LINC00260

Summary

LINC00260 (long intergenic non-protein coding RNA 260, HGNC:28770) is a long non-coding RNA gene on chromosome 1q32.1.

At a glance

• GWAS associations: 2

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28770
Approved symbol	LINC00260
Name	long intergenic non-protein coding RNA 260
Location	1q32.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	MGC5457
Entrez	84719
RNAcentral	URS000075A35C — lncRNA, 1277 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

0 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): RS1003308711 (1:203730119 C>T), RS1003424709 (1:203729780 C>G,T), RS1004881235 (1:203729679 G>A), RS1005435211 (1:203731133 C>T), RS1005550025 (1:203730858 C>A,T), RS1006197049 (1:203732168 A>G,T), RS1006724998 (1:203731777 C>G,T), RS1006867635 (1:203732201 C>T), RS1006870303 (1:203729079 T>C), RS1006986971 (1:203731679 G>C), RS1007316675 (1:203730231 A>G,T), RS1007613256 (1:203730509 A>C), RS1009772590 (1:203731318 A>T), RS1010132826 (1:203731004 C>A,T), RS1010218416 (1:203728750 G>A,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

2 associations (top):

Study	Trait	p-value
GCST010725_76	Malaria	9.000000e-08
GCST010725_83	Malaria	1.000000e-11

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 0 entries

CTD chemical–gene interactions

3 total (human), top 3 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	decreases methylation	1
Aflatoxin B1	increases methylation	1
Antirheumatic Agents	increases expression	1

Clinical trials (associated diseases)

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