TMEM41B

transmembrane protein 41B

Basic information

Region (hg38): 11:9280654-9314636

Links

ENSG00000166471 ∙ NCBI:440026 ∙ OMIM:620271 ∙ HGNC:28948 ∙ Uniprot:Q5BJD5 ∙ 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 TMEM41B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TMEM41B 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			19	2		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	19	2	0

Variants in TMEM41B

This is a list of pathogenic ClinVar variants found in the TMEM41B region.

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

Position	Type	Phenotype	Significance	ClinVar
11-9283536-G-C		not specified	Uncertain significance (Mar 28, 2023)
11-9283582-G-A		not specified	Uncertain significance (Dec 01, 2022)
11-9283585-G-C		not specified	Uncertain significance (Jul 27, 2021)
11-9286549-C-A		not specified	Uncertain significance (Jan 16, 2024)
11-9286586-C-T		not specified	Uncertain significance (Mar 01, 2023)
11-9287719-C-T		not specified	Uncertain significance (Jul 14, 2023)
11-9295281-C-T		not specified	Uncertain significance (Dec 15, 2022)
11-9295283-A-G		not specified	Uncertain significance (Dec 07, 2023)
11-9295309-C-A		not specified	Uncertain significance (Apr 23, 2024)
11-9295319-G-A		not specified	Uncertain significance (Jan 23, 2024)
11-9295373-T-C		not specified	Uncertain significance (Apr 25, 2022)
11-9295381-T-G		not specified	Uncertain significance (Mar 25, 2024)
11-9299644-A-C		not specified	Uncertain significance (Dec 15, 2023)
11-9299655-T-C		not specified	Uncertain significance (Nov 09, 2021)
11-9299691-C-G		not specified	Likely benign (Dec 12, 2023)
11-9299695-G-A		not specified	Uncertain significance (May 31, 2023)
11-9314326-T-C		not specified	Uncertain significance (Apr 18, 2023)
11-9314339-T-C		not specified	Uncertain significance (Dec 08, 2021)
11-9314347-G-A		not specified	Uncertain significance (Sep 15, 2021)
11-9314362-G-C		not specified	Uncertain significance (May 11, 2022)
11-9314365-C-T		not specified	Likely benign (May 24, 2023)
11-9314397-G-C		not specified	Uncertain significance (May 13, 2024)
11-9314407-A-G		not specified	Uncertain significance (May 08, 2023)
11-9314428-C-G		not specified	Uncertain significance (Jun 29, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TMEM41B	protein_coding	protein_coding	ENST00000528080	7	34127

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.288	0.708	125716	0	7	125723	0.0000278

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.734	114	138	0.824	0.00000637	1859
Missense in Polyphen		21	41.882	0.50141		552
Synonymous	-0.955	58	49.5	1.17	0.00000229	580
Loss of Function	2.47	3	12.4	0.242	5.28e-7	180

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000616	0.0000615
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000465	0.0000440
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Required for normal motor neuron development (By similarity). Required for autophagosome formation (PubMed:30093494). {ECO:0000250|UniProtKB:A1A5V7, ECO:0000269|PubMed:30093494}.
• Pathway: miR-targeted genes in lymphocytes - TarBase;miR-targeted genes in muscle cell - TarBase (Consensus)

Recessive Scores

• pRec: 0.0906

Intolerance Scores

• loftool: 0.312
• rvis_EVS: 0.19
• rvis_percentile_EVS: 66.82

Haploinsufficiency Scores

• pHI: 0.305
• hipred: N
• hipred_score: 0.354
• ghis: 0.454

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• gene_indispensability_pred: N
• gene_indispensability_score: 0.303

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Tmem41b

Zebrafish Information Network

• Gene name: tmem41b
• Affected structure: motor neuron
• Phenotype tag: abnormal
• Phenotype quality: mislocalised

Gene ontology

• Biological process: autophagosome assembly;nervous system development
• Cellular component: endoplasmic reticulum membrane;integral component of membrane
• Molecular function: protein binding