LINC02589

Summary

LINC02589 (long intergenic non-protein coding RNA 2589, HGNC:53859) is a long non-coding RNA gene on chromosome Xq22.2.

At a glance

• Clinical variants (ClinVar): 1 total — 1 pathogenic

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:53859
Approved symbol	LINC02589
Name	long intergenic non-protein coding RNA 2589
Location	Xq22.2
Locus type	RNA, long non-coding
Status	Approved
Entrez	105373300
RNAcentral	URS0000812102 — lncRNA, 652 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	1
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (1)

Variant ID	HGVS	Classification
150055	GRCh38/hg38 Xq22.2(chrX:103404405-103913265)x2	Pathogenic

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000014773 (X:103531572 C>A,T), RS1000587845 (X:103538928 A>C), RS1000706837 (X:103551288 G>A), RS1000752109 (X:103552756 C>A), RS1000772714 (X:103553445 C>T), RS1001088251 (X:103538241 A>T), RS1001225513 (X:103553121 T>C), RS1001326089 (X:103552740 C>T), RS1001538138 (X:103553275 T>A,C), RS1001611693 (X:103553650 C>A,G,T), RS1002541152 (X:103540428 C>T), RS1002690629 (X:103532235 G>A,C), RS1002754794 (X:103546327 A>C), RS1002879664 (X:103550590 G>A), RS1003116539 (X:103538263 A>C)

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

Clinical trials (associated diseases)

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