Mouse Gene Lamp2 (ENSMUST00000016678.14) from GENCODE VM35 (2024)

Mouse Gene Lamp2 (ENSMUST00000016678.14) from GENCODE VM35

Description: Mus musculus lysosomal-associated membrane protein 2 (Lamp2), transcript variant 4, non-coding RNA. (from RefSeq NR_152733)
Gencode Transcript: ENSMUST00000016678.14
Gencode Gene: ENSMUSG00000016534.16
Transcript (Including UTRs)
Position:mm39 chrX:37,493,939-37,545,331Size:51,393Total Exon Count:9Strand:-
Coding Region
Position:mm39 chrX:37,494,309-37,545,180Size:50,872Coding Exon Count:9

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	RNA Structure
Protein Structure	Other Species	GO Annotations	mRNA Descriptions	Pathways	Other Names
Methods

Data last updated at UCSC:2024-03-28 13:46:00

Sequence and Links to Tools and Databases

Genomic Sequence (chrX:37,493,939-37,545,331)			mRNA (may differ from genome)		Protein (415 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	MGI
PubMed	Reactome	SOURCE	UniProtKB

Comments and Description Text from UniProtKB


	ID: LAMP2_MOUSE DESCRIPTION: RecName: Full=Lysosome-associated membrane glycoprotein 2; Short=LAMP-2; Short=Lysosome-associated membrane protein 2; AltName: Full=CD107 antigen-like family member B; AltName: Full=Lysosomal membrane glycoprotein type B; Short=LGP-B; AltName: CD_antigen=CD107b; Flags: Precursor; FUNCTION: Implicated in tumor cell metastasis. May function in protection of the lysosomal membrane from autodigestion, maintenance of the acidic environment of the lysosome, adhesion when expressed on the cell surface (plasma membrane), and inter- and intracellular signal transduction. Protects cells from the toxic effects of methylating mutagens. SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein. Endosome membrane; Single-pass type I membrane protein. Lysosome membrane; Single-pass type I membrane protein. Note=This protein shuttles between lysosomes, endosomes, and the plasma membrane. PTM: O- and N-glycosylated; some of the N-linked glycans are polylactosaminoglycans (By similarity). SIMILARITY: Belongs to the LAMP family.

Primer design for this transcript


	Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA. Click here to load the transcript sequence and exon structure into Primer3Plus Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence. Click here to open Exonprimer with this transcript To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C044387N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine C006780bisphenol A C0493251,2-dithiol-3-thione C0319031-UFT protocol C1111182',3,3',4',5-pentachloro-4-hydroxybiphenyl C0095054,4'-diaminodiphenylmethane D0151237,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D000082Acetaminophen D016604Aflatoxin B1 D000643Ammonium Chloride more ... click here to view the complete list

mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-65.10	151	-0.431	Picture	PostScript	Text
3' UTR	-78.10	370	-0.211	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR018134 - LAMP_CS
IPR002000 - Lysosome-assoc_membr_glycop

Pfam Domains:
PF01299 - Lysosome-associated membrane glycoprotein (Lamp)

ModBase Predicted Comparative 3D Structure on P17047


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Human	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
Genome Browser	Genome Browser	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details
Gene Sorter
GenBank	RGD
Protein Sequence	Protein Sequence
Alignment	Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005515 protein binding GO:0019899 enzyme binding GO:0019904 protein domain specific binding Biological Process: GO:0006605 protein targeting GO:0006914 autophagy GO:0009267 cellular response to starvation GO:0031647 regulation of protein stability GO:0032463 negative regulation of protein homooligomerization GO:0046716 muscle cell cellular homeostasis GO:0050821 protein stabilization GO:0061684 chaperone-mediated autophagy GO:0061740 protein targeting to lysosome involved in chaperone-mediated autophagy GO:0097352 autophagosome maturation GO:1905146 lysosomal protein catabolic process Cellular Component:* GO:0000421 autophagosome membrane GO:0005615 extracellular space GO:0005764 lysosome GO:0005765 lysosomal membrane GO:0005768 endosome GO:0005770 late endosome GO:0005802 trans-Golgi network GO:0005886 plasma membrane GO:0010008 endosome membrane GO:0016020 membrane GO:0016021 integral component of membrane GO:0030670 phagocytic vesicle membrane GO:0031088 platelet dense granule membrane GO:0031410 cytoplasmic vesicle GO:0031902 late endosome membrane GO:0044754 autolysosome GO:0048471 perinuclear region of cytoplasm GO:0061742 chaperone-mediated autophagy translocation complex GO:0070062 extracellular exosome GO:0097637 integral component of autophagosome membrane GO:1990836 lysosomal matrix GO:0045121 membrane raft

