FTO-IT1

Summary

FTO-IT1 (FTO intronic transcript 1, HGNC:43758) is a long non-coding RNA gene on chromosome 16q12.2.

At a glance

• GWAS associations: 1

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:43758
Approved symbol	FTO-IT1
Name	FTO intronic transcript 1
Location	16q12.2
Locus type	RNA, long non-coding
Status	Approved
Entrez	100505692
RNAcentral	URS0000759999 — lncRNA, 870 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

Literature-anchored findings (GeneRIF, showing 1)

• LncRNA FTO-IT1 promotes glycolysis and progression of hepatocellular carcinoma through modulating FTO-mediated N6-methyladenosine modification on GLUT1 and PKM2. (PMID:37840133)

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): RS1000833737 (16:54037971 C>T), RS1000928097 (16:54038174 G>A), RS1001221386 (16:54039529 T>C), RS1001261922 (16:54039813 C>G,T), RS1005404467 (16:54038970 C>T), RS1009539428 (16:54038457 T>C), RS1009874041 (16:54040263 T>A), RS1011075022 (16:54039831 T>C), RS1013637843 (16:54037852 T>G), RS1014106317 (16:54039701 G>A), RS1014384437 (16:54039416 A>G,T), RS1015131570 (16:54037534 C>A,G), RS1015466862 (16:54039019 G>A,T), RS1017046384 (16:54040406 C>T), RS1017141940 (16:54040676 C>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
GCST003476_1	Eyebrow thickness	3.000000e-06

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
perfluorooctane sulfonic acid	decreases expression	1
Tobacco Smoke Pollution	increases expression	1

Clinical trials (associated diseases)

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