Lamp2 (lysosomal-associated membrane protein 2) - Rat Genome Database

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Gene: Lamp2 (lysosomal-associated membrane protein 2) Rattus norvegicus
Analyze
Symbol: Lamp2
Name: lysosomal-associated membrane protein 2
RGD ID: 2990
Description: Predicted to enable several functions, including enzyme binding activity; ion channel inhibitor activity; and signaling adaptor activity. Involved in chaperone-mediated autophagy. Acts upstream of or within protein targeting to lysosome involved in chaperone-mediated autophagy. Located in endosome; lysosome; and membrane raft. Used to study Danon disease; cholestasis; chronic conjunctivitis; cognitive disorder; and hypertrophic cardiomyopathy. Biomarker of myocardial infarction; sciatic neuropathy; and traumatic brain injury. Human ortholog(s) of this gene implicated in Danon disease and hypertrophic cardiomyopathy. Orthologous to human LAMP2 (lysosomal associated membrane protein 2); PARTICIPATES IN autophagy pathway; chaperone mediated autophagy pathway; phagocytosis pathway; INTERACTS WITH (+)-pilocarpine; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD107 antigen-like family member B; LAMP-2; LGP-110; LGP-96; LGP-B; lysosomal membrane glycoprotein 2; lysosomal membrane glycoprotein type B; lysosome-associated membrane glycoprotein 2; lysosome-associated membrane protein 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Lamp2em1
Genetic Models: SD-Lamp2em1
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X122,038,734 - 122,087,745 (-)NCBIGRCr8
mRatBN7.2X117,173,097 - 117,222,090 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX117,057,606 - 117,260,522 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX119,276,896 - 119,320,477 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X122,845,901 - 122,889,485 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X120,391,759 - 120,435,367 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X124,722,628 - 124,766,079 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,722,628 - 124,766,044 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X124,809,053 - 124,852,509 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X6,908,285 - 6,951,772 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X6,913,840 - 6,957,328 (+)NCBI
CeleraX116,392,499 - 116,436,287 (-)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(1->4)-beta-D-glucan  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-bromohexadecanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-methyladenine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
aloxistatin  (ISO)
alpha,alpha-trehalose  (EXP,ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
antimony(0)  (ISO)
arachidonic acid  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
beauvericin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bicalutamide  (ISO)
bilirubin IXalpha  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Brusatol  (EXP)
butanal  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
calciol  (ISO)
carbamazepine  (EXP)
carbon nanotube  (ISO)
carnosic acid  (ISO)
chloroquine  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
cocaine  (EXP)
coenzyme Q10  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
corosolic acid  (EXP,ISO)
cyclosporin A  (EXP,ISO)
D-glucose  (ISO)
dextran sulfate  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
Didecyldimethylammonium  (ISO)
dimethyl fumarate  (ISO)
dioxygen  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
enniatin  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethambutol  (EXP)
ethanol  (ISO)
Evodiamine  (ISO)
ferric oxide  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glucose  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
lanthanum trichloride  (EXP)
lead diacetate  (EXP,ISO)
lead nitrate  (ISO)
lead(0)  (EXP,ISO)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
melatonin  (EXP)
mercury dibromide  (ISO)
methamphetamine  (EXP,ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
methylphenidate  (EXP)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (EXP,ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
nicotine  (ISO)
nitrates  (ISO)
Nivalenol  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pepstatin A  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
potassium dichromate  (ISO)
Propiverine  (EXP)
pyrogallol  (ISO)
pyrroloquinoline quinone  (ISO)
quizartinib  (ISO)
rimonabant  (ISO)
rotenone  (EXP,ISO)
sarin  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
Soman  (EXP)
streptozocin  (EXP)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
swainsonine  (EXP)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiophenes  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trifloxystrobin  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
uranium atom  (ISO)
valproic acid  (ISO)
vitamin E  (EXP)
zidovudine  (EXP)
