LINC01889

Summary

LINC01889 (long intergenic non-protein coding RNA 1889, HGNC:52708) is a long non-coding RNA gene on chromosome 2q14.3.

At a glance

• Clinical variants (ClinVar): 2 total

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:52708
Approved symbol	LINC01889
Name	long intergenic non-protein coding RNA 1889
Location	2q14.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000235491
Entrez	105373597

Gene structure

Transcript identifiers

Ensembl transcripts: 0

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

None — 0 exons

Expression profiles

Bgee: expression breadth broad, 51 present calls, max score 64.70.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0156 / max 8.3861, expressed in 8 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
22373	0.0156	8

Top tissues by expression

51 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
gall bladder	UBERON:0002110	64.70	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	64.45	gold quality
vagina	UBERON:0000996	62.07	gold quality
urinary bladder	UBERON:0001255	61.51	gold quality
uterine cervix	UBERON:0000002	61.41	gold quality
ectocervix	UBERON:0012249	60.70	gold quality
hindlimb stylopod muscle	UBERON:0004252	60.35	gold quality
left ovary	UBERON:0002119	57.57	gold quality
monocyte	CL:0000576	56.65	gold quality
blood	UBERON:0000178	54.32	silver quality
islet of Langerhans	UBERON:0000006	51.64	gold quality
right lung	UBERON:0002167	51.57	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	51.40	silver quality
rectum	UBERON:0001052	50.86	gold quality
kidney	UBERON:0002113	50.22	gold quality
upper lobe of left lung	UBERON:0008952	49.12	gold quality
multicellular organism	UBERON:0000468	48.44	gold quality
adult mammalian kidney	UBERON:0000082	48.07	gold quality
lower esophagus muscularis layer	UBERON:0035833	46.35	gold quality
omental fat pad	UBERON:0010414	45.90	gold quality
prostate gland	UBERON:0002367	45.87	gold quality
gastrocnemius	UBERON:0001388	45.43	silver quality
esophagus mucosa	UBERON:0002469	45.02	gold quality
intestine	UBERON:0000160	44.24	gold quality
left lobe of thyroid gland	UBERON:0001120	44.16	gold quality
transverse colon	UBERON:0001157	43.17	gold quality
colon	UBERON:0001155	42.94	gold quality
minor salivary gland	UBERON:0001830	42.81	silver quality
thoracic mammary gland	UBERON:0005200	42.63	gold quality
putamen	UBERON:0001874	42.48	silver quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

Experiment	Marker?	Max mean expression
E-CURD-119	yes	242.03
E-GEOD-131882	yes	159.00
E-ANND-3	no	1.55

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	1
Likely benign	1
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): RS1000041304 (2:125790970 G>C,T), RS1000042956 (2:125731725 C>T), RS1000075734 (2:125775549 G>A), RS1000161562 (2:125770396 C>A,T), RS1000171020 (2:125749885 C>A,G), RS1000199661 (2:125757002 C>T), RS1000276907 (2:125753985 CCT>C), RS1000336313 (2:125718145 A>G), RS1000338894 (2:125724310 T>C), RS1000368008 (2:125780984 C>T), RS1000376066 (2:125785534 C>A), RS1000388285 (2:125742042 A>G), RS1000391172 (2:125723945 T>A,C), RS1000442592 (2:125710975 C>A), RS1000466207 (2:125769473 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

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.