MEX3B

mex-3 RNA binding family member B, the group of Ring finger proteins

Basic information

Region (hg38): 15:82041778-82046119

Previous symbols: [ "RKHD3" ]

Links

ENSG00000183496 ∙ NCBI:84206 ∙ OMIM:611008 ∙ HGNC:25297 ∙ Uniprot:Q6ZN04 ∙ 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 MEX3B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MEX3B 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			34			34
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	34	1	0

Variants in MEX3B

This is a list of pathogenic ClinVar variants found in the MEX3B region.

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

Position	Type	Phenotype	Significance	ClinVar
15-82043205-C-T			Likely benign (Sep 01, 2022)
15-82043386-G-A		not specified	Uncertain significance (Aug 08, 2023)
15-82043407-G-A		EBV-positive nodal T- and NK-cell lymphoma	Likely benign (-)
15-82043481-G-C		not specified	Uncertain significance (Oct 26, 2022)
15-82043515-C-G		not specified	Uncertain significance (Mar 20, 2023)
15-82043557-C-T		not specified	Uncertain significance (Sep 27, 2021)
15-82043585-G-T		not specified	Uncertain significance (Apr 12, 2022)
15-82043607-G-C		not specified	Uncertain significance (Feb 06, 2024)
15-82043612-A-G		not specified	Uncertain significance (Jul 19, 2022)
15-82043620-C-T		not specified	Uncertain significance (Apr 13, 2022)
15-82043645-C-T		not specified	Uncertain significance (Dec 16, 2021)
15-82043650-G-A		not specified	Uncertain significance (Jan 10, 2023)
15-82043668-G-A		not specified	Uncertain significance (Mar 04, 2024)
15-82043699-G-A		not specified	Uncertain significance (Sep 22, 2023)
15-82043705-C-A		not specified	Uncertain significance (Jun 10, 2024)
15-82043765-G-T		not specified	Uncertain significance (Feb 26, 2024)
15-82043803-C-T		not specified	Uncertain significance (Feb 15, 2023)
15-82043806-C-T		not specified	Uncertain significance (May 08, 2023)
15-82043815-G-C		not specified	Uncertain significance (Jul 19, 2022)
15-82043837-C-A		not specified	Uncertain significance (Apr 13, 2022)
15-82043878-C-A		not specified	Uncertain significance (Oct 12, 2021)
15-82043884-T-G		not specified	Uncertain significance (Jan 26, 2022)
15-82043887-G-C		not specified	Uncertain significance (Jun 22, 2023)
15-82043911-G-A		not specified	Uncertain significance (Jul 13, 2022)
15-82043976-G-C		not specified	Uncertain significance (Feb 22, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MEX3B	protein_coding	protein_coding	ENST00000329713	2	4364

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.555	0.442	125736	0	7	125743	0.0000278

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.06	298	354	0.842	0.0000204	3599
Missense in Polyphen		48	110.96	0.43258		1088
Synonymous	-4.06	229	163	1.40	0.0000105	1259
Loss of Function	2.51	2	11.0	0.182	4.70e-7	129

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000637	0.0000615
Ashkenazi Jewish	0.00	0.00
East Asian	0.000110	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.0000370	0.0000352
Middle Eastern	0.000110	0.000109
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: RNA-binding protein. May be involved in post- transcriptional regulatory mechanisms.

Recessive Scores

• pRec: 0.111

Intolerance Scores

• rvis_EVS: -0.76
• rvis_percentile_EVS: 13.45

Haploinsufficiency Scores

• pHI: 0.550
• hipred: N
• hipred_score: 0.459
• ghis: 0.529

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.920

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mex3b
• Phenotype: reproductive system phenotype; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); hematopoietic system phenotype; immune system phenotype; growth/size/body region phenotype; endocrine/exocrine gland phenotype; cellular phenotype

Gene ontology

• Biological process: protein phosphorylation;protein autophosphorylation
• Cellular component: P-body;nucleoplasm;cytosol
• Molecular function: RNA binding;calcium ion binding