KRTDAP

keratinocyte differentiation associated protein

Basic information

Region (hg38): 19:35487324-35495558

Links

ENSG00000188508 ∙ NCBI:388533 ∙ OMIM:617212 ∙ HGNC:16313 ∙ Uniprot:P60985 ∙ 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 KRTDAP gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KRTDAP 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			13			13
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	0	0

Variants in KRTDAP

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

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

Position	Type	Phenotype	Significance	ClinVar
19-35487460-C-T		not specified	Uncertain significance (Jul 17, 2023)
19-35487730-G-T		not specified	Uncertain significance (May 15, 2024)
19-35487747-T-G		not specified	Uncertain significance (Aug 02, 2021)
19-35488466-A-G		not specified	Uncertain significance (Feb 02, 2024)
19-35488484-G-A		not specified	Uncertain significance (Apr 23, 2024)
19-35488679-T-C		not specified	Uncertain significance (Jun 02, 2024)
19-35488685-G-C		not specified	Uncertain significance (Oct 17, 2023)
19-35488690-G-C		not specified	Uncertain significance (May 31, 2023)
19-35488815-G-A		not specified	Uncertain significance (Oct 16, 2024)
19-35490370-G-C		not specified	Uncertain significance (Dec 18, 2023)
19-35490387-G-A		not specified	Uncertain significance (Aug 04, 2023)
19-35490412-G-A		not specified	Uncertain significance (Mar 25, 2024)
19-35490432-G-A		not specified	Uncertain significance (Oct 26, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KRTDAP	protein_coding	protein_coding	ENST00000338897	6	8235

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0835	0.876	125740	0	8	125748	0.0000318

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.174	54	57.7	0.936	0.00000332	635
Missense in Polyphen		19	17.181	1.1059		231
Synonymous	0.127	25	25.8	0.968	0.00000182	192
Loss of Function	1.75	3	8.49	0.353	5.44e-7	82

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000906	0.0000904
Ashkenazi Jewish	0.00	0.00
East Asian	0.000163	0.000163
Finnish	0.00	0.00
European (Non-Finnish)	0.0000264	0.0000264
Middle Eastern	0.000163	0.000163
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May act as a soluble regulator of keratinocyte differentiation. May play an important role in embryonic skin morphogenesis. {ECO:0000269|PubMed:15140226}.

Recessive Scores

• pRec: 0.105

Intolerance Scores

• loftool: 0.370
• rvis_EVS: -0.05
• rvis_percentile_EVS: 49.39

Haploinsufficiency Scores

• pHI: 0.167
• hipred: N
• hipred_score: 0.291
• ghis: 0.611

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.289

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Krtdap

Gene ontology

• Biological process: biological_process;epidermis development;cell differentiation
• Cellular component: extracellular space;lamellar body
• Molecular function: molecular_function