NACAD

NAC alpha domain containing

Basic information

Region (hg38): 7:45080436-45088969

Links

ENSG00000136274 ∙ NCBI:23148 ∙ OMIM:619419 ∙ HGNC:22196 ∙ Uniprot:O15069 ∙ 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 NACAD gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the NACAD 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				11		11
missense			111	8		119
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	111	19	0

Variants in NACAD

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

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

Position	Type	Phenotype	Significance	ClinVar
7-45080513-A-G		not specified	Uncertain significance (Dec 19, 2022)
7-45080648-C-T		not specified	Uncertain significance (Jan 02, 2024)
7-45080698-C-T		not specified	Uncertain significance (Dec 20, 2023)
7-45080908-A-T		not specified	Uncertain significance (Jul 13, 2021)
7-45080926-G-A		not specified	Uncertain significance (Dec 28, 2023)
7-45081242-G-A		not specified	Uncertain significance (Nov 17, 2022)
7-45081635-G-T		not specified	Uncertain significance (Dec 07, 2021)
7-45081638-T-C		not specified	Uncertain significance (Feb 17, 2023)
7-45081660-C-T		not specified	Likely benign (Apr 25, 2022)
7-45081769-G-C		not specified	Uncertain significance (Apr 19, 2023)
7-45081772-C-T		not specified	Uncertain significance (Aug 10, 2023)
7-45081801-T-C		not specified	Uncertain significance (Jul 05, 2022)
7-45081858-C-G		not specified	Uncertain significance (Mar 23, 2023)
7-45081858-C-T		not specified	Uncertain significance (May 16, 2023)
7-45082125-T-A		not specified	Uncertain significance (Mar 22, 2023)
7-45082200-T-A		not specified	Uncertain significance (Apr 09, 2024)
7-45082209-G-A		not specified	Uncertain significance (Jan 05, 2022)
7-45082243-T-G		not specified	Uncertain significance (Jul 22, 2022)
7-45082261-T-C		not specified	Uncertain significance (Feb 06, 2023)
7-45082296-G-A		not specified	Uncertain significance (Feb 28, 2023)
7-45082330-C-G		not specified	Uncertain significance (Nov 28, 2023)
7-45082372-G-A		not specified	Uncertain significance (Sep 21, 2023)
7-45082408-A-T		not specified	Uncertain significance (Jun 16, 2023)
7-45082519-C-T		not specified	Uncertain significance (May 03, 2023)
7-45082524-G-A		not specified	Uncertain significance (Aug 26, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
NACAD	protein_coding	protein_coding	ENST00000490531	8	8477

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.164	0.836	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.37	551	732	0.753	0.0000409	9795
Missense in Polyphen		138	205.23	0.67241		2505
Synonymous	2.56	277	337	0.823	0.0000217	3566
Loss of Function	4.51	10	41.3	0.242	0.00000210	555

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 prevent inappropriate targeting of non-secretory polypeptides to the endoplasmic reticulum (ER). May bind to nascent polypeptide chains as they emerge from the ribosome and block their interaction with the signal recognition particle (SRP), which normally targets nascent secretory peptides to the ER. May also reduce the inherent affinity of ribosomes for protein translocation sites in the ER membrane (M sites) (By similarity). {ECO:0000250}.

Haploinsufficiency Scores

• pHI: 0.109
• 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: 0.0673

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Nacad
• Phenotype: growth/size/body region phenotype; skeleton phenotype; homeostasis/metabolism phenotype

Gene ontology

• Biological process: protein transport
• Cellular component: nucleus;nascent polypeptide-associated complex