LINC00999

Summary

LINC00999 (long intergenic non-protein coding RNA 999, HGNC:38537) is a long non-coding RNA gene on chromosome 10p11.1.

At a glance

• GWAS associations: 7
• Clinical variants (ClinVar): 2 total

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:38537
Approved symbol	LINC00999
Name	long intergenic non-protein coding RNA 999
Location	10p11.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	FLJ44672
Entrez	399744
RNAcentral	URS000075E54A — lncRNA, 5270 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

2 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	2
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): RS1000059497 (10:38441165 C>T), RS1000523242 (10:38445965 G>A), RS1000595176 (10:38427323 A>G,T), RS1000740666 (10:38437947 C>T), RS1000754414 (10:38432817 G>A), RS1000843220 (10:38451358 C>A,G,T), RS1000985776 (10:38437656 A>C), RS1001065540 (10:38442346 A>C), RS1001142690 (10:38447011 A>C), RS1001230849 (10:38449235 C>T), RS1001284682 (10:38449549 A>C,T), RS1001406068 (10:38446818 C>T), RS1001474165 (10:38432230 C>T), RS1001547599 (10:38432431 T>C), RS1001626460 (10:38431685 GAACAGGTTGT>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

7 associations (top):

Study	Trait	p-value
GCST010796_4997	Electrocardiogram morphology (amplitude at temporal datapoints)	3.000000e-08
GCST010796_4998	Electrocardiogram morphology (amplitude at temporal datapoints)	4.000000e-08
GCST010796_4999	Electrocardiogram morphology (amplitude at temporal datapoints)	3.000000e-08
GCST010796_5000	Electrocardiogram morphology (amplitude at temporal datapoints)	3.000000e-08
GCST010796_5201	Electrocardiogram morphology (amplitude at temporal datapoints)	5.000000e-08
GCST010796_5202	Electrocardiogram morphology (amplitude at temporal datapoints)	4.000000e-08
GCST010796_5203	Electrocardiogram morphology (amplitude at temporal datapoints)	5.000000e-08

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0004327	electrocardiography

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 0 entries

CTD chemical–gene interactions

8 total (human), top 8 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
dicrotophos	increases expression	1
butyraldehyde	decreases expression	1
pentanal	decreases expression	1
perfluorooctane sulfonic acid	increases expression	1
fipronil	affects cotreatment, decreases expression	1
DEET	affects cotreatment, decreases expression	1
Lactic Acid	increases expression	1
Particulate Matter	decreases expression	1

Clinical trials (associated diseases)

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