LSM14B

LSM family member 14B, the group of LSm proteins

Basic information

Region (hg38): 20:62122461-62135374

Previous symbols: [ "C20orf40", "FAM61B" ]

Links

ENSG00000149657 ∙ NCBI:149986 ∙ ∙ HGNC:15887 ∙ Uniprot:Q9BX40 ∙ 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 LSM14B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the LSM14B 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			23	2		25
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	23	2	0

Variants in LSM14B

This is a list of pathogenic ClinVar variants found in the LSM14B region.

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

Position	Type	Phenotype	Significance	ClinVar
20-62122682-G-A		not specified	Uncertain significance (Dec 17, 2024)
20-62124743-C-T		not specified	Uncertain significance (Feb 19, 2025)
20-62124752-C-G		not specified	Uncertain significance (Feb 27, 2025)
20-62126310-C-G		not specified	Uncertain significance (Feb 26, 2025)
20-62126349-C-T		not specified	Uncertain significance (Aug 13, 2021)
20-62126353-A-G		not specified	Uncertain significance (Jul 14, 2021)
20-62126355-A-G		not specified	Uncertain significance (Oct 07, 2024)
20-62126374-C-T		not specified	Uncertain significance (Jan 23, 2023)
20-62126382-G-A		not specified	Likely benign (Feb 16, 2023)
20-62126392-C-T		not specified	Uncertain significance (Dec 17, 2023)
20-62126424-G-A		not specified	Uncertain significance (May 04, 2023)
20-62126431-T-C		not specified	Uncertain significance (Dec 17, 2024)
20-62129860-A-T		not specified	Uncertain significance (Jan 26, 2025)
20-62129865-A-G		not specified	Uncertain significance (May 25, 2022)
20-62129905-C-T		not specified	Likely benign (Jun 30, 2023)
20-62129931-C-T		not specified	Uncertain significance (Feb 03, 2022)
20-62129941-A-G		not specified	Uncertain significance (Mar 06, 2023)
20-62130242-C-G		not specified	Uncertain significance (Jul 08, 2021)
20-62130282-A-G		not specified	Uncertain significance (Jun 23, 2021)
20-62130569-G-A		not specified	Uncertain significance (Apr 01, 2024)
20-62130589-A-G		not specified	Uncertain significance (Mar 24, 2023)
20-62131362-A-G		not specified	Uncertain significance (May 26, 2023)
20-62131388-C-G		not specified	Uncertain significance (Mar 01, 2024)
20-62131424-G-A		not specified	Uncertain significance (Jun 29, 2023)
20-62133309-G-A		not specified	Uncertain significance (Apr 03, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
LSM14B	protein_coding	protein_coding	ENST00000279068	8	12918

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.995	0.00470	124617	0	2	124619	0.00000802

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.69	167	241	0.694	0.0000150	2492
Missense in Polyphen		63	111.14	0.56683		1128
Synonymous	-0.184	107	105	1.02	0.00000717	786
Loss of Function	3.97	1	20.3	0.0493	0.00000140	197

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000580	0.0000580
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: May play a role in control of mRNA translation. {ECO:0000250}.

Recessive Scores

• pRec: 0.111

Intolerance Scores

• loftool: 0.466
• rvis_EVS: -0.34
• rvis_percentile_EVS: 30.37

Haploinsufficiency Scores

• pHI: 0.140
• hipred: Y
• hipred_score: 0.728
• ghis: 0.613

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.704

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Lsm14b

Gene ontology

• Biological process: regulation of translation;multicellular organism development
• Molecular function: RNA binding