zinc oxide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Glycogen storage diseases presenting as hypertrophic cardiomyopathy. Arad M, etal., N Engl J Med. 2005 Jan 27;352(4):362-72.
2. The chaperone-mediated autophagy receptor organizes in dynamic protein complexes at the lysosomal membrane. Bandyopadhyay U, etal., Mol Cell Biol. 2008 Sep;28(18):5747-63. doi: 10.1128/MCB.02070-07. Epub 2008 Jul 21.
3. Identification of regulators of chaperone-mediated autophagy. Bandyopadhyay U, etal., Mol Cell. 2010 Aug 27;39(4):535-47. doi: 10.1016/j.molcel.2010.08.004.
4. Noggin attenuates cerulein-induced acute pancreatitis and impaired autophagy. Cao Y, etal., Pancreas. 2013 Mar;42(2):301-7. doi: 10.1097/MPA.0b013e31825b9f2c.
5. Effect of autophagy on allodynia, hyperalgesia and astrocyte activation in a rat model of neuropathic pain. Chen H, etal., Int J Mol Med. 2018 Jul 6. doi: 10.3892/ijmm.2018.3763.
6. Unique properties of lamp2a compared to other lamp2 isoforms. Cuervo AM and Dice JF, J Cell Sci. 2000 Dec;113 Pt 24:4441-50.
7. A receptor for the selective uptake and degradation of proteins by lysosomes. Cuervo AM and Dice JF, Science. 1996 Jul 26;273(5274):501-3.
8. Chaperone-mediated autophagy: roles in disease and aging. Cuervo AM and Wong E, Cell Res. 2014 Jan;24(1):92-104. doi: 10.1038/cr.2013.153. Epub 2013 Nov 26.
9. Cathepsin A regulates chaperone-mediated autophagy through cleavage of the lysosomal receptor. Cuervo AM, etal., EMBO J. 2003 Jan 2;22(1):47-59.
10. 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.
11. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
12. Cation-independent mannose 6-phosphate and 78 kDa receptors for lysosomal enzyme targeting are located in different cell compartments. Gonzalez-Noriega A, etal., Biochim Biophys Acta. 2005 Aug 15;1745(1):7-19. Epub 2005 Jan 26.
13. Characterization and cloning of lgp110, a lysosomal membrane glycoprotein from mouse and rat cells. Granger BL, etal., J Biol Chem 1990 Jul 15;265(20):12036-43.
14. Autophagy signaling in skeletal muscle of infarcted rats. Jannig PR, etal., PLoS One. 2014 Jan 10;9(1):e85820. doi: 10.1371/journal.pone.0085820. eCollection 2014.
15. Characterisation of Lamp2-deficient rats for potential new animal model of Danon disease. Ma S, etal., Sci Rep. 2018 May 2;8(1):6932. doi: 10.1038/s41598-018-24351-w.
16. Overview of macroautophagy regulation in mammalian cells. Mehrpour M, etal., Cell Res. 2010 Jul;20(7):748-62. Epub 2010 Jun 15.
17. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
18. In vitro reconstitution of fusion between immature autophagosomes and endosomes. Morvan J, etal., Autophagy. 2009 Jul;5(5):676-89. Epub 2009 Jul 6.
19. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
20. Isolation and sequencing of a cDNA clone encoding 96 kDa sialoglycoprotein in rat liver lysosomal membranes. Noguchi Y, etal., Biochem Biophys Res Commun 1989 Nov 15;164(3):1113-20.
21. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
22. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
23. GOA pipeline RGD automated data pipeline
24. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
26. Comprehensive gene review and curation RGD comprehensive gene curation
27. Hepatic interferon regulatory factor 8 expression mediates liver ischemia/reperfusion injury in mice. Shi G, etal., Biochem Pharmacol. 2021 Oct;192:114728. doi: 10.1016/j.bcp.2021.114728. Epub 2021 Aug 13.
28. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
29. A Critical Evaluation of Liver Pathology in Humans with Danon Disease and Experimental Correlates in a Rat Model of LAMP-2 Deficiency. Wang L, etal., Clin Rev Allergy Immunol. 2017 Aug;53(1):105-116. doi: 10.1007/s12016-017-8598-3.
30. Chaperone mediated autophagy to the rescue: A new-fangled target for the treatment of neurodegenerative diseases. Xilouri M and Stefanis L, Mol Cell Neurosci. 2015 May;66(Pt A):29-36. doi: 10.1016/j.mcn.2015.01.003. Epub 2015 Feb 25.
31. Danon disease as an underrecognized cause of hypertrophic cardiomyopathy in children. Yang Z, etal., Circulation. 2005 Sep 13;112(11):1612-7. Epub 2005 Sep 6.
32. Effects of DHA on Hippocampal Autophagy and Lysosome Function After Traumatic Brain Injury. Yin Y, etal., Mol Neurobiol. 2018 Mar;55(3):2454-2470. doi: 10.1007/s12035-017-0504-8. Epub 2017 Apr 1.
Additional References at PubMed
PMID:1794981   PMID:9670047   PMID:12221139   PMID:12536145   PMID:12775715   PMID:14557411   PMID:14668490   PMID:15229288   PMID:15297306   PMID:15908444   PMID:16093322   PMID:16399794  
PMID:16917501   PMID:17897319   PMID:18022370   PMID:18579532   PMID:19056867   PMID:19272430   PMID:19362087   PMID:19535332   PMID:19549681   PMID:20060297   PMID:21896273   PMID:22641697  
PMID:23093945   PMID:23376485   PMID:23533145   PMID:24334765   PMID:24880125   PMID:25212253   PMID:25327288   PMID:25645918   PMID:26203154   PMID:26212789   PMID:27029769   PMID:27628032  
PMID:28743268   PMID:29797121   PMID:30951836   PMID:33450132  


