RANBP6

RAN binding protein 6, the group of Armadillo like helical domain containing

Basic information

Region (hg38): 9:6011025-6015625

Links

ENSG00000137040 ∙ NCBI:26953 ∙ ∙ HGNC:9851 ∙ Uniprot:O60518 ∙ 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 RANBP6 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RANBP6 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			73			73
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	73	2	0

Variants in RANBP6

This is a list of pathogenic ClinVar variants found in the RANBP6 region.

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

Position	Type	Phenotype	Significance	ClinVar
9-6012433-T-C		not specified	Uncertain significance (Sep 22, 2022)
9-6012441-T-C		not specified	Uncertain significance (Jan 04, 2024)
9-6012483-T-C		not specified	Uncertain significance (Dec 27, 2022)
9-6012556-T-C		not specified	Uncertain significance (Jan 30, 2024)
9-6012654-C-T		not specified	Uncertain significance (Mar 06, 2025)
9-6012759-G-A		not specified	Uncertain significance (Apr 06, 2024)
9-6012762-C-T		not specified	Uncertain significance (Aug 17, 2022)
9-6012789-A-C		not specified	Uncertain significance (Apr 09, 2024)
9-6012831-T-C		not specified	Uncertain significance (Mar 21, 2023)
9-6012843-A-G		not specified	Uncertain significance (Apr 10, 2023)
9-6012844-T-C		not specified	Uncertain significance (Nov 09, 2024)
9-6012864-C-T		not specified	Uncertain significance (Aug 21, 2023)
9-6012881-T-G		not specified	Uncertain significance (Nov 26, 2024)
9-6012957-C-G		not specified	Uncertain significance (Jun 07, 2023)
9-6012966-C-A		not specified	Uncertain significance (Aug 22, 2023)
9-6013014-A-C		not specified	Uncertain significance (Mar 28, 2023)
9-6013102-G-C		not specified	Uncertain significance (Feb 07, 2023)
9-6013125-T-C		not specified	Uncertain significance (Jan 29, 2025)
9-6013174-G-C		not specified	Uncertain significance (Jun 30, 2024)
9-6013270-A-G		not specified	Uncertain significance (Aug 17, 2021)
9-6013357-C-T		not specified	Uncertain significance (Nov 25, 2024)
9-6013371-C-T		not specified	Uncertain significance (Dec 22, 2024)
9-6013375-G-A		not specified	Uncertain significance (Nov 26, 2024)
9-6013405-T-A		not specified	Uncertain significance (Sep 08, 2024)
9-6013488-T-C		not specified	Uncertain significance (Jun 07, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
RANBP6	protein_coding	protein_coding	ENST00000259569	1	4576

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000114	1.00	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.333	594	572	1.04	0.0000274	7295
Missense in Polyphen		131	152.87	0.85693		1969
Synonymous	-2.85	260	208	1.25	0.00000990	2136
Loss of Function	3.40	13	34.6	0.376	0.00000171	461

LoF frequencies by population

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

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May function in nuclear protein import as nuclear transport receptor.

Recessive Scores

• pRec: 0.102

Intolerance Scores

• loftool: 0.455
• rvis_EVS: -1
• rvis_percentile_EVS: 8.54

Haploinsufficiency Scores

• pHI: 0.919
• hipred: N
• hipred_score: 0.372
• ghis: 0.622

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.471

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ranbp6

Gene ontology

• Biological process: NLS-bearing protein import into nucleus;ribosomal protein import into nucleus
• Cellular component: cytoplasm;nuclear membrane;nuclear periphery
• Molecular function: protein binding;nuclear localization sequence binding;protein transporter activity