Gene Gene information from NCBI Gene database.
Entrez ID 3920
Gene name Lysosomal associated membrane protein 2
Gene symbol LAMP2
Synonyms (NCBI Gene)
CD107bDNDLAMP-2LAMPBLGP-96LGP110
Chromosome X
Chromosome location Xq24
Summary The protein encoded by this gene is a member of a family of membrane glycoproteins. This glycoprotein provides selectins with carbohydrate ligands. It may play a role in tumor cell metastasis. It may also function in the protection, maintenance, and adhes
SNPs SNP information provided by dbSNP.
70
SNP ID Visualize variation Clinical significance Consequence
rs104894857 G>A Pathogenic Coding sequence variant, stop gained
rs104894858 C>T Pathogenic Coding sequence variant, missense variant
rs104894859 A>G Pathogenic Coding sequence variant, missense variant
rs137852527 A>T Pathogenic Coding sequence variant, stop gained
rs138991195 T>A,C Likely-benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
563
miRTarBase ID miRNA Experiments Reference
MIRT022427 hsa-miR-124-3p Microarray 18668037
MIRT027054 hsa-miR-103a-3p Sequencing 20371350
MIRT030821 hsa-miR-21-5p Microarray 18591254
MIRT031571 hsa-miR-16-5p Sequencing 20371350
MIRT636470 hsa-miR-1276 HITS-CLIP 23824327
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
74
GO ID Ontology Definition Evidence Reference
GO:0000421 Component Autophagosome membrane IBA
GO:0000421 Component Autophagosome membrane IEA
GO:0005515 Function Protein binding IPI 20797626, 21194361, 26212789, 28514442, 32814053, 36481789, 37390818, 39225180
GO:0005615 Component Extracellular space IDA 25645918
GO:0005764 Component Lysosome IDA 12536145, 15229288, 19535332, 28743268
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
309060 6501 ENSG00000005893
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P13473
Protein name Lysosome-associated membrane glycoprotein 2 (LAMP-2) (Lysosome-associated membrane protein 2) (CD107 antigen-like family member B) (LGP-96) (CD antigen CD107b)
Protein function Lysosomal membrane glycoprotein which plays an important role in lysosome biogenesis, lysosomal pH regulation and autophagy (PubMed:11082038, PubMed:18644871, PubMed:24880125, PubMed:27628032, PubMed:36586411, PubMed:37390818, PubMed:8662539). A
PDB 2MOF , 2MOM
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01299 Lamp 218 358 Lysosome-associated membrane glycoprotein (Lamp) Family
Tissue specificity TISSUE SPECIFICITY: Isoform LAMP-2A is highly expressed in placenta, lung and liver, less in kidney and pancreas, low in brain and skeletal muscle (PubMed:26856698, PubMed:7488019). Isoform LAMP-2B is detected in spleen, thymus, prostate, testis, small in
Sequence
MVCFRLFPVPGSGLVLVCLVLGAVRSYALELNLTDSENATCLYAKWQMNFTVRYETTNKT
YKTVTISDHGTVTYNGSICGDDQNGPKIAVQFGPGFSWIANFTKAASTYSIDSVSFSYNT
GDNTTFPDAEDKGILTVDELLAIRIPLNDLFRCNSLSTLEKNDVVQHYWDVLVQAFVQNG
TVSTNEFLCDKDKTSTVAPTIHTTVPSPTTTPTPKEKPEAGTYSVNNGNDTCLLATMGLQ
LNITQDKVASVININPNTTHSTGSCRSHTALLRLNSSTIKYLDFVFAVKNENRFYLKEVN
ISMYLVNGSVFSIANNNLSYWDAPLGSSYMCNKEQTVSVSGAFQINTFDLRVQPFNVT
QG
KYSTAQDCSADDDNFLVPIAVGAALAGVLILVLLAYFIGLKHHHAGYEQF
Sequence length 410
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Virion - Hepatitis viruses
Virion - Lassa virus and SFTS virus
Autophagy - animal
Lysosome
Phagosome
Tuberculosis
  Platelet degranulation
Neutrophil degranulation
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
21
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Cardiomyopathy Pathogenic; Likely pathogenic rs2147287657, rs2147287662, rs730880492 RCV001799285
RCV001799288
RCV000157984
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Cardiovascular phenotype Pathogenic; Likely pathogenic rs2147287637, rs727503118, rs727504648, rs727503120, rs2520906991, rs730880498, rs2520913315, rs2520864428, rs1251075016, rs104894858, rs1057517940, rs1556101523, rs1556123906, rs397516751 RCV005665265
RCV006342113
RCV005348069
RCV003343655
RCV002349002
View all (9 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Danon disease Pathogenic; Likely pathogenic rs2147287624, rs2058605108, rs2147279469, rs2147281364, rs2147278850, rs2147282434, rs2147294924, rs2147281356, rs2147294800, rs2147278858, rs2147287645, rs1436664364, rs1385890053, rs1556092459, rs2147287565
View all (73 more)
RCV001871756
RCV001330714
RCV001726529
RCV001377124
RCV001388566
View all (89 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Hypertrophic cardiomyopathy Pathogenic; Likely pathogenic rs727503118, rs727503120, rs730880344, rs104894858, rs397516736, rs397516738, rs397516739, rs397516751, rs397516752 RCV000844639
RCV000844641
RCV000154670
RCV000844638
RCV000037407
View all (5 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
CARDIOMYOPATHIES Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CARDIOMYOPATHY, DILATED Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CARDIOMYOPATHY, HYPERTROPHIC, FAMILIAL Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
GLYCOGEN STORAGE DISEASE TYPE IIB CTD, Disgenet
CTD, Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acoustic Neuroma Acoustic Neuroma BEFREE 31771882
★☆☆☆☆
Found in Text Mining only
Acute monocytic leukemia Monocytic Leukemia BEFREE 30806567
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of large intestine Colorectal Cancer BEFREE 29562499
★☆☆☆☆
Found in Text Mining only
Adrenoleukodystrophy Adrenoleukodystrophy BEFREE 31090940
★☆☆☆☆
Found in Text Mining only
Age related macular degeneration Age-related macular degeneration BEFREE 31699817
★☆☆☆☆
Found in Text Mining only
Alzheimer Disease Alzheimer disease Pubtator 28945989, 39838438 Inhibit
★☆☆☆☆
Found in Text Mining only
Alzheimer Disease Alzheimer disease Pubtator 37418137 Associate
★☆☆☆☆
Found in Text Mining only
Arthritis Infectious Infective arthritis Pubtator 35371338 Associate
★☆☆☆☆
Found in Text Mining only
Benign Prostatic Hyperplasia Benign Prostatic Hyperplasia BEFREE 30882175
★☆☆☆☆
Found in Text Mining only
Breast Carcinoma Breast Carcinoma BEFREE 21953249
★☆☆☆☆
Found in Text Mining only