KRTAP10-9

Summary

KRTAP10-9 (keratin associated protein 10-9, HGNC:22971) is a protein-coding gene on chromosome 21q22.3, encoding Keratin-associated protein 10-9 (P60411). 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-link…. It is a selective cancer dependency (DepMap: 34.1% of cell lines).

Predicted to be located in cytosol.

Source: NCBI Gene 386676 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 95 total
• Cancer dependency (DepMap): dependent in 34.1% of screened cell lines
• MANE Select transcript: NM_198690

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:22971
Approved symbol	KRTAP10-9
Name	keratin associated protein 10-9
Location	21q22.3
Locus type	gene with protein product
Status	Approved
Aliases	KAP10.9, KAP18.9
Ensembl gene	ENSG00000221837
Ensembl biotype	protein_coding
Entrez	386676

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 1 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000397911, ENST00000484861

RefSeq mRNA: 1 — MANE Select: NM_198690 NM_198690

CCDS: CCDS42961

Canonical transcript exons

ENST00000397911 — 1 exons

Exon	Start	End
ENSE00001530698	44627093	44628378

Expression profiles

Bgee: expression breadth tissue_specific, 7 present calls, max score 37.20.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0190 / max 20.3556, expressed in 3 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
189493	0.0190	3

Top tissues by expression

116 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
colonic epithelium	UBERON:0000397	37.20	gold quality
sural nerve	UBERON:0015488	37.04	gold quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
skeletal muscle tissue	UBERON:0001134	33.38	gold quality
skin of abdomen	UBERON:0001416	32.99	gold quality
zone of skin	UBERON:0000014	32.27	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
bone marrow	UBERON:0002371	31.74	gold quality
skin of leg	UBERON:0001511	31.58	gold quality
muscle tissue	UBERON:0002385	31.06	gold quality
liver	UBERON:0002107	30.03	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
monocyte	CL:0000576	29.47	gold quality
leukocyte	CL:0000738	29.30	gold quality
prefrontal cortex	UBERON:0000451	29.25	gold quality
urinary bladder	UBERON:0001255	28.75	gold quality
duodenum	UBERON:0002114	28.14	gold quality
lymph node	UBERON:0000029	27.57	gold quality
right lobe of liver	UBERON:0001114	27.50	gold quality
tonsil	UBERON:0002372	27.05	gold quality
islet of Langerhans	UBERON:0000006	26.55	gold quality
muscle of leg	UBERON:0001383	26.45	gold quality
vermiform appendix	UBERON:0001154	26.42	gold quality
gall bladder	UBERON:0002110	25.98	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	25.89	gold quality
placenta	UBERON:0001987	25.81	gold quality
gastrocnemius	UBERON:0001388	25.58	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.20

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

14 targeting KRTAP10-9, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-185-3P	99.95	67.01	1743
HSA-MIR-4492	99.87	68.25	3611
HSA-MIR-6756-5P	99.82	67.97	2466
HSA-MIR-762	99.58	66.61	1994
HSA-MIR-1207-5P	99.49	69.11	2983
HSA-MIR-4441	99.49	66.56	3216
HSA-MIR-4498	99.47	67.42	2360
HSA-MIR-4505	99.27	67.81	2678
HSA-MIR-5787	99.22	67.86	2628
HSA-MIR-6799-5P	99.14	65.72	2093
HSA-MIR-7160-5P	99.11	67.17	2207
HSA-MIR-5001-5P	99.05	66.76	1972
HSA-MIR-4448	97.04	66.22	752
HSA-MIR-3907	96.76	65.04	662

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 34.1% of screened cell lines.

