Gene Gene information from NCBI Gene database.
Entrez ID 5663
Gene name Presenilin 1
Gene symbol PSEN1
Synonyms (NCBI Gene)
ACNINV3AD3CMD1UFADPS-1PS1PSNL1S182
Chromosome 14
Chromosome location 14q24.2
Summary Alzheimer`s disease (AD) patients with an inherited form of the disease carry mutations in the presenilin proteins (PSEN1; PSEN2) or in the amyloid precursor protein (APP). These disease-linked mutations result in increased production of the longer form o
SNPs SNP information provided by dbSNP.
68
SNP ID Visualize variation Clinical significance Consequence
rs661 G>A,T Pathogenic, not-provided Coding sequence variant, missense variant
rs63749824 C>G,T Pathogenic Coding sequence variant, missense variant
rs63749836 G>A Likely-pathogenic Coding sequence variant, missense variant
rs63749885 C>T Not-provided, pathogenic Coding sequence variant, missense variant
rs63749891 G>C,T Not-provided, pathogenic Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
383
miRTarBase ID miRNA Experiments Reference
MIRT005025 hsa-miR-562 Luciferase reporter assay 19789318
MIRT020666 hsa-miR-155-5p Proteomics 18668040
MIRT025010 hsa-miR-183-5p Sequencing 20371350
MIRT572988 hsa-miR-5000-5p PAR-CLIP 20371350
MIRT572987 hsa-miR-935 PAR-CLIP 20371350
Transcription factors Transcription factors information provided by TRRUST V2 database.
3
Transcription factor Regulation Reference
CREB1 Activation 11116137
ELK1 Activation 12750007
SP1 Unknown 10446206
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
218
GO ID Ontology Definition Evidence Reference
GO:0000045 Process Autophagosome assembly IEA
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IEA
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IMP 10508860
GO:0000139 Component Golgi membrane IEA
GO:0000776 Component Kinetochore IDA 9298903
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
104311 9508 ENSG00000080815
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P49768
Protein name Presenilin-1 (PS-1) (EC 3.4.23.-) (Protein S182) [Cleaved into: Presenilin-1 NTF subunit; Presenilin-1 CTF subunit; Presenilin-1 CTF12 (PS1-CTF12)]
Protein function Catalytic subunit of the gamma-secretase complex, an endoprotease complex that catalyzes the intramembrane cleavage of integral membrane proteins such as Notch receptors and APP (amyloid-beta precursor protein) (PubMed:10206644, PubMed:10545183,
PDB 2KR6 , 4UIS , 5A63 , 5FN2 , 5FN3 , 5FN4 , 5FN5 , 6IDF , 6IYC , 6LQG , 6LR4 , 7C9I , 7D8X , 7Y5T , 8IM7 , 8K8E , 8KCO , 8KCP , 8KCS , 8KCT , 8KCU , 8OQY , 8OQZ , 8X52 , 8X53 , 8X54
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01080 Presenilin 76 457 Presenilin Family
Tissue specificity TISSUE SPECIFICITY: Detected in azurophile granules in neutrophils and in platelet cytoplasmic granules (at protein level) (PubMed:11987239). Expressed in a wide range of tissues including various regions of the brain, liver, spleen and lymph nodes (PubMe
Sequence
Sequence length 467
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Wnt signaling pathway
Notch signaling pathway
Neurotrophin signaling pathway
Alzheimer disease
Pathways of neurodegeneration - multiple diseases
Human papillomavirus infection
  Nuclear signaling by ERBB4
Regulated proteolysis of p75NTR
NRIF signals cell death from the nucleus
Constitutive Signaling by NOTCH1 PEST Domain Mutants
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
EPH-ephrin mediated repulsion of cells
Neutrophil degranulation
NOTCH3 Activation and Transmission of Signal to the Nucleus
Noncanonical activation of NOTCH3
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
62
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
Abnormality of the nervous system Pathogenic rs63749891 RCV001814004
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Acne inversa, familial, 3 Likely pathogenic; Pathogenic rs63750450, rs63750730, rs63750550, rs63749805, rs63750353, rs63751278, rs63750004, rs63750391, rs63751210, rs63750963, rs63749806, rs63750311, rs63750053, rs63749836, rs63751420
View all (44 more)
RCV000640610
RCV002514493
RCV002514494
RCV005222747
RCV001854472
View all (60 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alzheimer disease Likely pathogenic; Pathogenic rs1566638673, rs63750009, rs63750219, rs1566656702, rs1566657804 RCV000736263
RCV000736262
RCV000736261
RCV000736267
RCV000736264
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alzheimer disease 3 Pathogenic; Likely pathogenic rs2140037322, rs63751475, rs63750450, rs63750730, rs63750550, rs63749805, rs63750353, rs63751278, rs63751106, rs63750004, rs63750391, rs63751210, rs63750963, rs63749806, rs63750311
View all (66 more)
RCV001647233
RCV002271335
RCV000640610
RCV002514493
RCV002514494
View all (87 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
ALZHEIMER DISEASE, FAMILIAL, TYPE 3 Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ALZHEIMERS DISEASE Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AMYLOID NEUROPATHIES CTD, Disgenet
CTD, Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AMYLOIDOSIS 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
Abulia Abulia HPO_DG
★☆☆☆☆
Found in Text Mining only
ACNE INVERSA, FAMILIAL, 3 Acne Inversa CLINVAR_DG 10447269, 10468510, 11524469, 11684347, 11710891, 12493631, 15205973, 15776278, 16628450, 16897084, 17197420, 17288597, 17545141, 17553989, 18580586
View all (44 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
ACNE INVERSA, FAMILIAL, 3 Acne Inversa GENOMICS_ENGLAND_DG 20929727, 22503161, 23028126
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Acute Confusional Senile Dementia Senile Dementia CTD_human_DG 15622541, 16449385, 16651627, 17192785, 17573346, 17962197, 18227305, 22507317, 25352456, 25714973, 27117003, 28448946, 7596406
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 7531687
★☆☆☆☆
Found in Text Mining only
Adult Learning Disorders Learning Disorders CTD_human_DG 25213453
★☆☆☆☆
Found in Text Mining only
Adult Neuronal Ceroid Lipofuscinosis Neuronal Ceroid Lipofuscinosis BEFREE 21212640, 24121961
★☆☆☆☆
Found in Text Mining only
Age-Related Memory Disorders Age-Related Memory Disorders CTD_human_DG 25213453, 28448946
★☆☆☆☆
Found in Text Mining only
Alexia Alexia HPO_DG
★☆☆☆☆
Found in Text Mining only
Alzheimer Disease Alzheimer disease Pubtator 10101252, 10205007, 10329743, 10349860, 10366599, 10393925, 10404513, 10409650, 10441572, 10551805, 10582585, 10582597, 10595683, 10620705, 10644793
View all (400 more)
Associate
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)