RHBDL2

rhomboid like 2, the group of Rhomboid family

Basic information

Region (hg38): 1:38885807-38941830

Links

ENSG00000158315 ∙ NCBI:54933 ∙ OMIM:608962 ∙ HGNC:16083 ∙ Uniprot:Q9NX52 ∙ 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 RHBDL2 gene.

• not_specified (39 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RHBDL2 gene is commonly pathogenic or not. These statistics are base on transcript: NM_000017821.5. Only rare variants are included in the table.

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.

Effect	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			37	2		39
nonsense						0
start loss						0
frameshift						0
splice donor/acceptor (+/-2bp)						0
Total	0	0	37	2	0

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
RHBDL2	protein_coding	protein_coding	ENST00000289248	7	55993

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
8.94e-8	0.311	125483	0	262	125745	0.00104

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0707	159	162	0.984	0.00000783	1991
Missense in Polyphen		39	47.562	0.81999		585
Synonymous	1.41	45	58.8	0.766	0.00000304	577
Loss of Function	0.539	12	14.2	0.846	6.83e-7	183

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00175	0.00175
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.000743	0.000739
European (Non-Finnish)	0.00163	0.00162
Middle Eastern	0.000109	0.000109
South Asian	0.0000994	0.0000980
Other	0.000490	0.000489

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Involved in regulated intramembrane proteolysis and the subsequent release of functional polypeptides from their membrane anchors. Known substrate: EFNB3. {ECO:0000269|PubMed:11672525, ECO:0000269|PubMed:15047175}.
• Pathway: DroToll-like (Consensus)

Recessive Scores

• pRec: 0.0856

Intolerance Scores

• loftool: 0.812
• rvis_EVS: 0.59
• rvis_percentile_EVS: 82.51

Haploinsufficiency Scores

• pHI: 0.0744
• hipred: N
• hipred_score: 0.377
• ghis: 0.426

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.801

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Rhbdl2

Gene ontology

• Biological process: proteolysis
• Cellular component: plasma membrane;integral component of membrane
• Molecular function: serine-type endopeptidase activity