Cross-species orthologs

36 orthologs

Organism	Symbol	Gene ID
mus_musculus	Krtap5-2	ENSMUSG00000054759
mus_musculus	Krtap5-20	ENSMUSG00000056885
mus_musculus	Krtap10-4	ENSMUSG00000069582
mus_musculus	Krtap12-1	ENSMUSG00000069583
mus_musculus	Krtap12-23	ENSMUSG00000069584
mus_musculus	Krtap10-31	ENSMUSG00000071195
mus_musculus	Krtap12-22	ENSMUSG00000094012
mus_musculus	Krtap10-21	ENSMUSG00000094120
mus_musculus	Krtap12-21	ENSMUSG00000094146
mus_musculus	Krtap10-27	ENSMUSG00000094913
mus_musculus	Krtap10-26	ENSMUSG00000095593
mus_musculus	Krtap10-25	ENSMUSG00000095721
mus_musculus	Krtap10-22	ENSMUSG00000095817
mus_musculus	Krtap10-33	ENSMUSG00000095970
mus_musculus	Krtap10-29	ENSMUSG00000096131
mus_musculus	Krtap10-34	ENSMUSG00000096380
mus_musculus	Krtap12-20	ENSMUSG00000096421
mus_musculus	Krtap10-23	ENSMUSG00000096481
mus_musculus	Krtap5-26	ENSMUSG00000109859
mus_musculus	Krtap5-24	ENSMUSG00000110324
mus_musculus	Krtap10-24	ENSMUSG00000111915
mus_musculus	Krtap10-28	ENSMUSG00000112170
mus_musculus	Krtap10-10	ENSMUSG00000112223
mus_musculus	Krtap10-30	ENSMUSG00000112380
mus_musculus	Gm49918	ENSMUSG00000112600
mus_musculus	Krtap10-35	ENSMUSG00000112653
mus_musculus	Krtap10-32	ENSMUSG00000112864
rattus_norvegicus	Krtap10-8l1	ENSRNOG00000001218
rattus_norvegicus	Krtap5-8	ENSRNOG00000020131
rattus_norvegicus	Krtap10-10	ENSRNOG00000032530
rattus_norvegicus	Krtap10-9	ENSRNOG00000043302
rattus_norvegicus	Krtap10-1l1	ENSRNOG00000046538
rattus_norvegicus	AABR07006049.1	ENSRNOG00000046649
rattus_norvegicus	Krtap10-1	ENSRNOG00000047532
rattus_norvegicus	LOC120098854	ENSRNOG00000067436
rattus_norvegicus	Krtap10-10l2	ENSRNOG00000069553

Paralogs (47): KRTAP4-4 (ENSG00000171396), KRTAP9-7 (ENSG00000180386), KRTAP5-5 (ENSG00000185940), KRTAP12-1 (ENSG00000187175), KRTAP9-8 (ENSG00000187272), KRTAP10-8 (ENSG00000187766), KRTAP10-6 (ENSG00000188155), KRTAP1-1 (ENSG00000188581), KRTAP10-12 (ENSG00000189169), KRTAP4-3 (ENSG00000196156), KRTAP9-9 (ENSG00000198083), KRTAP4-6 (ENSG00000198090), KRTAP4-5 (ENSG00000198271), KRTAP4-1 (ENSG00000198443), KRTAP9-3 (ENSG00000204873), KRTAP4-8 (ENSG00000204880), KRTAP1-4 (ENSG00000204887), KRTAP12-3 (ENSG00000205439), KRTAP10-2 (ENSG00000205445), KRTAP5-6 (ENSG00000205864), KRTAP5-2 (ENSG00000205867), KRTAP16-1 (ENSG00000212657), KRTAP9-6 (ENSG00000212659), KRTAP4-11 (ENSG00000212721), KRTAP4-9 (ENSG00000212722), KRTAP2-3 (ENSG00000212724), KRTAP2-1 (ENSG00000212725), KRTAP10-3 (ENSG00000212935), KRTAP4-12 (ENSG00000213416), KRTAP2-4 (ENSG00000213417), KRTAP2-2 (ENSG00000214518), KRTAP10-4 (ENSG00000215454), KRTAP10-1 (ENSG00000215455), KRTAP1-5 (ENSG00000221852), KRTAP10-10 (ENSG00000221859), KRTAP12-2 (ENSG00000221864), KRTAP1-3 (ENSG00000221880), KRTAP9-2 (ENSG00000239886), KRTAP9-1 (ENSG00000240542), KRTAP4-7 (ENSG00000240871)

Protein

Protein identifiers

Keratin-associated protein 10-9 — P60411 (reviewed: P60411)

Alternative names: High sulfur keratin-associated protein 10.9, Keratin-associated protein 10.9, Keratin-associated protein 18-9, Keratin-associated protein 18.9

All UniProt accessions (1): P60411

UniProt curated annotations — full annotation on UniProt →

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.

