RUNDC3B

RUN domain containing 3B

Basic information

Region (hg38): 7:87627548-87832296

Links

ENSG00000105784 ∙ NCBI:154661 ∙ OMIM:617295 ∙ HGNC:30286 ∙ Uniprot:Q96NL0 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

• schizophrenia (No Known Disease Relationship), mode of inheritance: Unknown

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the RUNDC3B gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RUNDC3B 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			21			21
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			1			1
Total	0	0	22	0	0

Variants in RUNDC3B

This is a list of pathogenic ClinVar variants found in the RUNDC3B region.

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

Position	Type	Phenotype	Significance	ClinVar
7-87628861-G-C		not specified	Uncertain significance (Nov 09, 2022)
7-87628863-G-A		not specified	Uncertain significance (Aug 16, 2021)
7-87628866-G-A		not specified	Uncertain significance (Jun 29, 2022)
7-87650917-T-G		not specified	Uncertain significance (Feb 22, 2023)
7-87693957-A-T		not specified	Uncertain significance (Jan 30, 2024)
7-87700447-A-T		not specified	Uncertain significance (Jun 17, 2024)
7-87700453-C-T		not specified	Uncertain significance (Feb 06, 2023)
7-87700487-G-A		not specified	Uncertain significance (Aug 17, 2022)
7-87700511-G-A		not specified	Uncertain significance (Dec 16, 2022)
7-87710575-A-T		not specified	Uncertain significance (Jun 06, 2023)
7-87710652-C-A		not specified	Uncertain significance (Jul 06, 2021)
7-87713077-T-G		Tramadol response	drug response (Apr 28, 2018)
7-87713080-C-T		Tramadol response	drug response (Apr 28, 2018)
7-87713081-A-C		Tramadol response	drug response (Apr 28, 2018)
7-87713082-A-T		Tramadol response	drug response (Apr 28, 2018)
7-87713083-A-T		Tramadol response	drug response (Apr 28, 2018)
7-87713094-A-C		Tramadol response	drug response (Apr 28, 2018)
7-87713110-A-T		Tramadol response	drug response (Apr 28, 2018)
7-87713191-C-G		Tramadol response	drug response (Apr 28, 2018)
7-87713194-C-T		Tramadol response	drug response (Apr 28, 2018)
7-87713202-A-C		Tramadol response	drug response (Apr 28, 2018)
7-87713218-A-C		Tramadol response	drug response (Apr 28, 2018)
7-87713258-T-C		Tramadol response	drug response (Apr 28, 2018)
7-87713288-G-A		Tramadol response	drug response (Apr 28, 2018)
7-87713318-G-A		Tramadol response	drug response (Apr 28, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
RUNDC3B	protein_coding	protein_coding	ENST00000338056	12	204748

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000932	0.999	125721	0	25	125746	0.0000994

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.915	185	223	0.828	0.0000108	3082
Missense in Polyphen		43	64.327	0.66846		849
Synonymous	0.541	75	81.2	0.924	0.00000403	893
Loss of Function	3.03	10	27.0	0.371	0.00000140	332

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000148	0.000148
Ashkenazi Jewish	0.000101	0.0000992
East Asian	0.000218	0.000217
Finnish	0.000324	0.000323
European (Non-Finnish)	0.0000717	0.0000703
Middle Eastern	0.000218	0.000217
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.109

Intolerance Scores

• loftool: 0.883
• rvis_EVS: -0.52
• rvis_percentile_EVS: 21.2

Haploinsufficiency Scores

• pHI: 0.143
• hipred: N
• hipred_score: 0.414
• ghis: 0.630

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.307

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Rundc3b