PINLYP

Summary

PINLYP (phospholipase A2 inhibitor and LY6/PLAUR domain containing, HGNC:44206) is a protein-coding gene on chromosome 19q13.31, encoding phospholipase A2 inhibitor and Ly6/PLAUR domain-containing protein (A6NC86).

Predicted to enable phospholipase inhibitor activity. Predicted to be located in extracellular region.

Source: NCBI Gene 390940 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 51 total
• MANE Select transcript: NM_001193621

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:44206
Approved symbol	PINLYP
Name	phospholipase A2 inhibitor and LY6/PLAUR domain containing
Location	19q13.31
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000234465
Ensembl biotype	protein_coding
Entrez	390940

Gene structure

Transcript identifiers

Ensembl transcripts: 7 — 5 protein_coding, 2 retained_intron

ENST00000244321, ENST00000413422, ENST00000562255, ENST00000562365, ENST00000569031, ENST00000599207, ENST00000612042

RefSeq mRNA: 3 — MANE Select: NM_001193621 NM_001193621, NM_001193622, NM_001321124

CCDS: CCDS58667, CCDS74385

Canonical transcript exons

ENST00000599207 — 6 exons

Exon	Start	End
ENSE00002580131	43581563	43581703
ENSE00002582446	43581868	43582098
ENSE00003148600	43578590	43578706
ENSE00003562401	43581212	43581364
ENSE00003728242	43577115	43577261
ENSE00003849964	43575801	43576919

Expression profiles

Bgee: expression breadth ubiquitous, 208 present calls, max score 87.01.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
ventricular zone	UBERON:0003053	87.01	gold quality
left ovary	UBERON:0002119	86.03	gold quality
right ovary	UBERON:0002118	85.89	gold quality
ganglionic eminence	UBERON:0004023	85.32	gold quality
endocervix	UBERON:0000458	85.06	gold quality
adenohypophysis	UBERON:0002196	84.49	gold quality
right uterine tube	UBERON:0001302	84.39	gold quality
body of uterus	UBERON:0009853	84.24	gold quality
ectocervix	UBERON:0012249	83.83	gold quality
left uterine tube	UBERON:0001303	83.69	gold quality
ascending aorta	UBERON:0001496	83.00	gold quality
thoracic aorta	UBERON:0001515	82.94	gold quality
right coronary artery	UBERON:0001625	82.87	gold quality
left coronary artery	UBERON:0001626	82.62	gold quality
ovary	UBERON:0000992	82.48	gold quality
nucleus accumbens	UBERON:0001882	82.40	gold quality
right lobe of thyroid gland	UBERON:0001119	82.27	gold quality
pituitary gland	UBERON:0000007	81.98	gold quality
caudate nucleus	UBERON:0001873	81.95	gold quality
muscle layer of sigmoid colon	UBERON:0035805	81.74	gold quality
descending thoracic aorta	UBERON:0002345	81.63	gold quality
cortical plate	UBERON:0005343	81.48	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	81.31	gold quality
gall bladder	UBERON:0002110	81.13	gold quality
putamen	UBERON:0001874	81.12	gold quality
coronary artery	UBERON:0001621	80.96	gold quality
tibial nerve	UBERON:0001323	80.95	gold quality
metanephros cortex	UBERON:0010533	80.88	gold quality
lower esophagus	UBERON:0013473	80.85	gold quality
left lobe of thyroid gland	UBERON:0001120	80.84	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.59

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

9 targeting PINLYP, 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-5004-5P	99.68	66.63	1294
HSA-MIR-141-5P	99.57	67.86	897
HSA-MIR-5582-5P	99.27	71.42	1879
HSA-MIR-7151-3P	99.04	69.72	2370
HSA-MIR-6780A-3P	98.42	67.49	1518
HSA-MIR-4423-3P	97.98	69.66	912
HSA-MIR-4438	97.96	63.70	947
HSA-MIR-4652-5P	96.46	64.22	553
HSA-MIR-6777-5P	88.76	62.64	222

Cross-species orthologs

11 orthologs

Organism	Symbol	Gene ID
danio_rerio	si:dkey-102g19.3	ENSDARG00000086337
danio_rerio	negaly6	ENSDARG00000089123
danio_rerio	ly6m4	ENSDARG00000098616
danio_rerio	ly6m5	ENSDARG00000099332
danio_rerio	ly6m3	ENSDARG00000099416
danio_rerio	si:ch211-134a4.6	ENSDARG00000101786
danio_rerio	ly6m6	ENSDARG00000102159
danio_rerio	ly6m7	ENSDARG00000103060
danio_rerio	ly6m2	ENSDARG00000104775
mus_musculus	Pinlyp	ENSMUSG00000011632
rattus_norvegicus	Pinlyp	ENSRNOG00000019862

Paralogs (1): LYPD8 (ENSG00000259823)

Protein

Protein identifiers

phospholipase A2 inhibitor and Ly6/PLAUR domain-containing protein — A6NC86 (reviewed: A6NC86)

All UniProt accessions (1): A6NC86

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Secreted.

