LINC00593

Summary

LINC00593 (long intergenic non-protein coding RNA 593, HGNC:32382) is a long non-coding RNA gene on chromosome 15q23.

At a glance

• GWAS associations: 5
• Clinical variants (ClinVar): 1 total

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:32382
Approved symbol	LINC00593
Name	long intergenic non-protein coding RNA 593
Location	15q23
Locus type	RNA, long non-coding
Status	Approved
Aliases	MGC42951
Entrez	414926
RNAcentral	URS00008BAA53 — lncRNA, 1330 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 0

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

None — 0 exons

Expression profiles

Top tissues by expression

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

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Canonical reviewed UniProt: None (reviewed: )

All UniProt accessions (0):

RefSeq proteins (0): (*=MANE)

Domains & families (InterPro)

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 0 (showing top):

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

0 interactions, top by confidence:

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000112521 (15:69841053 A>G), RS1000373575 (15:69843251 A>G), RS1000488140 (15:69842961 C>T), RS1000746512 (15:69838073 C>G,T), RS1000903505 (15:69839398 A>G), RS1001015114 (15:69834112 C>T), RS1002017039 (15:69839255 G>C), RS1002424538 (15:69834330 A>C), RS1003110303 (15:69836904 C>T), RS1003652040 (15:69840579 A>T), RS1003912154 (15:69836149 T>C), RS1004148162 (15:69840573 G>T), RS1004295980 (15:69839940 T>C), RS1004799136 (15:69835314 G>A), RS1005045805 (15:69842594 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

5 associations (top):

Study	Trait	p-value
GCST004860_102	Alcoholic chronic pancreatitis	8.000000e-06
GCST005989_28	Serum total protein levels	2.000000e-08
GCST005990_19	Non-albumin protein levels	1.000000e-08
GCST006003_3	Triglyceride levels	2.000000e-08
GCST011345_21	Triglyceride levels	4.000000e-08

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0004530	triglyceride measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

1 total (human), top 1 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	affects methylation	1

Clinical trials (associated diseases)

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