Genomics

Comparative Map Data
Lamp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X122,038,734 - 122,087,745 (-)NCBIGRCr8
mRatBN7.2X117,173,097 - 117,222,090 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX117,057,606 - 117,260,522 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX119,276,896 - 119,320,477 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X122,845,901 - 122,889,485 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X120,391,759 - 120,435,367 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X124,722,628 - 124,766,079 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,722,628 - 124,766,044 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X124,809,053 - 124,852,509 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X6,908,285 - 6,951,772 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X6,913,840 - 6,957,328 (+)NCBI
CeleraX116,392,499 - 116,436,287 (-)NCBICelera
Cytogenetic MapXq35NCBI
LAMP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X120,426,148 - 120,469,349 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX120,426,148 - 120,469,365 (-)EnsemblGRCh38hg38GRCh38
GRCh37X119,560,003 - 119,603,204 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X119,448,709 - 119,487,189 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X119,352,246 - 119,385,043NCBI
CeleraX120,024,817 - 120,068,016 (-)NCBICelera
Cytogenetic MapXq24NCBI
HuRefX109,011,091 - 109,054,565 (-)NCBIHuRef
CHM1_1X119,471,636 - 119,514,850 (-)NCBICHM1_1
T2T-CHM13v2.0X118,801,613 - 118,844,815 (-)NCBIT2T-CHM13v2.0
Lamp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X37,488,524 - 37,545,337 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX37,490,234 - 37,545,331 (-)EnsemblGRCm39 Ensembl
GRCm38X38,399,647 - 38,456,460 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX38,401,357 - 38,456,454 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X35,758,241 - 35,809,632 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X34,649,691 - 34,701,082 (-)NCBIMGSCv36mm8
CeleraX26,051,798 - 26,103,095 (-)NCBICelera
Cytogenetic MapXA3.3NCBI
cM MapX22.67NCBI
Lamp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555721,422,981 - 1,462,622 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555721,423,048 - 1,464,443 (+)NCBIChiLan1.0ChiLan1.0
LAMP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X119,975,376 - 120,018,805 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X119,978,980 - 120,022,420 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X109,700,185 - 109,743,579 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X119,886,982 - 119,929,896 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX119,886,982 - 119,929,896 (-)Ensemblpanpan1.1panPan2
LAMP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X92,405,946 - 92,444,527 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX92,407,950 - 92,444,765 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX78,437,137 - 78,476,066 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X94,152,123 - 94,191,053 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX94,151,835 - 94,191,301 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X91,601,151 - 91,640,080 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X93,364,000 - 93,402,925 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X93,138,811 - 93,177,755 (-)NCBIUU_Cfam_GSD_1.0
Lamp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X91,364,734 - 91,431,269 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364799,584,221 - 9,610,420 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364799,584,221 - 9,622,330 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LAMP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX98,581,992 - 98,623,940 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X98,586,718 - 98,623,939 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X112,841,525 - 112,883,411 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LAMP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366606533,136,533 - 33,179,483 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lamp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624931298,328 - 343,915 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624931297,864 - 343,314 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lamp2
132 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:55
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000000177
Prediction methods:Miranda, Pita, 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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
5685004Bss104Bone structure and strength QTL 1043.9tibia area (VT:1000281)tibia area measurement (CMO:0001382)X113805422126975220Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat

Markers in Region
DXWox28  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic MapXq11UniSTS
AA819641  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X117,178,827 - 117,179,028 (+)MAPPERmRatBN7.2
Rnor_6.0X124,722,949 - 124,723,149NCBIRnor6.0
Rnor_5.0X124,809,374 - 124,809,574UniSTSRnor5.0
RGSC_v3.4X6,951,251 - 6,951,451UniSTSRGSC3.4
CeleraX116,392,820 - 116,393,020UniSTS
Cytogenetic MapXq11UniSTS
BE107180  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X117,181,960 - 117,182,174 (+)MAPPERmRatBN7.2
Rnor_6.0X124,725,930 - 124,726,143NCBIRnor6.0
Rnor_5.0X124,812,355 - 124,812,568UniSTSRnor5.0
CeleraX116,395,952 - 116,396,204UniSTS
Cytogenetic MapXq11UniSTS


Genetic Models
This gene Lamp2 is modified in the following models/strains:
SD-Lamp2em1    