Molecular Function:
GO:0005515 protein binding
GO:0019899 enzyme binding
GO:0019904 protein domain specific binding

Biological Process:
GO:0006605 protein targeting
GO:0006914 autophagy
GO:0009267 cellular response to starvation
GO:0031647 regulation of protein stability
GO:0032463 negative regulation of protein hom*ooligomerization
GO:0046716 muscle cell cellular homeostasis
GO:0050821 protein stabilization
GO:0061684 chaperone-mediated autophagy
GO:0061740 protein targeting to lysosome involved in chaperone-mediated autophagy
GO:0097352 autophagosome maturation
GO:1905146 lysosomal protein catabolic process

Cellular Component:
GO:0000421 autophagosome membrane
GO:0005615 extracellular space
GO:0005764 lysosome
GO:0005765 lysosomal membrane
GO:0005768 endosome
GO:0005770 late endosome
GO:0005802 trans-Golgi network
GO:0005886 plasma membrane
GO:0010008 endosome membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030670 phagocytic vesicle membrane
GO:0031088 platelet dense granule membrane
GO:0031410 cytoplasmic vesicle
GO:0031902 late endosome membrane
GO:0044754 autolysosome
GO:0048471 perinuclear region of cytoplasm
GO:0061742 chaperone-mediated autophagy translocation complex
GO:0070062 extracellular exosome
GO:0097637 integral component of autophagosome membrane
GO:1990836 lysosomal matrix
GO:0045121 membrane raft

Descriptions from all associated GenBank mRNAs


	LF201956 - JP 2014500723-A/9459: Polycomb-Associated Non-Coding RNAs. MA437533 - JP 2018138019-A/9459: Polycomb-Associated Non-Coding RNAs. AK078193 - Mus musculus adult male olfactory brain cDNA, RIKEN full-length enriched library, clone:6430411L14 product:lysosomal membrane glycoprotein 2, full insert sequence. AK146731 - Mus musculus 17 days pregnant adult female amnion cDNA, RIKEN full-length enriched library, clone:I920047M01 product:lysosomal membrane glycoprotein 2, full insert sequence. M32017 - Mouse lysosomal membrane glycoprotein type B (lgp-B) mRNA, 3' end. J05287 - Mouse lysosomal membrane glycoprotein (LAMP-2) mRNA, complete cds. AK159272 - Mus musculus osteoclast-like cell cDNA, RIKEN full-length enriched library, clone:I420013J24 product:lysosomal membrane glycoprotein 2, full insert sequence. AK159731 - Mus musculus osteoclast-like cell cDNA, RIKEN full-length enriched library, clone:I420029E15 product:lysosomal membrane glycoprotein 2, full insert sequence. LF311637 - JP 2014500723-A/119140: Polycomb-Associated Non-Coding RNAs. MA547214 - JP 2018138019-A/119140: Polycomb-Associated Non-Coding RNAs. AK189254 - Mus musculus cDNA, clone:Y0G0148H08, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000016678, based on BLAT search. AK136550 - Mus musculus adult male cecum cDNA, RIKEN full-length enriched library, clone:9130209H21 product:lysosomal membrane glycoprotein 2, full insert sequence. AK128946 - Mus musculus cDNA fis, clone TRACH3007268, highly similar to Lysosome-associated membrane glycoprotein 2 precursor. AK048174 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130038M24 product:lysosomal membrane glycoprotein 2, full insert sequence. AK150766 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830015D13 product:lysosomal membrane glycoprotein 2, full insert sequence. AK088804 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430026F14 product:lysosomal membrane glycoprotein 2, full insert sequence. AK163933 - Mus musculus 0 day neonate cerebellum cDNA, RIKEN full-length enriched library, clone:C230070N08 product:lysosomal membrane glycoprotein 2, full insert sequence. AK032974 - Mus musculus 12 days embryo male wolffian duct includes surrounding region cDNA, RIKEN full-length enriched library, clone:6720483E16 product:lysosomal membrane glycoprotein 2, full insert sequence. BC138718 - Mus musculus lysosomal-associated membrane protein 2, mRNA (cDNA clone MGC:170345 IMAGE:8861740), complete cds. BC138723 - Mus musculus lysosomal-associated membrane protein 2, mRNA (cDNA clone MGC:170350 IMAGE:8861745), complete cds. AK012149 - Mus musculus 10 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2610524K02 product:lysosomal membrane glycoprotein 2, full insert sequence. LF311657 - JP 2014500723-A/119160: Polycomb-Associated Non-Coding RNAs. MA547234 - JP 2018138019-A/119160: Polycomb-Associated Non-Coding RNAs. LF311658 - JP 2014500723-A/119161: Polycomb-Associated Non-Coding RNAs. MA547235 - JP 2018138019-A/119161: Polycomb-Associated Non-Coding RNAs. AK051989 - Mus musculus 12 days embryo eyeball cDNA, RIKEN full-length enriched library, clone:D230032G18 product:lysosomal membrane glycoprotein 2, full insert sequence. LF311668 - JP 2014500723-A/119171: Polycomb-Associated Non-Coding RNAs. MA547245 - JP 2018138019-A/119171: Polycomb-Associated Non-Coding RNAs. LF311669 - JP 2014500723-A/119172: Polycomb-Associated Non-Coding RNAs. MA547246 - JP 2018138019-A/119172: Polycomb-Associated Non-Coding RNAs. AK184164 - Mus musculus cDNA, clone:Y0G0128O16, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000061755, based on BLAT search. AK217258 - Mus musculus cDNA, clone:Y2G0141D09, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000061755, based on BLAT search. LF311670 - JP 2014500723-A/119173: Polycomb-Associated Non-Coding RNAs. MA547247 - JP 2018138019-A/119173: Polycomb-Associated Non-Coding RNAs. AK199280 - Mus musculus cDNA, clone:Y1G0130L10, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000061755, based on BLAT search. LF311672 - JP 2014500723-A/119175: Polycomb-Associated Non-Coding RNAs. MA547249 - JP 2018138019-A/119175: Polycomb-Associated Non-Coding RNAs. LF311674 - JP 2014500723-A/119177: Polycomb-Associated Non-Coding RNAs. MA547251 - JP 2018138019-A/119177: Polycomb-Associated Non-Coding RNAs. AK139871 - Mus musculus 2 cells egg cDNA, RIKEN full-length enriched library, clone:B020031F08 product:unclassifiable, full insert sequence. LF201957 - JP 2014500723-A/9460: Polycomb-Associated Non-Coding RNAs. MA437534 - JP 2018138019-A/9460: Polycomb-Associated Non-Coding RNAs.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein P17047 (Reactome details) participates in the following event(s): R-MMU-481010 Surface deployment of platelet dense granule membrane components R-MMU-6798739 Exocytosis of azurophil granule membrane proteins R-MMU-6800426 Exocytosis of ficolin-rich granule membrane proteins R-MMU-114608 Platelet degranulation R-MMU-6798695 Neutrophil degranulation R-MMU-76005 Response to elevated platelet cytosolic Ca2+ R-MMU-168249 Innate Immune System R-MMU-76002 Platelet activation, signaling and aggregation R-MMU-168256 Immune System R-MMU-109582 Hemostasis

