyclic AMP  (EXP)
3-chloropropane-1,2-diol  (ISO)
3-methyladenine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
aconitine  (EXP)
acrolein  (EXP)
acrylamide  (ISO)
actinomycin D  (ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
antimycin A  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
bafilomycin A1  (ISO)
benzo[a]pyrene  (ISO)
biotin  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bortezomib  (EXP)
Brusatol  (EXP)
cadmium acetate  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
cannabidiol  (ISO)
captan  (ISO)
carbamazepine  (EXP)
carbon disulfide  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
CHIR 99021  (ISO)
chloropicrin  (ISO)
cholesterol  (ISO)
clofibrate  (ISO)
clozapine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
coumestrol  (ISO)
Cuprizon  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
D-glucose  (EXP)
DDE  (ISO)
decabromodiphenyl ether  (EXP)
deguelin  (ISO)
dexamethasone  (EXP)
Diallyl sulfide  (ISO)
diarsenic trioxide  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
ferric oxide  (EXP)
flunarizine  (EXP)
flusilazole  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
gallic acid  (EXP)
genistein  (ISO)
gentamycin  (EXP)
ginsenoside Rb1  (ISO)
glucose  (EXP)
hexadecanoic acid  (ISO)
ionomycin  (ISO)
isoniazide  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
lead nitrate  (ISO)
lipopolysaccharide  (ISO)
Maduramicin  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methamphetamine  (EXP,ISO)
methyl methanesulfonate  (ISO)
Methylazoxymethanol acetate  (EXP)
Mibefradil  (EXP)
microcystin-LR  (ISO)
mirtazapine  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
NADP zwitterion  (ISO)
NADP(+)  (ISO)
nitrates  (ISO)
Nutlin-3  (ISO)
oligomycin A  (ISO)
paraquat  (ISO)
perfluorononanoic acid  (ISO)
phenobarbital  (EXP)
phenylpropanolamine  (ISO)
phosphoramide mustard  (EXP)
picoxystrobin  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pterostilbene  (ISO)
pyrroloquinoline quinone  (ISO)
resveratrol  (EXP)
rotenone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium dichromate  (ISO)
streptozocin  (EXP)
sulindac sulfide  (ISO)
sunitinib  (ISO)
swainsonine  (ISO)
taurine  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
thapsigargin  (EXP)
thiram  (ISO)
trichloroethene  (EXP)
trifluoperazine  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
Xanthatin  (ISO)
Yessotoxin  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. A systematic analysis of 40 random genes in cultured vascular smooth muscle subtypes reveals a heterogeneity of gene expression and identifies the tight junction gene zonula occludens 2 as a marker of epithelioid "pup" smooth muscle cells and a participant in carotid neointimal formation. Adams LD, etal., Arterioscler Thromb Vasc Biol 1999 Nov;19(11):2600-8.
2. The natural cytotoxicity receptor 1 contribution to early clearance of Streptococcus pneumoniae and to natural killer-macrophage cross talk. Elhaik-Goldman S, etal., PLoS One. 2011;6(8):e23472. doi: 10.1371/journal.pone.0023472. Epub 2011 Aug 22.
3. Combined apoptosis and autophagy, the process that eliminates the oocytes of atretic follicles in immature rats. Escobar ML, etal., Apoptosis. 2008 Oct;13(10):1253-66.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Activity-dependent trafficking of lysosomes in dendrites and dendritic spines. Goo MS, etal., J Cell Biol. 2017 Aug 7;216(8):2499-2513. doi: 10.1083/jcb.201704068. Epub 2017 Jun 19.
7. Isolation and sequencing of a cDNA clone encoding 107 kDa sialoglycoprotein in rat liver lysosomal membranes. Himeno M, etal., FEBS Lett 1989 Feb 27;244(2):351-6.
8. Derived protein sequence, oligosaccharides, and membrane insertion of the 120-kDa lysosomal membrane glycoprotein (lgp120): identification of a highly conserved family of lysosomal membrane glycoproteins. Howe CL, etal., Proc Natl Acad Sci U S A 1988 Oct;85(20):7577-81.
9. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
10. The phosphoinositide 3-phosphatase MTMR2 interacts with PSD-95 and maintains excitatory synapses by modulating endosomal traffic. Lee HW, etal., J Neurosci. 2010 Apr 21;30(16):5508-18. doi: 10.1523/JNEUROSCI.4283-09.2010.
11. Overview of macroautophagy regulation in mammalian cells. Mehrpour M, etal., Cell Res. 2010 Jul;20(7):748-62. Epub 2010 Jun 15.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
15. GOA pipeline RGD automated data pipeline
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Comprehensive gene review and curation RGD comprehensive gene curation
18. Shank Proteins Couple the Endocytic Zone to the Postsynaptic Density to Control Trafficking and Signaling of Metabotropic Glutamate Receptor 5. Scheefhals N, etal., Cell Rep. 2019 Oct 8;29(2):258-269.e8. doi: 10.1016/j.celrep.2019.08.102.
19. A novel role for alpha-tocopherol transfer protein (alpha-TTP) in protecting against chloroquine toxicity. Shichiri M, etal., J Biol Chem. 2012 Jan 20;287(4):2926-34. doi: 10.1074/jbc.M111.321281. Epub 2011 Dec 6.
20. A dileucine motif and a cluster of acidic amino acids in the second cytoplasmic domain of the batten disease-related CLN3 protein are required for efficient lysosomal targeting. Storch S, etal., J Biol Chem. 2004 Dec 17;279(51):53625-34. doi: 10.1074/jbc.M410930200. Epub 2004 Oct 5.
21. Molecular anatomy of a trafficking organelle. Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
22. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
23. Lamellar bodies of rat alveolar type 2 cells have late endosomal marker proteins on their limiting membranes. Wasano K and Hirakawa Y, Histochemistry. 1994 Nov;102(5):329-35.
24. Autophagy in the heart and liver during normal aging and calorie restriction. Wohlgemuth SE, etal., Rejuvenation Res. 2007 Sep;10(3):281-92.
Additional References at PubMed
PMID:10787428   PMID:11182090   PMID:11266470   PMID:11486041   PMID:11854359   PMID:12446704   PMID:12925704   PMID:14506282   PMID:14627652   PMID:14643301   PMID:14668490   PMID:15006695  
PMID:15052268   PMID:15073168   PMID:15292400   PMID:15294975   PMID:15588329   PMID:15613468   PMID:15792797   PMID:16415873   PMID:16542649   PMID:16674683   PMID:16973387   PMID:17620357  
PMID:18388320   PMID:18477453   PMID:18767904   PMID:18787122   PMID:19056867   PMID:19915045   PMID:19946888   PMID:20956541   PMID:21266579   PMID:22190682   PMID:22641697   PMID:22792322  
PMID:23376485   PMID:23395172   PMID:23533145   PMID:23632890   PMID:23704327   PMID:23926254   PMID:24029230   PMID:24035762   PMID:24841562   PMID:26284655   PMID:26329516   PMID:26432893  
PMID:26965651   PMID:27466344   PMID:29273596   PMID:30922709   PMID:31006538   PMID:33450132  


Genomics

Comparative Map Data
Lamp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81683,058,131 - 83,082,843 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1683,058,385 - 83,075,159 (-)EnsemblGRCr8
mRatBN7.21676,355,982 - 76,380,700 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1676,355,984 - 76,381,883 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1681,636,784 - 81,653,472 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01685,089,361 - 85,106,049 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01680,324,785 - 80,354,680 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01681,689,576 - 81,714,341 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1681,689,335 - 81,714,419 (-)Ensemblrn6Rnor6.0
Rnor_5.01681,175,574 - 81,200,580 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41681,213,165 - 81,230,019 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1674,162,536 - 74,179,021 (-)NCBICelera
