Gene Gene information from NCBI Gene database.
Entrez ID 90678
Gene name Leucine rich repeat and sterile alpha motif containing 1
Gene symbol LRSAM1
Synonyms (NCBI Gene)
CMT2PRIFLETAL
Chromosome 9
Chromosome location 9q33.3-q34.11
Summary This gene encodes a ring finger protein involved in a variety of functions, including regulation of signaling pathways and cell adhesion, mediation of self-ubiquitylation, and involvement in cargo sorting during receptor endocytosis. Mutations in this gen
SNPs SNP information provided by dbSNP.
22
SNP ID Visualize variation Clinical significance Consequence
rs56380300 A>G Likely-benign, benign-likely-benign, conflicting-interpretations-of-pathogenicity, not-provided Missense variant, non coding transcript variant, coding sequence variant
rs117692127 G>A Conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, non coding transcript variant, 5 prime UTR variant, missense variant
rs138226428 C>T Pathogenic Coding sequence variant, non coding transcript variant, stop gained
rs148059394 G>A Conflicting-interpretations-of-pathogenicity Missense variant, non coding transcript variant, 5 prime UTR variant, coding sequence variant
rs151323851 G>A Conflicting-interpretations-of-pathogenicity Synonymous variant, non coding transcript variant, 5 prime UTR variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
123
miRTarBase ID miRNA Experiments Reference
MIRT718866 hsa-miR-4667-3p HITS-CLIP 19536157
MIRT718865 hsa-miR-5088-3p HITS-CLIP 19536157
MIRT718864 hsa-miR-660-3p HITS-CLIP 19536157
MIRT718863 hsa-miR-370-3p HITS-CLIP 19536157
MIRT718862 hsa-miR-6893-3p HITS-CLIP 19536157
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
22
GO ID Ontology Definition Evidence Reference
GO:0000209 Process Protein polyubiquitination IDA 18077552
GO:0004842 Function Ubiquitin-protein transferase activity IDA 15256501, 18077552
GO:0005515 Function Protein binding IPI 15256501, 16189514, 16713569, 18077552, 19549727, 19690564, 21044950, 23245322, 25260751, 25416956, 25484098, 27615052, 32296183, 32814053, 33961781
GO:0005737 Component Cytoplasm IDA 15256501, 18077552
GO:0005737 Component Cytoplasm IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
610933 25135 ENSG00000148356
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q6UWE0
Protein name E3 ubiquitin-protein ligase LRSAM1 (EC 2.3.2.27) (Leucine-rich repeat and sterile alpha motif-containing protein 1) (RING-type E3 ubiquitin transferase LRSAM1) (Tsg101-associated ligase) (hTAL)
Protein function E3 ubiquitin-protein ligase that mediates monoubiquitination of TSG101 at multiple sites, leading to inactivate the ability of TSG101 to sort endocytic (EGF receptors) and exocytic (HIV-1 viral proteins) cargos (PubMed:15256501). Bacterial recog
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF13855 LRR_8 81 139 Leucine rich repeat Repeat
PF13855 LRR_8 127 184 Leucine rich repeat Repeat
PF07647 SAM_2 572 630 SAM domain (Sterile alpha motif) Domain
PF13920 zf-C3HC4_3 671 716 Domain
Tissue specificity TISSUE SPECIFICITY: Highly expressed in adult spinal cord motoneurons as well as in fetal spinal cord and muscle tissue. {ECO:0000269|PubMed:22012984}.