Subunit / interactions. Interacts with hair keratins.

Tissue specificity. Restricted to a narrow region of the hair fiber cuticle, lying approximately 20 cell layers above the apex of the dermal papilla of the hair root; not detected in any other tissues.

Similarity. Belongs to the KRTAP type 10 family.

Isoforms (1)

UniProt ID	Names	Canonical?
P60411-1	1	yes

RefSeq proteins (1): NP_941963* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR002494	KAP	Family

Pfam: PF13885

UniProt features (30 total): repeat 25, sequence variant 2, chain 1, region of interest 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P60411-F1	37.45	0.00

Function

Pathways and Gene Ontology

Reactome pathways

2 pathways

ID	Pathway
R-HSA-6805567	Keratinization
R-HSA-1266738	Developmental Biology

MSigDB gene sets: 9 (showing top): chr21q22, GOCC_INTERMEDIATE_FILAMENT_CYTOSKELETON, GOCC_KERATIN_FILAMENT, GOCC_SUPRAMOLECULAR_COMPLEX, GOCC_POLYMERIC_CYTOSKELETAL_FIBER, REACTOME_KERATINIZATION, GOCC_SUPRAMOLECULAR_POLYMER, WP_VITAMIN_D_RECEPTOR_PATHWAY, GSE40685_NAIVE_CD4_TCELL_VS_FOXP3_KO_TREG_PRECURSOR_DN

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (3): cytosol (GO:0005829), keratin filament (GO:0045095), intermediate filament (GO:0005882)

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
Developmental Biology	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
cytoplasm	1
cellular anatomical structure	1
intermediate filament	1
intermediate filament cytoskeleton	1
polymeric cytoskeletal fiber	1

Protein interactions and networks

STRING

212 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
KRTAP10-9	OR1E1	P30953	573
KRTAP10-9	KRTAP2-3	P0C7H8	506
KRTAP10-9	KRT38	O76015	481
KRTAP10-9	PRB3	Q04118	471
KRTAP10-9	KRT26	Q7Z3Y9	447
KRTAP10-9	IGFL1	Q6UW32	447
KRTAP10-9	KRTAP1-1	Q07627	432
KRTAP10-9	SAGE1	Q9NXZ1	371
KRTAP10-9	FBN3	Q75N90	370
KRTAP10-9	AGR3	Q8TD06	370
KRTAP10-9	A0A087WZY1	A0A087WZY1	370
KRTAP10-9	PRH1	P02810	358
KRTAP10-9	HTN3	P15516	327
KRTAP10-9	CLRN2	A0PK11	311
KRTAP10-9	RTL1	A6NKG5	300

IntAct

900 interactions, top by confidence:

A	B	Type	Score
KRTAP10-9	LCE1B	psi-mi:“MI:0915”(physical association)	0.780
OTX1	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.740
KRTAP10-9	KRTAP9-2	psi-mi:“MI:0915”(physical association)	0.740
KRTAP10-9	LCE3E	psi-mi:“MI:0915”(physical association)	0.740
KRTAP9-2	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.740
NUFIP2	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	PRPF31	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	SPRY1	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	PRKAB2	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	FARS2	psi-mi:“MI:0915”(physical association)	0.720
KRTAP5-9	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	HPCAL1	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	HOXA1	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	SMCP	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	KRTAP12-1	psi-mi:“MI:0915”(physical association)	0.720
CXCL16	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
GLRX3	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
HOXA1	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	KRTAP10-7	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-8	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	CREB5	psi-mi:“MI:0915”(physical association)	0.720
ADAMTSL4	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
CATSPER1	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
MOBP	KRTAP10-9	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	ZNF124	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	ZNF792	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	LCE3C	psi-mi:“MI:0915”(physical association)	0.720
KRTAP10-9	LCE4A	psi-mi:“MI:0915”(physical association)	0.720

