RNF157

ring finger protein 157, the group of Ring finger proteins

Basic information

Region (hg38): 17:76142464-76240493

Links

ENSG00000141576 ∙ NCBI:114804 ∙ ∙ HGNC:29402 ∙ Uniprot:Q96PX1 ∙ 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 RNF157 gene.

• Inborn genetic diseases (21 variants)
• not provided (4 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RNF157 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					2	2
missense			20	1	1	22
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region					1	1
non coding						0
Total	0	0	20	1	3

Variants in RNF157

This is a list of pathogenic ClinVar variants found in the RNF157 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-76145269-G-A		not specified	Uncertain significance (Apr 04, 2023)
17-76145275-G-C		not specified	Uncertain significance (Jul 20, 2022)
17-76145329-G-A		not specified	Likely benign (Feb 15, 2023)
17-76152363-C-T		not specified	Uncertain significance (Jul 06, 2021)
17-76152455-C-A			Benign (Jul 06, 2018)
17-76154291-G-A		not specified	Uncertain significance (Feb 22, 2024)
17-76154320-A-T		not specified	Uncertain significance (May 31, 2023)
17-76155269-C-T		not specified	Uncertain significance (Jun 29, 2023)
17-76155315-C-A			Benign (Mar 30, 2018)
17-76155579-G-A		not specified	Uncertain significance (Mar 11, 2024)
17-76155655-C-T		not specified	Uncertain significance (Jan 10, 2023)
17-76155693-C-T		not specified	Uncertain significance (Oct 20, 2021)
17-76156258-A-G		not specified	Uncertain significance (Aug 02, 2022)
17-76158415-G-A			Benign (Jul 06, 2018)
17-76158454-T-G		not specified	Uncertain significance (May 11, 2022)
17-76159533-A-C		not specified	Uncertain significance (Nov 03, 2023)
17-76159540-C-T		not specified	Uncertain significance (Apr 08, 2022)
17-76161595-C-A		not specified	Uncertain significance (Mar 06, 2023)
17-76161884-G-A		not specified	Uncertain significance (Aug 13, 2021)
17-76161930-T-C		not specified	Uncertain significance (Jan 23, 2024)
17-76161990-C-T		not specified	Uncertain significance (Dec 19, 2023)
17-76162560-C-T		not specified	Uncertain significance (Mar 02, 2023)
17-76164776-C-G		not specified	Uncertain significance (May 11, 2022)
17-76165508-A-C		not specified	Uncertain significance (Sep 13, 2023)
17-76166510-G-T		not specified	Uncertain significance (Jul 30, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
RNF157	protein_coding	protein_coding	ENST00000269391	19	97921

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
6.30e-9	0.999	125693	0	55	125748	0.000219

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.809	340	385	0.884	0.0000219	4393
Missense in Polyphen		48	78.675	0.6101		931
Synonymous	0.0336	162	163	0.997	0.0000105	1326
Loss of Function	2.85	20	39.3	0.509	0.00000210	446

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000326	0.000326
Ashkenazi Jewish	0.000199	0.000198
East Asian	0.000109	0.000109
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.000282	0.000281
Middle Eastern	0.000109	0.000109
South Asian	0.000297	0.000294
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: E3 ubiquitin ligase that ubiquitinates APBB1 for its degradation by the proteasome and thus prevents apoptosis and promotes survival of neurons (PubMed:25342469). Has a dual role in neurons as it is also required for dendrite growth and maintenance for which its ligase activity is not critical (PubMed:25342469). May act as a scaffold molecule to regulate this process (PubMed:25342469). Acts as a downstream effector of the interconnected PI3K and MAPK signaling pathways and thus participates in the regulation of the cell cycle (PubMed:28655764). {ECO:0000269|PubMed:25342469, ECO:0000269|PubMed:28655764}.

Recessive Scores

• pRec: 0.0962

Intolerance Scores

• loftool: 0.747
• rvis_EVS: 0.29
• rvis_percentile_EVS: 71.62

Haploinsufficiency Scores

• pHI: 0.111
• hipred: N
• hipred_score: 0.414
• ghis: 0.538

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.634

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Rnf157
• Phenotype: immune system phenotype; hematopoietic system phenotype

Gene ontology

• Cellular component: cytoplasm
• Molecular function: transferase activity;metal ion binding