CYRIA

CYFIP related Rac1 interactor A

Basic information

Region (hg38): 2:16549459-16666331

Previous symbols: [ "FAM49A" ]

Links

ENSG00000197872 ∙ NCBI:81553 ∙ ∙ HGNC:25373 ∙ Uniprot:Q9H0Q0 ∙ 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 CYRIA gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CYRIA 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			12			12
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	12	0	0

Variants in CYRIA

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

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

Position	Type	Phenotype	Significance	ClinVar
2-16552952-C-T		not specified	Uncertain significance (Jun 26, 2024)
2-16555096-C-T		not specified	Uncertain significance (Jan 27, 2025)
2-16555121-C-T		not specified	Uncertain significance (May 08, 2024)
2-16559549-T-C		not specified	Uncertain significance (Aug 10, 2024)
2-16560999-A-G		not specified	Uncertain significance (Mar 06, 2025)
2-16561253-T-G		not specified	Uncertain significance (Aug 12, 2021)
2-16561473-G-A		not specified	Uncertain significance (Dec 03, 2021)
2-16562021-C-T		not specified	Uncertain significance (Nov 08, 2024)
2-16564045-G-A		not specified	Uncertain significance (Oct 01, 2024)
2-16564073-T-C		not specified	Uncertain significance (Oct 20, 2024)
2-16565685-G-T		not specified	Uncertain significance (Aug 20, 2023)
2-16565694-G-C		not specified	Uncertain significance (Jun 17, 2024)
2-16565698-C-T		not specified	Uncertain significance (Jan 21, 2025)
2-16588110-G-T		not specified	Uncertain significance (Mar 01, 2023)
2-16588115-C-T		not specified	Uncertain significance (Oct 05, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CYRIA	protein_coding	protein_coding	ENST00000381323	10	116873

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.206	0.794	125694	0	8	125702	0.0000318

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.87	70	178	0.394	0.00000906	2164
Missense in Polyphen		14	64.025	0.21866		776
Synonymous	2.57	38	64.2	0.592	0.00000365	578
Loss of Function	3.11	5	20.0	0.250	0.00000125	212

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000587	0.0000587
Ashkenazi Jewish	0.0000996	0.0000992
East Asian	0.0000545	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.0000267	0.0000264
Middle Eastern	0.0000545	0.0000544
South Asian	0.0000328	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.113

Intolerance Scores

• loftool: 0.436
• rvis_EVS: -0.14
• rvis_percentile_EVS: 42.88

Haploinsufficiency Scores

• pHI: 0.246
• hipred: Y
• hipred_score: 0.713
• ghis: 0.607

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	Low	Low	Low
Primary Immunodeficiency	Medium	Low	Medium
Cancer	Low	Low	Low

Mouse Genome Informatics

• Gene name: Fam49a

Zebrafish Information Network

• Gene name: fam49a
• Affected structure: thymus
• Phenotype tag: abnormal
• Phenotype quality: increased size