CLASRP

CLK4 associating serine/arginine rich protein

Basic information

Region (hg38): 19:45039044-45070956

Previous symbols: [ "SFRS16" ]

Links

ENSG00000104859 ∙ NCBI:11129 ∙ OMIM:618532 ∙ HGNC:17731 ∙ Uniprot:Q8N2M8 ∙ 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 CLASRP gene.

• Inborn genetic diseases (42 variants)
• not provided (4 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CLASRP 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			42			42
nonsense						0
start loss						0
frameshift						0
inframe indel				1		1
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	42	3	0

Variants in CLASRP

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

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

Position	Type	Phenotype	Significance	ClinVar
19-45052861-C-A		not specified	Uncertain significance (Aug 17, 2022)
19-45052870-A-T		not specified	Uncertain significance (Jan 19, 2024)
19-45052872-C-G			Likely benign (Oct 01, 2022)
19-45052874-C-G		not specified	Uncertain significance (Jan 29, 2024)
19-45052876-C-T		not specified	Uncertain significance (Jun 18, 2021)
19-45053120-G-A		not specified	Uncertain significance (Jun 24, 2022)
19-45053123-C-T		not specified	Uncertain significance (Dec 28, 2023)
19-45053162-A-C		not specified	Uncertain significance (Feb 06, 2024)
19-45053174-G-A		not specified	Uncertain significance (Jan 16, 2024)
19-45056459-A-G		not specified	Uncertain significance (Jan 16, 2024)
19-45057754-G-A		not specified	Uncertain significance (Jun 24, 2022)
19-45057849-G-A			Likely benign (Feb 01, 2023)
19-45059270-G-A		not specified	Uncertain significance (Apr 07, 2022)
19-45060402-G-A		not specified	Uncertain significance (Sep 30, 2021)
19-45060428-G-T		not specified	Uncertain significance (Nov 18, 2022)
19-45060597-G-A		not specified	Uncertain significance (Dec 21, 2023)
19-45062151-T-C			Likely benign (Oct 01, 2023)
19-45062162-G-A		not specified	Uncertain significance (Oct 10, 2023)
19-45062165-G-A		not specified	Uncertain significance (Jan 17, 2024)
19-45064025-T-G		not specified	Uncertain significance (Sep 07, 2022)
19-45064046-C-T		not specified	Uncertain significance (Dec 03, 2021)
19-45064086-C-T		not specified	Uncertain significance (Nov 03, 2023)
19-45064173-C-A		not specified	Uncertain significance (Mar 02, 2023)
19-45064226-C-T		not specified	Uncertain significance (Jul 06, 2021)
19-45064420-C-T		not specified	Uncertain significance (Jul 20, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CLASRP	protein_coding	protein_coding	ENST00000221455	20	31917

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.431	0.569	125734	0	14	125748	0.0000557

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.63	332	497	0.668	0.0000383	4284
Missense in Polyphen		41	116.94	0.35062		1013
Synonymous	-0.406	189	182	1.04	0.0000129	1338
Loss of Function	4.83	10	44.9	0.223	0.00000270	469

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000120	0.000120
Ashkenazi Jewish	0.00	0.00
East Asian	0.0000544	0.0000544
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000725	0.0000703
Middle Eastern	0.0000544	0.0000544
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Probably functions as an alternative splicing regulator. May regulate the mRNA splicing of genes such as CLK1. May act by regulating members of the CLK kinase family (By similarity). {ECO:0000250}.
• Pathway: mRNA Processing (Consensus)

Recessive Scores

• pRec: 0.147

Intolerance Scores

• rvis_EVS: -0.76
• rvis_percentile_EVS: 13.33

Haploinsufficiency Scores

• pHI: 0.188
• hipred: Y
• hipred_score: 0.563
• ghis: 0.519

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• 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: Clasrp

Gene ontology

• Biological process: mRNA processing;RNA splicing
• Cellular component: nucleus;nucleoplasm
• Molecular function: protein binding