TIGD5

tigger transposable element derived 5, the group of Helix-turn-helix CENPB type domain containing|DNA transposon derived genes

Basic information

Region (hg38): 8:143597831-143603224

Links

ENSG00000179886 ∙ NCBI:84948 ∙ ∙ HGNC:18336 ∙ Uniprot:Q53EQ6 ∙ 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 TIGD5 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TIGD5 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				1		1
missense			37	1		38
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	37	2	0

Variants in TIGD5

This is a list of pathogenic ClinVar variants found in the TIGD5 region.

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

Position	Type	Phenotype	Significance	ClinVar
8-143597932-C-A		not specified	Uncertain significance (Dec 21, 2023)
8-143597946-G-A		not specified	Uncertain significance (Jan 23, 2024)
8-143597998-C-T		not specified	Uncertain significance (Jan 26, 2023)
8-143598012-C-T		not specified	Uncertain significance (Dec 01, 2022)
8-143598040-T-C		not specified	Uncertain significance (Jul 19, 2023)
8-143598306-C-G		not specified	Uncertain significance (Jan 25, 2023)
8-143598310-G-T		not specified	Uncertain significance (Feb 16, 2023)
8-143598374-G-C		not specified	Uncertain significance (Feb 12, 2024)
8-143598513-A-G		not specified	Uncertain significance (Aug 04, 2021)
8-143598517-A-G		not specified	Uncertain significance (Mar 02, 2023)
8-143598562-C-G		not specified	Uncertain significance (Nov 08, 2022)
8-143598565-C-T		not specified	Uncertain significance (Apr 13, 2022)
8-143598586-A-C		not specified	Uncertain significance (Dec 27, 2023)
8-143598624-G-A		not specified	Uncertain significance (Apr 24, 2024)
8-143598627-A-G		not specified	Uncertain significance (Aug 10, 2021)
8-143598639-T-A		not specified	Uncertain significance (Aug 04, 2023)
8-143598685-C-A		not specified	Uncertain significance (Feb 22, 2023)
8-143598775-C-G		not specified	Uncertain significance (Jan 09, 2024)
8-143598820-A-G		not specified	Uncertain significance (Jun 28, 2023)
8-143598948-C-G		not specified	Uncertain significance (Oct 27, 2023)
8-143598980-C-A		not specified	Uncertain significance (Dec 01, 2022)
8-143599196-C-T			Likely benign (Oct 01, 2022)
8-143599212-G-T		not specified	Uncertain significance (May 08, 2023)
8-143599222-G-T		not specified	Uncertain significance (Feb 21, 2024)
8-143599227-A-G		not specified	Likely benign (Apr 21, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TIGD5	protein_coding	protein_coding	ENST00000504548	1	2412

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00117	0.960	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.73	229	315	0.726	0.0000176	3948
Missense in Polyphen		69	121.78	0.56661		1441
Synonymous	-0.0708	152	151	1.01	0.00000878	1442
Loss of Function	1.82	7	14.5	0.483	7.21e-7	160

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

Recessive Scores

• pRec: 0.0998

Haploinsufficiency Scores

• pHI: 0.125
• hipred: N
• hipred_score: 0.299
• ghis: 0.468

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.366

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Tigd5

Gene ontology

• Biological process: actin cortical patch assembly;endocytosis;biological_process;actin filament-based movement;positive regulation of actin nucleation;actin cortical patch localization
• Cellular component: cellular_component;nucleus;actin filament;actin cortical patch
• Molecular function: molecular_function;DNA binding;actin filament binding