PLET1

placenta expressed transcript 1

Basic information

Region (hg38): 11:112248153-112260860

Previous symbols: [ "C11orf34" ]

Links

ENSG00000188771 ∙ NCBI:349633 ∙ OMIM:611904 ∙ HGNC:30053 ∙ Uniprot:Q6UQ28 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the PLET1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the PLET1 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			8	2		10
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	8	2	0

Variants in PLET1

This is a list of pathogenic ClinVar variants found in the PLET1 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
11-112248888-C-T		not specified	Likely benign (Apr 17, 2024)
11-112248912-T-C		not specified	Uncertain significance (Aug 20, 2024)
11-112248915-T-C		not specified	Likely benign (Sep 22, 2023)
11-112252374-A-G		not specified	Uncertain significance (Mar 01, 2024)
11-112252377-A-G		not specified	Likely benign (May 15, 2024)
11-112255415-G-C		not specified	Uncertain significance (Jan 19, 2024)
11-112255433-T-C		not specified	Uncertain significance (Oct 20, 2024)
11-112255517-C-T		not specified	Uncertain significance (Feb 06, 2024)
11-112255525-G-C		not specified	Uncertain significance (Sep 30, 2024)
11-112255566-C-T		not specified	Likely benign (Oct 05, 2023)
11-112260411-T-C		not specified	Uncertain significance (Dec 30, 2023)
11-112260420-T-C		not specified	Uncertain significance (May 29, 2024)
11-112260435-T-C		not specified	Uncertain significance (Jun 17, 2024)
11-112260479-A-C		not specified	Uncertain significance (Jan 11, 2023)
11-112260543-A-G		not specified	Uncertain significance (Feb 07, 2023)
11-112260564-A-G		not specified	Uncertain significance (Dec 03, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
PLET1	protein_coding	protein_coding	ENST00000338832	4	12708

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000688	0.294	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.836	85	110	0.775	0.00000550	1359
Missense in Polyphen		16	18.244	0.87702		238
Synonymous	0.870	37	44.4	0.834	0.00000266	390
Loss of Function	0.0999	8	8.31	0.963	4.50e-7	90

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Modulates leading keratinocyte migration and cellular adhesion to matrix proteins during a wound-healing response and promotes wound repair. May play a role during trichilemmal differentiation of the hair follicle (By similarity). {ECO:0000250}.
• Pathway: Post-translational modification: synthesis of GPI-anchored proteins;Post-translational protein modification;Metabolism of proteins (Consensus)

Haploinsufficiency Scores

• pHI: 0.0347
• ghis: 0.394

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Plet1

Gene ontology

• Biological process: negative regulation of cell-matrix adhesion;cell differentiation;positive regulation of cell migration;wound healing, spreading of epidermal cells
• Cellular component: extracellular region;plasma membrane;external side of plasma membrane;apical plasma membrane;anchored component of membrane