RNF144B

ring finger protein 144B, the group of Ring finger proteins|RBR E3 ubiquitin ligases

Basic information

Region (hg38): 6:18387350-18468870

Previous symbols: [ "IBRDC2" ]

Links

ENSG00000137393

∙ NCBI:255488 ∙ OMIM:618869 ∙ HGNC:21578 ∙ Uniprot:Q7Z419 ∙ 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 RNF144B gene.

not_specified (39 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RNF144B gene is commonly pathogenic or not. These statistics are base on transcript: NM_000182757.4. 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	PathogenicP	Likely pathogenicLP	VUSVUS	Likely benignLB	BenignB	Sum
synonymous						0
missense			37 clinvar	2 clinvar		39
nonsense						0
start loss						0
frameshift						0
splice donor/acceptor (+/-2bp)						0
Total	0	0	37	2	0

Loading clinvar variants...

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
RNF144B	protein_coding	protein_coding	ENST00000259939	7	100327

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
6.35e-10	0.241	125713	0	35	125748	0.000139

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.531	151	171	0.886	0.00000877	1975
Missense in Polyphen		43	52.611	0.81731		622
Synonymous	-0.270	67	64.2	1.04	0.00000340	585
Loss of Function	0.692	16	19.3	0.830	0.00000116	196

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000326	0.000326
Ashkenazi Jewish	0.00	0.00
East Asian	0.000272	0.000272
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.000150	0.000149
Middle Eastern	0.000272	0.000272
South Asian	0.0000653	0.0000653
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

Function: FUNCTION: E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates such as LCMT2, thereby promoting their degradation. Induces apoptosis via a p53/TP53-dependent but caspase-independent mechanism. However, its overexpression also produces a decrease of the ubiquitin-dependent stability of BAX, a pro-apoptotic protein, ultimately leading to protection of cell death; But, it is not an anti-apoptotic protein per se. {ECO:0000269|PubMed:12853982, ECO:0000269|PubMed:20300062}.;
Pathway: Gastric Cancer Network 2;Immune System;Adaptive Immune System;Antigen processing: Ubiquitination & Proteasome degradation;Class I MHC mediated antigen processing & presentation;Direct p53 effectors (Consensus)

Recessive Scores

pRec: 0.117

Intolerance Scores

loftool: 0.644
rvis_EVS: 0.06
rvis_percentile_EVS: 58.53

Haploinsufficiency Scores

pHI: 0.242
hipred: Y
hipred_score: 0.540
ghis: 0.469

Essentials

essential_gene_CRISPR: N
essential_gene_CRISPR2: N
essential_gene_gene_trap: N
gene_indispensability_pred: E
gene_indispensability_score: 0.879

Gene Damage Prediction

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

Mouse Genome Informatics

Gene name: Rnf144b
Phenotype: cardiovascular system phenotype (the observable morphological and physiological characteristics of the mammalian heart, blood vessels, or circulatory system that are manifested through development and lifespan); behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); hearing/vestibular/ear phenotype; vision/eye phenotype; homeostasis/metabolism phenotype;

Gene ontology

Biological process: protein polyubiquitination;ubiquitin-dependent protein catabolic process;apoptotic process;positive regulation of proteasomal ubiquitin-dependent protein catabolic process;negative regulation of apoptotic process
Cellular component: ubiquitin ligase complex;cytoplasm;cytosol;integral component of membrane;mitochondrial membrane
Molecular function: ubiquitin-protein transferase activity;protein binding;ubiquitin conjugating enzyme binding;metal ion binding;ubiquitin protein ligase activity