LINC01246

Summary

LINC01246 (long intergenic non-protein coding RNA 1246, HGNC:49840) is a long non-coding RNA gene on chromosome 2p25.2.

At a glance

• GWAS associations: 1

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:49840
Approved symbol	LINC01246
Name	long intergenic non-protein coding RNA 1246
Location	2p25.2
Locus type	RNA, long non-coding
Status	Approved
Entrez	102800315
RNAcentral	URS000075AD88 — lncRNA, 543 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): RS1000125412 (2:6634957 A>G), RS1000218955 (2:6633732 A>G), RS1000277216 (2:6629351 T>C), RS1000405008 (2:6630052 G>A,T), RS1000413672 (2:6635246 T>G), RS1000453122 (2:6630822 G>C), RS1000756271 (2:6629785 A>G), RS1000830337 (2:6634224 A>G,T), RS1000882561 (2:6634490 C>G,T), RS1001142132 (2:6628845 T>C), RS1002221188 (2:6626239 C>A), RS1002331162 (2:6631931 A>T), RS1002482796 (2:6626537 C>A,T), RS1002505972 (2:6633628 G>A), RS1002554689 (2:6627577 A>G)

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

1 associations (top):

Study	Trait	p-value
GCST004639_37	Prudent dietary pattern	8.000000e-06

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0008111	diet measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 0 entries

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Rotenone	decreases expression	1

Clinical trials (associated diseases)

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