KRTAP17-1

keratin associated protein 17-1, the group of Keratin associated proteins

Basic information

Region (hg38): 17:41314912-41315710

Links

ENSG00000186860 ∙ NCBI:83902 ∙ ∙ HGNC:18917 ∙ Uniprot:Q9BYP8 ∙ 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 KRTAP17-1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KRTAP17-1 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			11			11
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	11	0	0

Variants in KRTAP17-1

This is a list of pathogenic ClinVar variants found in the KRTAP17-1 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-41315348-T-C		not specified	Uncertain significance (Dec 08, 2023)
17-41315364-C-A		not specified	Uncertain significance (Mar 11, 2024)
17-41315364-C-T		not specified	Uncertain significance (Jun 23, 2023)
17-41315370-A-C		not specified	Uncertain significance (Jun 22, 2023)
17-41315430-C-G		not specified	Uncertain significance (Apr 18, 2023)
17-41315452-C-T		not specified	Uncertain significance (Oct 27, 2022)
17-41315502-C-T		not specified	Uncertain significance (Mar 20, 2023)
17-41315520-C-A		not specified	Uncertain significance (Jun 29, 2022)
17-41315564-A-C		not specified	Uncertain significance (Oct 24, 2023)
17-41315622-G-A		not specified	Uncertain significance (Apr 08, 2024)
17-41315622-G-C		not specified	Uncertain significance (Nov 03, 2023)
17-41315637-G-A		not specified	Uncertain significance (May 05, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KRTAP17-1	protein_coding	protein_coding	ENST00000334202	1	775

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.591	0.372	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.396	57	66.1	0.863	0.00000384	668
Missense in Polyphen
Synonymous	0.202	28	29.4	0.953	0.00000223	200
Loss of Function	1.55	0	2.79	0.00	1.18e-7	33

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: 0.421
• rvis_EVS: 0.21
• rvis_percentile_EVS: 67.72

Haploinsufficiency Scores

• pHI: 0.114
• hipred: N
• hipred_score: 0.146
• ghis: 0.394

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.00438

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Krtap17-1
• Phenotype: integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

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