BioGRID (364): KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-11 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid), KRTAP10-9 (Two-hybrid)

ESM2 similar proteins: A5A6P5, A6QP35, A8MTY7, A8MVA2, A8MXZ3, O75690, P02438, P02441, P02442, P02443, P08131, P0C7H8, P26371, P59990, P59991, P60014, P60331, P60368, P60369, P60370, P60371, P60372, P60409, P60410, P60411, P60412, P60413, Q05B44, Q07627, Q3V2C1, Q6L8G4, Q6L8G8, Q6L8G9, Q6L8H2, Q701N4, Q8IUG1, Q9BQ66, Q9BYP9, Q9BYQ0, Q9BYQ2

Diamond homologs: P60014, P60331, P60368, P60369, P60370, P60371, P60409, P60411, P60412, P60413, P60372, A6QP35, P60410

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 155 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
Keratinization	18	10.9×	1e-11
Formation of the cornified envelope	8	7.6×	7e-04

GO biological processes:

GO term	Partners	Fold	FDR
keratinization	7	12.8×	4e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

95 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	85
Likely benign	10
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

424 predictions. Top by Δscore:

Variant	Effect	Δscore
21:44627319:G:GG	donor_gain	0.8300
21:44627318:A:AG	donor_gain	0.8200
21:44627228:G:GA	donor_gain	0.7500
21:44627248:GCT:G	donor_gain	0.7500
21:44627227:T:TA	donor_gain	0.7400
21:44627223:C:T	donor_gain	0.7000
21:44627251:G:GG	donor_gain	0.6800
21:44627454:T:TA	acceptor_gain	0.6400
21:44627459:GCA:G	acceptor_gain	0.6400
21:44627877:C:A	acceptor_gain	0.6400
21:44628221:C:CA	acceptor_gain	0.6300
21:44628222:G:A	acceptor_gain	0.6300
21:44627309:C:A	donor_gain	0.6100
21:44628007:C:A	acceptor_gain	0.6100
21:44627731:GCT:G	donor_gain	0.6000
21:44627734:G:GG	donor_gain	0.5700
21:44627951:C:G	donor_gain	0.5500
21:44627380:G:GT	donor_gain	0.5400
21:44627988:C:A	acceptor_gain	0.5400
21:44627322:AGCC:A	donor_gain	0.5300
21:44627323:GCCG:G	donor_gain	0.5300
21:44628013:G:GA	acceptor_gain	0.5300
21:44628222:GGGCA:G	acceptor_loss	0.5200
21:44628223:GGCA:G	acceptor_loss	0.5200
21:44628224:GCA:G	acceptor_loss	0.5200
21:44628225:CAGGC:C	acceptor_loss	0.5200
21:44628227:GGCGA:G	acceptor_gain	0.5200
21:44627305:T:A	donor_gain	0.5100
21:44627352:ACCT:A	donor_gain	0.5000
21:44627458:A:AG	acceptor_gain	0.5000

AlphaMissense

1884 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
21:44627388:A:C	S73R	0.580
21:44627390:C:A	S73R	0.580
21:44627390:C:G	S73R	0.580
21:44627244:A:C	S25R	0.576
21:44627246:C:A	S25R	0.576
21:44627246:C:G	S25R	0.576

dbSNP variants (sampled 300 via entrez): RS1000201871 (21:44625788 G>A,T), RS1000651982 (21:44626035 G>C), RS1001535565 (21:44626367 T>C), RS1001565038 (21:44626517 G>A), RS1004776220 (21:44625468 G>C), RS1006218280 (21:44626944 G>A), RS1006417872 (21:44626425 C>A,G), RS1015094803 (21:44626729 G>A), RS1015484329 (21:44626433 G>A), RS1018759327 (21:44625320 C>T), RS1019203558 (21:44625485 T>C), RS1028766542 (21:44625764 T>A), RS1030432035 (21:44626994 T>C), RS1033130308 (21:44626042 A>G), RS1034522482 (21:44626117 G>A)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

2 total (human), top 2 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
CGP 52608	affects binding, increases reaction	1
Benzo(a)pyrene	affects methylation	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.