RGSC_v3.11681,213,425 - 81,230,284 (-)NCBI
RH 3.4 Map16744.4RGD
Cytogenetic Map16q12.5NCBI
LAMP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813113,297,239 - 113,323,672 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13113,297,239 - 113,323,672 (+)Ensemblhg38GRCh38
GRCh3713113,951,554 - 113,977,987 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3613112,999,470 - 113,025,742 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3413112,999,602 - 113,025,741NCBI
Celera1394,778,100 - 94,804,252 (+)NCBICelera
Cytogenetic Map13q34NCBI
HuRef1394,390,382 - 94,416,378 (+)NCBIHuRef
CHM1_113113,920,516 - 113,946,732 (+)NCBICHM1_1
T2T-CHM13v2.013112,550,907 - 112,577,228 (+)NCBIT2T-CHM13v2.0
Lamp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39813,209,161 - 13,225,338 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl813,209,161 - 13,225,338 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38813,159,161 - 13,175,338 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl813,159,161 - 13,175,338 (+)Ensemblmm10GRCm38
MGSCv37813,159,135 - 13,175,338 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36813,159,256 - 13,175,315 (+)NCBIMGSCv36mm8
Celera813,327,454 - 13,343,657 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map85.73NCBI
Lamp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955404557,862 - 573,379 (-)Ensembl
ChiLan1.0NW_004955404557,090 - 573,532 (-)NCBIChiLan1.0ChiLan1.0
LAMP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214114,800,586 - 114,826,384 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113113,491,024 - 113,515,539 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01394,442,507 - 94,464,061 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113113,507,400 - 113,530,179 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13113,507,401 - 113,530,457 (+)EnsemblpanPan2panpan1.1
LAMP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12260,678,116 - 60,695,619 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2260,678,111 - 60,694,924 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2260,390,142 - 60,407,645 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02261,363,372 - 61,380,853 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2261,304,300 - 61,380,844 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12260,802,204 - 60,819,682 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02260,804,391 - 60,821,868 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02260,835,472 - 60,852,955 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lamp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945195,563,024 - 195,574,796 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936472378,173 - 389,381 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936472377,359 - 389,121 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LAMP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1178,600,645 - 78,617,616 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11178,600,818 - 78,617,587 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21186,117,963 - 86,134,737 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LAMP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1391,295,758 - 91,319,881 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl391,295,681 - 91,321,333 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604648,343,222 - 48,368,545 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lamp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624793661,342 - 675,675 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624793661,322 - 675,603 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Lamp1
87 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:434
Count of miRNA genes:245
