KRTAP10-10

keratin associated protein 10-10, the group of Keratin associated proteins

Basic information

Region (hg38): 21:44637355-44638455

Links

ENSG00000221859 ∙ NCBI:353333 ∙ ∙ HGNC:22972 ∙ Uniprot:P60014 ∙ 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 KRTAP10-10 gene.

• Inborn genetic diseases (14 variants)
• not provided (3 variants)
• not specified (1 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KRTAP10-10 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					1	1
missense			13	2	2	17
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	13	2	3

Variants in KRTAP10-10

This is a list of pathogenic ClinVar variants found in the KRTAP10-10 region.

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

Position	Type	Phenotype	Significance	ClinVar
21-44637440-T-C		not specified	Uncertain significance (Jun 29, 2023)
21-44637484-C-T		not specified	Uncertain significance (Feb 28, 2023)
21-44637508-T-G		not specified	Uncertain significance (Jan 31, 2023)
21-44637579-G-T		not specified	Uncertain significance (Oct 20, 2021)
21-44637637-T-C		not specified	Uncertain significance (Oct 25, 2022)
21-44637665-A-C			Benign (Jun 29, 2016)
21-44637717-T-C		not specified	Benign (Mar 29, 2016)
21-44637719-T-A			Benign (Jun 29, 2016)
21-44637937-T-C		not specified	Uncertain significance (Feb 17, 2022)
21-44637956-C-T		not specified	Uncertain significance (Jun 07, 2023)
21-44637985-G-A		not specified	Uncertain significance (Apr 22, 2022)
21-44638022-G-A		not specified	Uncertain significance (Feb 11, 2022)
21-44638045-G-A		not specified	Uncertain significance (Sep 27, 2021)
21-44638045-G-T		not specified	Likely benign (Dec 14, 2023)
21-44638051-T-C		not specified	Likely benign (May 24, 2023)
21-44638082-G-A		not specified	Uncertain significance (Jul 16, 2021)
21-44638085-C-T		not specified	Uncertain significance (Jan 26, 2022)
21-44638112-G-A		not specified	Uncertain significance (Nov 10, 2022)
21-44638127-G-A			Likely benign (Jun 29, 2016)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KRTAP10-10	protein_coding	protein_coding	ENST00000380095	1	1098

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00465	0.698	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.23	180	139	1.29	0.00000821	1585
Missense in Polyphen		34	30.902	1.1003		405
Synonymous	-2.92	91	61.8	1.47	0.00000429	504
Loss of Function	0.690	4	5.79	0.691	2.59e-7	73

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: In the hair cortex, hair keratin intermediate filaments are embedded in an interfilamentous matrix, consisting of hair keratin-associated proteins (KRTAP), which are essential for the formation of a rigid and resistant hair shaft through their extensive disulfide bond cross-linking with abundant cysteine residues of hair keratins. The matrix proteins include the high- sulfur and high-glycine-tyrosine keratins.

Intolerance Scores

• loftool: 0.880
• rvis_EVS: 3.64
• rvis_percentile_EVS: 99.55

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.112
• ghis: 0.419

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0953

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	High	High	High
Primary Immunodeficiency	High	High	High
Cancer	High	High	High

Gene ontology

• Biological process: keratinization
• Cellular component: cytosol;keratin filament