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000000177   ⟹   ENSRNOP00000000177
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,178,718 - 117,260,522 (-)Ensembl
Rnor_6.0 EnsemblX124,722,628 - 124,766,044 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095944   ⟹   ENSRNOP00000088297
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,171,905 - 117,222,087 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099330   ⟹   ENSRNOP00000095159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,186,349 - 117,222,077 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099710   ⟹   ENSRNOP00000090428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,095,987 - 117,222,087 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105324   ⟹   ENSRNOP00000092012
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,188,436 - 117,222,087 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107735   ⟹   ENSRNOP00000092818
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,175,081 - 117,222,087 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115842   ⟹   ENSRNOP00000091718
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX117,057,606 - 117,222,087 (-)Ensembl
RefSeq Acc Id: NM_017068   ⟹   NP_058764
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,044,130 - 122,087,673 (-)NCBI
mRatBN7.2X117,178,507 - 117,222,051 (-)NCBI
Rnor_6.0X124,722,628 - 124,766,044 (-)NCBI
Rnor_5.0X124,809,053 - 124,852,509 (-)NCBI
RGSC_v3.4X6,908,285 - 6,951,772 (+)RGD
CeleraX116,392,499 - 116,436,287 (-)RGD
Sequence:
RefSeq Acc Id: XM_006257486   ⟹   XP_006257548
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,051,952 - 122,087,745 (-)NCBI
mRatBN7.2X117,186,330 - 117,222,090 (-)NCBI
Rnor_6.0X124,730,299 - 124,766,079 (-)NCBI
Rnor_5.0X124,809,053 - 124,852,509 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099490   ⟹   XP_038955418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X122,038,734 - 122,087,724 (-)NCBI
mRatBN7.2X117,173,097 - 117,222,088 (-)NCBI
RefSeq Acc Id: NP_058764   ⟸   NM_017068
- Peptide Label: precursor
- UniProtKB: P17046 (UniProtKB/Swiss-Prot),   F1LLX8 (UniProtKB/Swiss-Prot),   Q6P6W1 (UniProtKB/Swiss-Prot),   A6JMK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257548   ⟸   XM_006257486
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AMZ0 (UniProtKB/TrEMBL),   A6JMK4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000000177   ⟸   ENSRNOT00000000177
RefSeq Acc Id: XP_038955418   ⟸   XM_039099490
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AHB3 (UniProtKB/TrEMBL),   A0A8I6ACM0 (UniProtKB/TrEMBL),   A6JMK1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000092818   ⟸   ENSRNOT00000107735
Ensembl Acc Id: ENSRNOP00000091718   ⟸   ENSRNOT00000115842
Ensembl Acc Id: ENSRNOP00000092012   ⟸   ENSRNOT00000105324
Ensembl Acc Id: ENSRNOP00000095159   ⟸   ENSRNOT00000099330
Ensembl Acc Id: ENSRNOP00000088297   ⟸   ENSRNOT00000095944
Ensembl Acc Id: ENSRNOP00000090428   ⟸   ENSRNOT00000099710
Protein Domains
Lysosome-associated membrane glycoprotein 2-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P17046-F1-model_v2 AlphaFold P17046 1-411 view protein structure

Transcriptome

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

Promoters
RGD ID:13701997
Promoter ID:EPDNEW_R12521
Type:initiation region
Name:Lamp2_1
Description:lysosomal-associated membrane protein 2
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_6.0X124,766,046 - 124,766,106EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2990 AgrOrtholog
BioCyc Gene G2FUF-1258 BioCyc
Ensembl Genes ENSRNOG00000000164 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000177 ENTREZGENE
  ENSRNOT00000000177.5 UniProtKB/Swiss-Prot
  ENSRNOT00000099330 ENTREZGENE
  ENSRNOT00000107735 ENTREZGENE
Gene3D-CATH 2.40.160.110 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5599402 IMAGE-MGC_LOAD
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:24944 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72499 IMAGE-MGC_LOAD
NCBI Gene 24944 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 Lamp2 PhenoGen
PRINTS LYSASSOCTDMP UniProtKB/Swiss-Prot
PROSITE LAMP_1 UniProtKB/Swiss-Prot
  LAMP_2 UniProtKB/Swiss-Prot
  LAMP_3 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000000164 RatGTEx
UniProt A0A8I6A5X8_RAT UniProtKB/TrEMBL
  A0A8I6ACM0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AD73_RAT UniProtKB/TrEMBL
  A0A8I6ADS7_RAT UniProtKB/TrEMBL
  A0A8I6AHB3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AMZ0 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK1 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK2_RAT UniProtKB/TrEMBL
  A6JMK3 ENTREZGENE, UniProtKB/TrEMBL
  A6JMK4 ENTREZGENE, UniProtKB/TrEMBL
  F1LLX8 ENTREZGENE
  LAMP2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6P6W1 ENTREZGENE
UniProt Secondary F1LLX8 UniProtKB/Swiss-Prot
  Q6P6W1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-15 Lamp2  lysosomal-associated membrane protein 2  Lamp2  lysosomal membrane glycoprotein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Lamp2  Lysosomal-associated membrane protein 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 45-kilodalton core polypeptide with O-linked and 17 asparagine-linked oligosaccharide side chains 728934