Reactome (by CSHL, EBI, and GO)

Protein P17047 (Reactome details) participates in the following event(s):

R-MMU-481010 Surface deployment of platelet dense granule membrane components
R-MMU-6798739 Exocytosis of azurophil granule membrane proteins
R-MMU-6800426 Exocytosis of ficolin-rich granule membrane proteins
R-MMU-114608 Platelet degranulation
R-MMU-6798695 Neutrophil degranulation
R-MMU-76005 Response to elevated platelet cytosolic Ca2+
R-MMU-168249 Innate Immune System
R-MMU-76002 Platelet activation, signaling and aggregation
R-MMU-168256 Immune System
R-MMU-109582 Hemostasis

Other Names for This Gene


	Alternate Gene Symbols: A2A430, ENSMUST00000016678.1, ENSMUST00000016678.10, ENSMUST00000016678.11, ENSMUST00000016678.12, ENSMUST00000016678.13, ENSMUST00000016678.2, ENSMUST00000016678.3, ENSMUST00000016678.4, ENSMUST00000016678.5, ENSMUST00000016678.6, ENSMUST00000016678.7, ENSMUST00000016678.8, ENSMUST00000016678.9, Lamp-2, LAMP2_MOUSE, NR_152733, P17047, Q3TXG5, Q8BSG8, uc009szw.1, uc009szw.2, uc009szw.3, uc009szw.4 UCSC ID: ENSMUST00000016678.14 RefSeq Accession: NM_001017959 Protein: P17047 (aka LAMP2_MOUSE or LMP2_MOUSE)

Methods, Credits, and Use Restrictions


	Click here for details on how this gene model was made and data restrictions if any.

Mouse Gene Lamp2 (ENSMUST00000016678.14) from GENCODE VM35 (2024)

References