Sequence
MPLFFRKRKPSEEARKRLEYQMCLAKEAGADDILDISKCELSEIPFGAFATCKVLQKKVL
IVHTNHLTSLLPKSCSLLSLATIKVLDLHDNQLTALPDDLGQLTALQVLNVERNQLMQLP
RSIGNL
TQLQTLNVKDNKLKELPDTVGELRSLRTLNISGNEIQRLPQMLAHVRTLEMLSL
DASA
MVYPPREVCGAGTAAILQFLCKESGLEYYPPSQYLLPILEQDGIENSRDSPDGPTD
RFSREELEWQNRFSDYEKRKEQKMLEKLEFERRLELGQREHTQLLQQSSSQKDEILQTVK
EEQSRLEQGLSEHQRHLNAERQRLQEQLKQTEQNISSRIQKLLQDNQRQKKSSEILKSLE
NERIRMEQLMSITQEETESLRRRDVASAMQQMLTESCKNRLIQMAYESQRQNLVQQACSS
MAEMDERFQQILSWQQMDQNKAISQILQESAMQKAAFEALQVKKDLMHRQIRSQIKLIET
ELLQLTQLELKRKSLDTESLQEMISEQRWALSSLLQQLLKEKQQREEELREILTELEAKS
ETRQENYWLIQYQRLLNQKPLSLKLQEEGMERQLVALLEELSAEHYLPIFAHHRLSLDLL
SQMSPGDLAKVGVSEAGLQHEILRRVQELL
DAARIQPELKPPMGEVVTPTAPQEPPESVR
PSAPPAELEVQASECVVCLEREAQMIFLNCGHVCCCQQCCQPLRTCPLCRQDIAQRLRIY
HSS
Sequence length 723
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  Reactome
    Antigen processing: Ubiquitination & Proteasome degradation
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
36
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
Charcot-Marie-Tooth disease Pathogenic; Likely pathogenic rs756880678, rs797044913, rs1564287793, rs1588143215, rs1315010600, rs1588143112, rs747130246, rs1835476174, rs1836372698, rs76153575, rs1171946884 RCV000192257
RCV001173632
RCV000789359
RCV000789358
RCV001173629
View all (6 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease axonal type 2P Pathogenic; Likely pathogenic rs775965001, rs1215220865, rs1156243243, rs752177472, rs1835470775, rs2132110332, rs746159728, rs2132063794, rs961918637, rs2132010730, rs1272943113, rs2132073231, rs2132128455, rs2539396830, rs2539442748
View all (49 more)
RCV001351203
RCV001390983
RCV001386892
RCV001390596
RCV002221182
View all (60 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease axonal type 2P-AR Likely pathogenic; Pathogenic rs2539464527, rs749012928 RCV006269677
RCV005240490
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Familial pancreatic carcinoma Likely pathogenic rs76153575 RCV005908894
★★★★☆
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
Acute myeloid leukemia Likely benign; Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Adrenocortical carcinoma, hereditary Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Likely benign; Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Charcot-Marie-Tooth disease type 2 Conflicting classifications of pathogenicity; Likely benign; Uncertain significance ClinVar
★★☆☆☆
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
Amyotrophic Lateral Sclerosis Amyotrophic lateral sclerosis Pubtator 27615052 Associate
★☆☆☆☆
Found in Text Mining only
Anemia, Sickle Cell Anemia BEFREE 22301904
★☆☆☆☆
Found in Text Mining only
Cerebrovascular accident Stroke BEFREE 28596039
★☆☆☆☆
Found in Text Mining only
Charcot-Marie-Tooth Disease Charcot-Marie-Tooth Disease BEFREE 20865121, 22781092, 23519028, 24894446, 27615052, 28335037, 29341362, 30826859
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth Disease Charcot-Marie-Tooth Disease CTD_human_DG 20865121
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth Disease Charcot-Marie-Tooth Disease CLINVAR_DG
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease type 2P Charcot-Marie-Tooth Disease Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Charcot-Marie-Tooth disease, axonal, Type 2G Charcot-Marie-Tooth Disease CTD_human_DG 22781092, 27686364
★☆☆☆☆
Found in Text Mining only
Charcot-Marie-Tooth disease, axonal, Type 2G Charcot-Marie-Tooth Disease BEFREE 27686364
★☆☆☆☆
Found in Text Mining only
CHARCOT-MARIE-TOOTH DISEASE, AXONAL, TYPE 2P Charcot-Marie-Tooth Disease UNIPROT_DG 20865121, 22012984, 27615052, 27686364
★★☆☆☆
Found in Text Mining + Unknown/Other Associations