CDR2L

cerebellar degeneration related protein 2 like

Basic information

Region (hg38): 17:74987632-75005800

Links

ENSG00000109089 ∙ NCBI:30850 ∙ ∙ HGNC:29999 ∙ Uniprot:Q86X02 ∙ 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 CDR2L gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CDR2L 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			43			43
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	43	0	0

Variants in CDR2L

This is a list of pathogenic ClinVar variants found in the CDR2L region.

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

Position	Type	Phenotype	Significance	ClinVar
17-74988056-G-T		not specified	Uncertain significance (Nov 15, 2024)
17-74988095-T-C		not specified	Uncertain significance (Sep 01, 2021)
17-74988101-G-A		not specified	Uncertain significance (Dec 05, 2024)
17-74999564-G-T		not specified	Uncertain significance (Oct 14, 2023)
17-74999567-C-T		not specified	Uncertain significance (Aug 15, 2023)
17-75001369-G-A		not specified	Uncertain significance (Jul 09, 2021)
17-75001374-G-A		not specified	Uncertain significance (Dec 13, 2024)
17-75001389-G-T		not specified	Uncertain significance (Aug 05, 2024)
17-75001449-C-A		not specified	Uncertain significance (Aug 02, 2021)
17-75001486-A-T		not specified	Uncertain significance (Dec 03, 2024)
17-75002065-C-A		not specified	Uncertain significance (Dec 07, 2024)
17-75002084-G-A		not specified	Uncertain significance (Sep 02, 2024)
17-75002091-G-C		not specified	Uncertain significance (Feb 03, 2025)
17-75002158-C-T		not specified	Uncertain significance (Mar 04, 2024)
17-75002159-G-A		not specified	Uncertain significance (Feb 28, 2023)
17-75002173-C-T		not specified	Uncertain significance (Sep 02, 2024)
17-75002174-G-A		not specified	Uncertain significance (Jun 11, 2024)
17-75002179-C-T		not specified	Uncertain significance (Aug 28, 2023)
17-75002189-A-T		not specified	Uncertain significance (Sep 12, 2023)
17-75002227-C-G		not specified	Uncertain significance (Jan 08, 2025)
17-75002227-C-T		not specified	Uncertain significance (Mar 20, 2024)
17-75003200-G-A		not specified	Uncertain significance (Jan 20, 2025)
17-75003203-T-A		not specified	Uncertain significance (May 24, 2024)
17-75003217-C-G		not specified	Uncertain significance (Mar 11, 2022)
17-75003220-G-A		not specified	Uncertain significance (Oct 03, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CDR2L	protein_coding	protein_coding	ENST00000337231	5	18169

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00196	0.979	125140	0	11	125151	0.0000439

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.73	172	249	0.692	0.0000174	2905
Missense in Polyphen		70	96.742	0.72358		1195
Synonymous	1.92	87	113	0.770	0.00000816	916
Loss of Function	2.05	7	15.8	0.443	6.78e-7	208

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.000117	0.000109
Finnish	0.0000952	0.0000463
European (Non-Finnish)	0.0000685	0.0000620
Middle Eastern	0.000117	0.000109
South Asian	0.0000352	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.0896

Intolerance Scores

• loftool: 0.771
• rvis_EVS: -0.18
• rvis_percentile_EVS: 39.95

Haploinsufficiency Scores

• pHI: 0.125
• hipred: N
• hipred_score: 0.379
• ghis: 0.534

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0773

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Cdr2l

Gene ontology

• Molecular function: protein binding