SYNJ2-IT1

Summary

SYNJ2-IT1 (SYNJ2 intronic transcript 1, HGNC:41387) is a long non-coding RNA gene on chromosome 6q25.3.

At a glance

• Gene type: non-coding (lncRNA) — no protein product; not a drug target. Variant/disease associations are omitted (they would be positional, from an overlapping protein-coding gene).

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:41387
Approved symbol	SYNJ2-IT1
Name	SYNJ2 intronic transcript 1
Location	6q25.3
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000233496
Ensembl biotype	lncRNA
Entrez	100874300
RNAcentral	URS00000832A9 — lncRNA, 599 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 lncRNA

ENST00000442328

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000442328 — 3 exons

Exon	Start	End
ENSE00001597971	158002174	158002383
ENSE00001614441	158001107	158001375
ENSE00001668800	158001582	158001701

Expression profiles

Bgee: expression breadth ubiquitous, 101 present calls, max score 80.37.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	80.37	silver quality
bone marrow cell	CL:0002092	64.62	silver quality
tonsil	UBERON:0002372	63.82	silver quality
hindlimb stylopod muscle	UBERON:0004252	62.99	gold quality
bone marrow	UBERON:0002371	61.32	gold quality
monocyte	CL:0000576	58.99	gold quality
skeletal muscle tissue	UBERON:0001134	58.91	gold quality
stromal cell of endometrium	CL:0002255	58.87	gold quality
liver	UBERON:0002107	58.26	gold quality
calcaneal tendon	UBERON:0003701	56.43	silver quality
islet of Langerhans	UBERON:0000006	55.19	gold quality
right lobe of liver	UBERON:0001114	53.91	gold quality
corpus callosum	UBERON:0002336	53.73	gold quality
urinary bladder	UBERON:0001255	53.12	gold quality
vermiform appendix	UBERON:0001154	52.70	gold quality
blood	UBERON:0000178	50.55	silver quality
prefrontal cortex	UBERON:0000451	49.63	gold quality
muscle of leg	UBERON:0001383	48.44	gold quality
gall bladder	UBERON:0002110	48.14	silver quality
superior frontal gyrus	UBERON:0002661	48.13	silver quality
gastrocnemius	UBERON:0001388	47.18	gold quality
right atrium auricular region	UBERON:0006631	46.75	gold quality
myometrium	UBERON:0001296	46.07	silver quality
endometrium	UBERON:0001295	45.78	gold quality
body of pancreas	UBERON:0001150	45.34	silver quality
putamen	UBERON:0001874	45.13	gold quality
thoracic mammary gland	UBERON:0005200	45.13	gold quality
cerebellar hemisphere	UBERON:0002245	45.04	silver quality
apex of heart	UBERON:0002098	44.81	silver quality
placenta	UBERON:0001987	44.34	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.06

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Protein

Non-coding RNA — no protein product; not a drug target.

Function

No curated pathway, Gene-Ontology, or interaction data.

Disease & clinical

No curated disease, variant, or cancer-driver associations.

Drugs & pharmacology

No drug or pharmacology data — not an established drug target.