LINC01590

Summary

LINC01590 (long intergenic non-protein coding RNA 1590, HGNC:21404) is a long non-coding RNA gene on chromosome 6q15-q16.1.

At a glance

• Clinical variants (ClinVar): 3 total

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:21404
Approved symbol	LINC01590
Name	long intergenic non-protein coding RNA 1590
Location	6q15-q16.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	dJ102H19.4
Entrez	63914
RNAcentral	URS000075B338 — lncRNA, 1558 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

Putative uncharacterized protein encoded by LINC01590 — Q5TEZ4 (reviewed: Q5TEZ4)

Alternative names: Long intergenic non-protein coding RNA 1590

All UniProt accessions (0):

UniProt curated annotations — full annotation on UniProt →

RefSeq proteins (0): (*=MANE)

Domains & families (InterPro)

UniProt features (3 total): chain 1, region of interest 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q5TEZ4-F1	64.72	0.00

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:

ESM2 similar proteins: A0A096LPI5, A0A0A0MT76, A4D1N5, A6NM66, A8MUN3, B1ANH7, F5HDA4, O76042, P03414, P04219, P06831, P0C092, P0C5K7, P0C7Q2, P15099, P37125, P37200, P49671, Q1W209, Q21QM3, Q2M3A8, Q4G0G2, Q5T0J3, Q5T6R2, Q5T742, Q5TEZ4, Q5VSD8, Q5W150, Q6UXP9, Q6W349, Q6ZP68, Q6ZS52, Q6ZSR6, Q6ZV60, Q6ZVU0, Q8IWL8, Q8N6C7, Q8N814, Q8TCH9, Q8TEV8

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

3 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): RS1000766786 (6:87396290 T>G), RS1001140187 (6:87399727 ATTAAT>A), RS1001399048 (6:87399775 T>G), RS1002403264 (6:87398257 C>T), RS1002431336 (6:87397777 C>T), RS1003001409 (6:87395422 A>G), RS1004046982 (6:87395891 A>T), RS1004736955 (6:87399456 A>C), RS1005173228 (6:87399081 C>T), RS1005630518 (6:87395575 G>C), RS1005667533 (6:87397304 G>A,C), RS1006071747 (6:87399239 C>T), RS1007307559 (6:87397100 C>T), RS1007943923 (6:87400172 A>G), RS1008979501 (6:87398617 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: 0 entries

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Lactic Acid	decreases expression	1
Particulate Matter	increases expression	1

Clinical trials (associated diseases)

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