Similarity. Belongs to the CNF-like-inhibitor family.

Isoforms (4)

UniProt ID	Names	Canonical?
A6NC86-1	1	yes
A6NC86-2	2
A6NC86-3	3
A6NC86-4	4

RefSeq proteins (3): NP_001180550, NP_001180551, NP_001308053 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR004126	PLipase_A2_inh_N	Domain
IPR016054	LY6_UPA_recep-like	Domain
IPR045860	Snake_toxin-like_sf	Homologous_superfamily
IPR050918	CNF-like_PLA2_Inhibitor	Family

Pfam: PF00021, PF02988

UniProt features (14 total): disulfide bond 7, splice variant 3, signal peptide 1, chain 1, sequence conflict 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A6NC86-F1	90.41	0.79

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Disulfide bonds (7): 29–53, 32–39, 46–74, 80–101, 102–107, 126–151, 144–172

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 52 (showing top): MARTINEZ_RB1_TARGETS_DN, BOYLAN_MULTIPLE_MYELOMA_C_D_UP, GOMF_PHOSPHOLIPASE_INHIBITOR_ACTIVITY, GOMF_LIPASE_INHIBITOR_ACTIVITY, GOMF_ENZYME_INHIBITOR_ACTIVITY, GOMF_ENZYME_REGULATOR_ACTIVITY, DODD_NASOPHARYNGEAL_CARCINOMA_DN, MIKKELSEN_MCV6_LCP_WITH_H3K4ME3, MIKKELSEN_MEF_LCP_WITH_H3K4ME3, MIKKELSEN_IPS_LCP_WITH_H3K4ME3, MIKKELSEN_ES_LCP_WITH_H3K4ME3, MIKKELSEN_NPC_LCP_WITH_H3K4ME3, PRC1_BMI_UP.V1_UP, PRC2_SUZ12_UP.V1_UP, STK33_NOMO_UP

GO Biological Process (0):

GO Molecular Function (1): phospholipase inhibitor activity (GO:0004859)

GO Cellular Component (1): extracellular region (GO:0005576)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
glycerophospholipase activity	1
lipase inhibitor activity	1
cellular anatomical structure	1

Protein interactions and networks

STRING

300 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
PINLYP	LY6L	H3BQJ8	717
PINLYP	PATE3	B3GLJ2	697
PINLYP	LYPD5	Q6UWN5	691
PINLYP	PATE2	Q6UY27	644
PINLYP	PATE1	Q8WXA2	620
PINLYP	LY6G5B	Q8NDX9	599
PINLYP	PATE4	P0C8F1	591
PINLYP	LYPD4	Q6UWN0	586
PINLYP	TEX101	Q9BY14	582
PINLYP	LY6G6F	Q5SQ64	577
PINLYP	LY6G5C	Q5SRR4	577
PINLYP	SPACA4	Q8TDM5	571
PINLYP	LY6G6C	O95867	571
PINLYP	LY6H	O94772	543
PINLYP	LYPD3	O95274	542

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A0JNB3, A0JNL5, A6NC86, H3BJG9, H3BQJ8, O55186, O94772, O95867, P05533, P0CW02, P0CW03, P0DTL4, P13987, P35456, P35459, P35460, P35461, P46657, P47777, P49616, P57096, P58019, Q03405, Q05588, Q14210, Q148C3, Q28216, Q28785, Q32PB3, Q4R5M8, Q5R510, Q63317, Q64253, Q6UWN5, Q6UX82, Q80ZQ0, Q8K1T6, Q8SQ46, Q8TDM5, Q924B5

Diamond homologs: A6NC86, P0DUK6, P82143, Q9CQD7, C0STK9, P35456, P49616, P60591, Q03405, Q05588, Q78CF9, Q7LZI2, Q90358, Q9GK78, Q9GK79, Q9GK80, Q9I8P7, Q9PWI3, P0DQX3, P0DUK4, P0DUK5, Q7LZI1, Q9PTC3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	46
Likely benign	2
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

796 predictions. Top by Δscore:

Variant	Effect	Δscore
19:43578706:AG:A	donor_loss	1.0000
19:43578707:G:GG	donor_gain	1.0000
19:43578708:T:A	donor_loss	1.0000
19:43581210:A:AG	acceptor_gain	1.0000
19:43581210:AGAG:A	acceptor_gain	1.0000
19:43581211:G:GG	acceptor_gain	1.0000
19:43581211:GAGG:G	acceptor_gain	1.0000
19:43581360:GTCTG:G	donor_gain	1.0000
19:43581561:A:AG	acceptor_gain	1.0000
19:43581562:G:GG	acceptor_gain	1.0000
19:43576880:TCTTC:T	donor_gain	0.9900
19:43576917:AAGGT:A	donor_loss	0.9900
19:43576921:T:A	donor_loss	0.9900
19:43578588:AG:A	acceptor_gain	0.9900
19:43578589:GG:G	acceptor_gain	0.9900
19:43578714:G:GT	donor_gain	0.9900
19:43581204:T:G	acceptor_gain	0.9900
19:43581207:CACAG:C	acceptor_gain	0.9900
19:43581208:ACAGA:A	acceptor_gain	0.9900
19:43581209:CAG:C	acceptor_gain	0.9900
19:43581210:AGA:A	acceptor_gain	0.9900
19:43581210:AGAGG:A	acceptor_gain	0.9900
19:43581211:GA:G	acceptor_gain	0.9900
19:43581211:GAG:G	acceptor_gain	0.9900
19:43581211:GAGGG:G	acceptor_gain	0.9900
19:43581365:G:GA	donor_loss	0.9900
19:43581365:G:GG	donor_gain	0.9900
19:43581558:CTCA:C	acceptor_loss	0.9900
19:43581559:TCA:T	acceptor_loss	0.9900
19:43581561:A:AC	acceptor_loss	0.9900

AlphaMissense

1359 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:43581652:T:A	C144S	0.994
19:43581653:G:C	C144S	0.994
19:43581598:T:A	C126S	0.991
19:43581599:G:C	C126S	0.991
19:43581900:T:A	C172S	0.990
19:43581901:G:C	C172S	0.990
19:43581244:T:A	C74S	0.988
19:43581245:G:C	C74S	0.988
19:43581886:T:G	F167C	0.988
19:43581240:G:C	K72N	0.987
19:43581240:G:T	K72N	0.987
19:43581343:T:A	C107S	0.986
19:43581344:G:C	C107S	0.986
19:43581885:T:C	F167L	0.983
19:43581887:T:A	F167L	0.983
19:43581887:T:G	F167L	0.983
19:43581654:T:G	C144W	0.982
19:43581673:T:A	C151S	0.982
19:43581674:G:C	C151S	0.982
19:43581631:T:A	C137S	0.980
19:43581632:G:C	C137S	0.980
19:43581895:G:C	R170P	0.980
19:43578676:T:A	C53S	0.979
19:43578677:G:C	C53S	0.979
19:43581918:T:A	C178S	0.979
19:43581919:G:C	C178S	0.979
19:43581984:T:A	C200S	0.979
19:43581985:G:C	C200S	0.979
19:43578604:T:A	C29S	0.978
19:43578605:G:C	C29S	0.978

dbSNP variants (sampled 300 via entrez): RS1000132851 (19:43578166 C>G,T), RS1000637610 (19:43577778 C>T), RS1001905651 (19:43579404 C>G,T), RS1002003644 (19:43578924 C>A), RS1002253334 (19:43579776 C>A), RS1002349882 (19:43579189 C>A), RS1002509827 (19:43576226 C>T), RS1002684519 (19:43581603 C>T), RS1002746238 (19:43575867 G>A), RS1003020582 (19:43581766 A>G), RS1003035332 (19:43582245 C>G,T), RS1003524466 (19:43581375 C>G,T), RS1003751364 (19:43574124 G>A), RS1003807205 (19:43573914 G>A), RS1004010543 (19:43576295 C>T)

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)

PharmGKB variants

1 variants.

Variant	Genes	Level	Score	#Clin annots	Drugs
rs3213239	APLF, PINLYP, XRCC1	3	2.50	1	Platinum compounds

CTD chemical–gene interactions

15 total (human), top 15 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Phenylmercuric Acetate	affects cotreatment, decreases expression	2
Valproic Acid	affects expression, decreases expression	2
aristolochic acid I	increases expression	1
bisphenol A	decreases expression	1
sodium arsenite	decreases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	decreases expression, affects cotreatment	1
abrine	increases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
Temozolomide	decreases expression	1
Sunitinib	decreases expression	1
Air Pollutants	increases abundance, increases expression	1
Tobacco Smoke Pollution	decreases expression	1
Okadaic Acid	increases expression	1
Lactic Acid	decreases expression	1
Particulate Matter	increases expression, increases abundance	1

Clinical trials (associated diseases)

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