CD300LB

CD300 molecule like family member b, the group of V-set domain containing

Basic information

Region (hg38): 17:74519000-74531475

Links

ENSG00000178789 ∙ NCBI:124599 ∙ OMIM:610705 ∙ HGNC:30811 ∙ Uniprot:A8K4G0 ∙ 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 CD300LB gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CD300LB 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			11	2		13
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			2	1		3
Total	0	0	13	4	0

Variants in CD300LB

This is a list of pathogenic ClinVar variants found in the CD300LB region.

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

Position	Type	Phenotype	Significance	ClinVar
17-74522757-G-A		not specified	Uncertain significance (Jan 02, 2025)
17-74522805-T-A		not specified	Uncertain significance (Nov 22, 2023)
17-74522815-T-C		not specified	Uncertain significance (Mar 10, 2025)
17-74522834-G-T			Likely benign (Aug 01, 2022)
17-74523586-G-A		not specified	Likely benign (Jan 30, 2024)
17-74523592-C-T		not specified	Likely benign (May 09, 2023)
17-74523612-C-T		not specified	Uncertain significance (Mar 29, 2022)
17-74523616-T-C		not specified	Uncertain significance (Feb 25, 2025)
17-74525757-C-T		not specified	Likely benign (Feb 08, 2025)
17-74525781-G-A		not specified	Uncertain significance (Jan 27, 2025)
17-74525831-C-T		not specified	Likely benign (Dec 23, 2024)
17-74525918-G-A		not specified	Uncertain significance (Nov 10, 2024)
17-74525934-T-G		not specified	Uncertain significance (Jan 09, 2025)
17-74525957-C-T		not specified	Uncertain significance (Jun 16, 2023)
17-74525958-G-A		not specified	Uncertain significance (Jul 09, 2021)
17-74525978-T-C		not specified	Uncertain significance (Aug 12, 2024)
17-74525994-A-G		not specified	Uncertain significance (Jan 09, 2025)
17-74526030-C-A		not specified	Uncertain significance (Nov 22, 2022)
17-74526036-C-T		not specified	Uncertain significance (Feb 23, 2025)
17-74526041-G-A		not specified	Uncertain significance (Dec 15, 2023)
17-74526042-C-A		not specified	Uncertain significance (Dec 15, 2023)
17-74526044-C-G		not specified	Uncertain significance (Jan 26, 2022)
17-74531364-C-A		not specified	Uncertain significance (Apr 13, 2022)
17-74531377-G-A		not specified	Likely benign (May 27, 2022)
17-74531409-C-A		not specified	Uncertain significance (Aug 17, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CD300LB	protein_coding	protein_coding	ENST00000392621	4	10301

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
7.09e-8	0.153	125665	0	82	125747	0.000326

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.594	115	134	0.856	0.00000750	1556
Missense in Polyphen		24	24.831	0.96653		342
Synonymous	-0.411	54	50.3	1.07	0.00000288	458
Loss of Function	0.0151	11	11.1	0.995	6.48e-7	109

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000569	0.000564
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.000878	0.000878
European (Non-Finnish)	0.000387	0.000387
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000980	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Acts as an activating immune receptor through its interaction with ITAM-bearing adapter TYROBP, and also independently by recruitment of GRB2. {ECO:0000269|PubMed:16920917, ECO:0000269|PubMed:17928527}.
• Pathway: DAP12 interactions;Innate Immune System;Immune System;Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell;Adaptive Immune System (Consensus)

Intolerance Scores

• loftool: 0.634
• rvis_EVS: 0.13
• rvis_percentile_EVS: 63

Haploinsufficiency Scores

• pHI: 0.0403
• hipred: N
• hipred_score: 0.112
• ghis: 0.481

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.103

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Cd300lb
• Phenotype: homeostasis/metabolism phenotype; renal/urinary system phenotype

Gene ontology

• Biological process: innate immune response;regulation of immune response
• Cellular component: plasma membrane;integral component of membrane