TEX264

testis expressed 264, ER-phagy receptor

Basic information

Region (hg38): 3:51662693-51704323

Links

ENSG00000164081 ∙ NCBI:51368 ∙ ∙ HGNC:30247 ∙ Uniprot:Q9Y6I9 ∙ 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 TEX264 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TEX264 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			21			21
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	21	0	0

Variants in TEX264

This is a list of pathogenic ClinVar variants found in the TEX264 region.

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

Position	Type	Phenotype	Significance	ClinVar
3-51662824-C-T		not specified	Uncertain significance (Jun 10, 2022)
3-51662852-C-T		not specified	Likely benign (Dec 16, 2022)
3-51662857-G-A		not specified	Uncertain significance (Oct 06, 2021)
3-51662864-C-T		not specified	Uncertain significance (Dec 02, 2021)
3-51662908-C-G		not specified	Uncertain significance (Jun 04, 2024)
3-51662921-A-G		not specified	Uncertain significance (Dec 26, 2023)
3-51662990-CCTA-C			not provided (-)
3-51662993-A-G		not specified	Uncertain significance (May 23, 2023)
3-51663026-G-A		not specified	Uncertain significance (Jun 05, 2024)
3-51663073-G-A		not specified	Uncertain significance (Jun 19, 2024)
3-51663130-A-C		not specified	Uncertain significance (May 30, 2024)
3-51663187-C-A		not specified	Uncertain significance (Jul 14, 2021)
3-51663238-A-G		not specified	Uncertain significance (Jan 23, 2023)
3-51663245-C-T		not specified	Uncertain significance (Apr 22, 2022)
3-51663248-G-A		not specified	Uncertain significance (Apr 08, 2024)
3-51663289-G-A		not specified	Uncertain significance (Dec 13, 2021)
3-51663313-C-T		not specified	Uncertain significance (Feb 15, 2023)
3-51663371-A-G		not specified	Uncertain significance (Aug 02, 2021)
3-51674309-C-G		not specified	Uncertain significance (Aug 30, 2021)
3-51674333-T-C		not specified	Uncertain significance (Oct 22, 2021)
3-51674407-G-A		not specified	Uncertain significance (Mar 31, 2024)
3-51674425-C-T		not specified	Uncertain significance (Mar 07, 2023)
3-51674438-A-G		not specified	Uncertain significance (Oct 29, 2021)
3-51674465-T-C		not specified	Uncertain significance (Jan 26, 2022)
3-51674470-C-A		not specified	Uncertain significance (Dec 15, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TEX264	protein_coding	protein_coding	ENST00000415259	4	41631

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.164	0.823	125738	0	8	125746	0.0000318

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.507	170	190	0.896	0.0000114	1995
Missense in Polyphen		56	64.184	0.8725		747
Synonymous	-0.334	85	81.2	1.05	0.00000481	677
Loss of Function	2.14	3	10.5	0.287	5.30e-7	123

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000124	0.000123
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000441	0.0000439
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Pathway: Platelet degranulation ;Response to elevated platelet cytosolic Ca2+;Platelet activation, signaling and aggregation;Hemostasis (Consensus)

Intolerance Scores

• loftool: 0.117
• rvis_EVS: -0.05
• rvis_percentile_EVS: 50.01

Haploinsufficiency Scores

• pHI: 0.918
• hipred: Y
• hipred_score: 0.547
• ghis: 0.517

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0925

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Tex264

Gene ontology

• Biological process: platelet degranulation
• Cellular component: extracellular region;platelet alpha granule lumen
• Molecular function: protein binding