NRSN2

neurensin 2

Basic information

Region (hg38): 20:346782-359660

Previous symbols: [ "C20orf98" ]

Links

ENSG00000125841 ∙ NCBI:80023 ∙ OMIM:610666 ∙ HGNC:16229 ∙ Uniprot:Q9GZP1 ∙ 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 NRSN2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the NRSN2 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					3	3
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	4

Variants in NRSN2

This is a list of pathogenic ClinVar variants found in the NRSN2 region.

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

Position	Type	Phenotype	Significance	ClinVar
20-349663-G-A		not specified	Uncertain significance (Dec 06, 2022)
20-349673-C-T			Benign (Feb 20, 2018)
20-349683-G-C		not specified	Uncertain significance (Jun 05, 2024)
20-349692-G-A		not specified	Uncertain significance (Apr 19, 2023)
20-349719-C-T		not specified	Uncertain significance (Dec 11, 2024)
20-349720-G-A		not specified	Uncertain significance (Jan 31, 2023)
20-349728-C-A		not specified	Uncertain significance (Mar 19, 2024)
20-349769-C-G		not specified	Uncertain significance (Jan 16, 2025)
20-349803-C-T		not specified	Uncertain significance (Mar 30, 2024)
20-349807-G-A		not specified	Likely benign (Feb 28, 2025)
20-349829-G-T		not specified	Uncertain significance (Feb 09, 2023)
20-353212-C-T			Benign (Mar 29, 2018)
20-353227-G-A			Benign (Nov 21, 2017)
20-353244-T-A		not specified	Uncertain significance (May 08, 2024)
20-353300-G-A		not specified	Uncertain significance (Dec 12, 2023)
20-353309-G-A		not specified	Uncertain significance (May 17, 2023)
20-353330-C-T		not specified	Uncertain significance (Feb 12, 2024)
20-353331-G-A		not specified	Uncertain significance (Dec 28, 2022)
20-353334-C-A		not specified	Uncertain significance (Aug 14, 2023)
20-353383-G-A			Benign (Mar 29, 2018)
20-353393-G-A		not specified	Uncertain significance (Oct 19, 2024)
20-353396-G-C		not specified	Uncertain significance (Sep 17, 2021)
20-353414-A-G		not specified	Likely benign (Feb 13, 2024)
20-353433-T-C		not specified	Uncertain significance (Dec 14, 2023)
20-353439-G-A		not specified	Uncertain significance (Feb 08, 2025)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
NRSN2	protein_coding	protein_coding	ENST00000382291	2	12879

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00424	0.678	125734	0	12	125746	0.0000477

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.373	121	133	0.909	0.00000833	1302
Missense in Polyphen		21	31.065	0.67601		351
Synonymous	0.473	54	58.6	0.921	0.00000385	438
Loss of Function	0.632	4	5.62	0.712	2.39e-7	65

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000870	0.0000870
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.0000531	0.0000527
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000327	0.0000327
Other	0.000164	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May play a role in maintenance and/or transport of vesicles.

Recessive Scores

• pRec: 0.0964

Intolerance Scores

• loftool: 0.742
• rvis_EVS: 0.17
• rvis_percentile_EVS: 65.76

Haploinsufficiency Scores

• pHI: 0.159
• hipred: N
• hipred_score: 0.215
• ghis: 0.520

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.108

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Nrsn2

Gene ontology

• Biological process: nervous system development;biological_process
• Cellular component: plasma membrane;integral component of membrane;transport vesicle;cytoplasmic vesicle;neuron projection;neuronal cell body
• Molecular function: molecular_function