ARL14EP

ADP ribosylation factor like GTPase 14 effector protein

Basic information

Region (hg38): 11:30323104-30338458

Previous symbols: [ "C11orf46" ]

Links

ENSG00000152219 ∙ NCBI:120534 ∙ OMIM:612295 ∙ HGNC:26798 ∙ Uniprot:Q8N8R7 ∙ 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 ARL14EP gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ARL14EP 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		1	6		1	8
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region					1	1
non coding						0
Total	0	1	6	2	1

Variants in ARL14EP

This is a list of pathogenic ClinVar variants found in the ARL14EP region.

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

Position	Type	Phenotype	Significance	ClinVar
11-30331010-A-T		not specified	Uncertain significance (Jan 02, 2024)
11-30331015-A-G		not specified	Uncertain significance (Jun 10, 2024)
11-30331064-T-C		not specified	Uncertain significance (Dec 19, 2023)
11-30331081-A-G			Uncertain significance (Jun 01, 2019)
11-30331224-A-G			Likely benign (Dec 31, 2019)
11-30332860-C-A			Benign (Dec 31, 2019)
11-30332900-T-G		not specified	Uncertain significance (Dec 06, 2021)
11-30332977-A-C			Benign (Dec 31, 2019)
11-30336596-A-G		not specified	Uncertain significance (Mar 07, 2024)
11-30336621-T-C			Likely benign (Oct 23, 2018)
11-30336637-T-C		not specified	Uncertain significance (Jul 31, 2024)
11-30336665-G-A		Microcephaly;Global developmental delay;Truncal obesity;Abnormal facial shape	Likely pathogenic (-)
11-30336727-C-T		not specified	Uncertain significance (Jul 11, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ARL14EP	protein_coding	protein_coding	ENST00000282032	3	15177

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.379	0.612	125728	0	9	125737	0.0000358

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.630	117	138	0.849	0.00000694	1712
Missense in Polyphen		39	58.027	0.6721		774
Synonymous	-0.0983	47	46.2	1.02	0.00000214	476
Loss of Function	2.18	2	9.09	0.220	3.79e-7	139

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000868	0.0000868
Ashkenazi Jewish	0.000199	0.000198
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000353	0.0000352
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Through its interaction with ARL14 and MYO1E, may connect MHC class II-containing cytoplasmic vesicles to the actin network and hence controls the movement of these vesicles along the actin cytoskeleton in dendritic cells. {ECO:0000269|PubMed:21458045}.

Intolerance Scores

• rvis_EVS: -0.07
• rvis_percentile_EVS: 48.12

Haploinsufficiency Scores

• pHI: 0.158
• hipred: N
• hipred_score: 0.398
• ghis: 0.632

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Arl14ep

Gene ontology

• Cellular component: nucleus;nucleolus;cytosol;plasma membrane;focal adhesion;intracellular membrane-bounded organelle
• Molecular function: protein binding