NREP

neuronal regeneration related protein

Basic information

Region (hg38): 5:111662621-111997464

Previous symbols: [ "C5orf13" ]

Links

ENSG00000134986 ∙ NCBI:9315 ∙ OMIM:607332 ∙ HGNC:16834 ∙ Uniprot:Q16612 ∙ 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 NREP gene.

Variants pathogenicity by type

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

Variants in NREP

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

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

Position	Type	Phenotype	Significance	ClinVar
5-111730929-A-G		not specified	Uncertain significance (Feb 04, 2022)
5-111730989-C-G		not specified	Uncertain significance (Sep 27, 2022)
5-111730992-C-T		not specified	Uncertain significance (Dec 03, 2021)
5-111731004-C-T		not specified	Uncertain significance (Aug 15, 2023)
5-111731015-C-T		not specified	Uncertain significance (Dec 07, 2021)
5-111735441-T-C		not specified	Uncertain significance (Nov 28, 2023)
5-111735465-A-G		not specified	Uncertain significance (Jan 10, 2023)
5-111735491-A-G		not specified	Uncertain significance (Jun 24, 2022)
5-111975314-T-A		not specified	Uncertain significance (Nov 27, 2023)
5-111975340-C-G		not specified	Uncertain significance (Dec 28, 2023)
5-111975346-C-A		not specified	Uncertain significance (Nov 06, 2023)
5-111975374-C-T		not specified	Likely benign (Aug 12, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
NREP	protein_coding	protein_coding	ENST00000395634	4	334844

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00560	0.735	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.105	57	59.3	0.962	0.00000314	733
Missense in Polyphen		16	15.57	1.0276		201
Synonymous	0.0364	20	20.2	0.990	0.00000106	205
Loss of Function	0.802	4	6.15	0.651	3.40e-7	69

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 have roles in neural function. Ectopic expression augments motility of gliomas. Promotes also axonal regeneration (By similarity). May also have functions in cellular differentiation (By similarity). Induces differentiation of fibroblast into myofibroblast and myofibroblast ameboid migration. Increases retinoic-acid regulation of lipid-droplet biogenesis (By similarity). Down-regulates the expression of TGFB1 and TGFB2 but not of TGFB3 (By similarity). May play a role in the regulation of alveolar generation. {ECO:0000250, ECO:0000269|PubMed:11358844, ECO:0000269|PubMed:16229809}.
• Pathway: MECP2 and Associated Rett Syndrome (Consensus)

Intolerance Scores

• rvis_EVS: 0.72
• rvis_percentile_EVS: 85.92

Haploinsufficiency Scores

• pHI: 0.353
• hipred: N
• hipred_score: 0.146

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Nrep
• Phenotype: behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

• Biological process: regulation of transforming growth factor beta receptor signaling pathway;axon regeneration;regulation of neuron differentiation
• Cellular component: nucleus;cytoplasm
• Molecular function: protein binding