KRTAP1-5

keratin associated protein 1-5, the group of Keratin associated proteins

Basic information

Region (hg38): 17:41026026-41027208

Links

ENSG00000221852 ∙ NCBI:83895 ∙ OMIM:608822 ∙ HGNC:16777 ∙ Uniprot:Q9BYS1 ∙ 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 KRTAP1-5 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KRTAP1-5 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			15	1		16
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	15	1	0

Variants in KRTAP1-5

This is a list of pathogenic ClinVar variants found in the KRTAP1-5 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-41026635-C-A		not specified	Uncertain significance (Nov 28, 2024)
17-41026638-G-A		not specified	Likely benign (Jul 27, 2024)
17-41026662-C-T		not specified	Uncertain significance (Oct 16, 2023)
17-41026663-G-A		not specified	Uncertain significance (Jun 07, 2024)
17-41026722-T-A		not specified	Uncertain significance (Sep 26, 2024)
17-41026724-G-C		not specified	Uncertain significance (Mar 22, 2022)
17-41026744-A-G		not specified	Uncertain significance (Feb 04, 2022)
17-41026745-G-C		not specified	Uncertain significance (Jun 29, 2023)
17-41026746-C-T		not specified	Uncertain significance (Aug 16, 2022)
17-41026765-G-A		not specified	Uncertain significance (Aug 11, 2022)
17-41026773-G-T		not specified	Uncertain significance (Jul 12, 2022)
17-41026797-C-T		not specified	Uncertain significance (Sep 17, 2021)
17-41026852-T-C		not specified	Likely benign (Jan 05, 2022)
17-41026855-T-C		not specified	Uncertain significance (Feb 05, 2024)
17-41026863-C-A		not specified	Uncertain significance (May 31, 2023)
17-41026921-T-C		not specified	Uncertain significance (Jun 17, 2024)
17-41026930-A-C		not specified	Uncertain significance (Oct 26, 2021)
17-41027019-C-A		not specified	Uncertain significance (Sep 20, 2024)
17-41027044-G-A		not specified	Uncertain significance (Nov 09, 2021)
17-41027055-C-G		not specified	Uncertain significance (Nov 09, 2021)
17-41027059-T-A		not specified	Uncertain significance (Sep 24, 2024)
17-41027122-G-A		not specified	Uncertain significance (May 25, 2022)
17-41027146-A-G		not specified	Uncertain significance (Jan 11, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KRTAP1-5	protein_coding	protein_coding	ENST00000361883	1	1177

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00391	0.661	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.489	113	99.3	1.14	0.00000541	1146
Missense in Polyphen		39	28.004	1.3926		271
Synonymous	-2.17	53	36.3	1.46	0.00000197	313
Loss of Function	0.582	4	5.47	0.732	2.40e-7	65

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: 0.696
• rvis_EVS: 1.28
• rvis_percentile_EVS: 93.71

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR: 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: Krtap1-5

Gene ontology

• Biological process: biological_process;keratinization
• Cellular component: cellular_component;cytosol;keratin filament
• Molecular function: molecular_function;protein binding