Interacting mature miRNAs:287
Transcripts:ENSRNOT00000026580
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)1638024580345693Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
J03881  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,356,031 - 76,356,139 (+)MAPPERmRatBN7.2
Rnor_6.01681,689,385 - 81,689,492NCBIRnor6.0
Rnor_5.01681,175,624 - 81,175,731UniSTSRnor5.0
RGSC_v3.41681,212,972 - 81,213,079UniSTSRGSC3.4
Celera1674,162,346 - 74,162,453UniSTS
Cytogenetic Map16q12.5UniSTS
Lamp1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,356,028 - 76,356,561 (+)MAPPERmRatBN7.2
Rnor_6.01681,689,382 - 81,689,913NCBIRnor6.0
Rnor_5.01681,175,621 - 81,176,152UniSTSRnor5.0
RGSC_v3.41681,212,969 - 81,213,499UniSTSRGSC3.4
Celera1674,162,343 - 74,162,873UniSTS
Cytogenetic Map16q12.5UniSTS
RH142299  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81683,065,319 - 83,065,873 (+)Marker Load Pipeline
mRatBN7.21676,363,174 - 76,363,728 (+)MAPPERmRatBN7.2
Rnor_6.01681,696,818 - 81,697,371NCBIRnor6.0
Rnor_5.01681,183,057 - 81,183,610UniSTSRnor5.0
Celera1674,169,278 - 74,169,831UniSTS
RH 3.4 Map16744.4UniSTS
Cytogenetic Map16q12.5UniSTS
RH137106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,357,622 - 76,357,812 (+)MAPPERmRatBN7.2
Rnor_6.01681,690,975 - 81,691,164NCBIRnor6.0
Rnor_5.01681,177,214 - 81,177,403UniSTSRnor5.0
RGSC_v3.41681,214,561 - 81,214,750UniSTSRGSC3.4
Celera1674,163,935 - 74,164,124UniSTS
RH 3.4 Map16743.2UniSTS
Cytogenetic Map16q12.5UniSTS
BI282190  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,356,332 - 76,356,516 (+)MAPPERmRatBN7.2
Rnor_6.01681,689,685 - 81,689,868NCBIRnor6.0
Rnor_5.01681,175,924 - 81,176,107UniSTSRnor5.0
RGSC_v3.41681,213,271 - 81,213,454UniSTSRGSC3.4
Celera1674,162,645 - 74,162,828UniSTS
RH 3.4 Map16744.3UniSTS
Cytogenetic Map16q12.5UniSTS
UniSTS:143756  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,355,996 - 76,356,148 (+)MAPPERmRatBN7.2
Rnor_6.01681,689,350 - 81,689,501NCBIRnor6.0
Rnor_5.01681,175,589 - 81,175,740UniSTSRnor5.0
RGSC_v3.41681,212,937 - 81,213,088UniSTSRGSC3.4
Celera1674,162,311 - 74,162,462UniSTS
Cytogenetic Map16q12.5UniSTS
UniSTS:224778  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21676,356,689 - 76,356,843 (+)MAPPERmRatBN7.2
Rnor_6.01681,690,042 - 81,690,195NCBIRnor6.0
Rnor_5.01681,176,281 - 81,176,434UniSTSRnor5.0
RGSC_v3.41681,213,628 - 81,213,781UniSTSRGSC3.4
Celera1674,163,002 - 74,163,155UniSTS
Cytogenetic Map16q12.5UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000026580   ⟹   ENSRNOP00000026580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1683,058,385 - 83,075,159 (-)Ensembl
mRatBN7.2 Ensembl1676,355,984 - 76,381,467 (-)Ensembl
Rnor_6.0 Ensembl1681,689,335 - 81,706,664 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092248
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1681,697,315 - 81,697,985 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092353   ⟹   ENSRNOP00000075799
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1681,690,613 - 81,693,000 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092552   ⟹   ENSRNOP00000075832
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1683,058,385 - 83,068,454 (-)Ensembl
mRatBN7.2 Ensembl1676,355,984 - 76,381,883 (-)Ensembl
Rnor_6.0 Ensembl1681,706,431 - 81,714,346 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092722
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1681,713,614 - 81,714,419 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096958   ⟹   ENSRNOP00000084480
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1683,058,385 - 83,074,914 (-)Ensembl
mRatBN7.2 Ensembl1676,355,984 - 76,372,770 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105987   ⟹   ENSRNOP00000096531
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1683,058,385 - 83,068,789 (-)Ensembl
mRatBN7.2 Ensembl1676,355,984 - 76,366,679 (-)Ensembl
RefSeq Acc Id: NM_012857   ⟹   NP_036989
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81683,058,371 - 83,075,063 (-)NCBI
mRatBN7.21676,356,224 - 76,372,920 (-)NCBI
Rnor_6.01681,689,576 - 81,706,561 (-)NCBI
Rnor_5.01681,175,574 - 81,200,580 (-)NCBI
RGSC_v3.41681,213,165 - 81,230,019 (-)RGD
Celera1674,162,536 - 74,179,021 (-)RGD
Sequence:
RefSeq Acc Id: XM_017599994   ⟹   XP_017455483
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81683,058,131 - 83,082,843 (-)NCBI
mRatBN7.21676,355,982 - 76,380,700 (-)NCBI
Rnor_6.01681,689,963 - 81,714,341 (-)NCBI
Sequence:
RefSeq Acc Id: NP_036989   ⟸   NM_012857
- Peptide Label: precursor
- UniProtKB: P97620 (UniProtKB/Swiss-Prot),   P14562 (UniProtKB/Swiss-Prot),   A6IWJ4 (UniProtKB/TrEMBL),   A0A0U1RRW1 (UniProtKB/TrEMBL),   A0A6F8P9J1 (UniProtKB/TrEMBL),   A0A8L2UK78 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455483   ⟸   XM_017599994
- Peptide Label: isoform X1
- UniProtKB: P97620 (UniProtKB/Swiss-Prot),   P14562 (UniProtKB/Swiss-Prot),   A6IWJ4 (UniProtKB/TrEMBL),   A0A0U1RRW1 (UniProtKB/TrEMBL),   A0A6F8P9J1 (UniProtKB/TrEMBL),   A0A8L2UK78 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075799   ⟸   ENSRNOT00000092353
Ensembl Acc Id: ENSRNOP00000075832   ⟸   ENSRNOT00000092552
Ensembl Acc Id: ENSRNOP00000026580   ⟸   ENSRNOT00000026580
Ensembl Acc Id: ENSRNOP00000084480   ⟸   ENSRNOT00000096958
Ensembl Acc Id: ENSRNOP00000096531   ⟸   ENSRNOT00000105987
Protein Domains
Lysosome-associated membrane glycoprotein 2-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P14562-F1-model_v2 AlphaFold P14562 1-407 view protein structure

Transcriptome

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

Promoters
RGD ID:13700232
Promoter ID:EPDNEW_R10756
Type:initiation region
Name:Lamp1_1
Description:lysosomal-associated membrane protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01681,706,570 - 81,706,630EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2989 AgrOrtholog
BioCyc Gene G2FUF-10702 BioCyc
Ensembl Genes ENSRNOG00000019629 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000026580 ENTREZGENE
Gene3D-CATH 2.40.160.110 UniProtKB/Swiss-Prot
InterPro Lamp2-like_luminal UniProtKB/Swiss-Prot
  Lamp2-like_TM UniProtKB/Swiss-Prot
  LAMP_CS UniProtKB/Swiss-Prot
  Lysosome-assoc_membr_glycop UniProtKB/Swiss-Prot
KEGG Report rno:25328 UniProtKB/Swiss-Prot
NCBI Gene 25328 ENTREZGENE
PANTHER LYSOSOME-ASSOCIATED MEMBRANE GLYCOPROTEIN 5 UniProtKB/Swiss-Prot
  PTHR11506 UniProtKB/Swiss-Prot
Pfam Lamp UniProtKB/Swiss-Prot
  Lamp2_2nd UniProtKB/Swiss-Prot
PhenoGen Lamp1 PhenoGen
PRINTS LYSASSOCTDMP UniProtKB/Swiss-Prot
PROSITE LAMP_1 UniProtKB/Swiss-Prot
  LAMP_2 UniProtKB/Swiss-Prot
  LAMP_3 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000019629 RatGTEx
TIGR TC203955
UniProt A0A0U1RRW1 ENTREZGENE, UniProtKB/TrEMBL
  A0A6F8P9J1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A235_RAT UniProtKB/TrEMBL
  A0A8I6AQY4_RAT UniProtKB/TrEMBL
  A0A8L2UK78 ENTREZGENE, UniProtKB/TrEMBL
  A6IWJ4 ENTREZGENE, UniProtKB/TrEMBL
  LAMP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  P97620 ENTREZGENE
UniProt Secondary P97620 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-15 Lamp1  lysosomal-associated membrane protein 1  Lamp1  lysosomal membrane glycoprotein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Lamp1  Lysosomal associated membrane protein 1 (120 kDa)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains 20 potential N-glycosylation sites 729151
gene_expression expressed in liver, kidney, brain, lung, spleen, heart and pancreas 729151