PCDH9-AS2

Summary

PCDH9-AS2 (PCDH9 antisense RNA 2, HGNC:39896) is a long non-coding RNA gene on chromosome 13q21.32.

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:39896
Approved symbol	PCDH9-AS2
Name	PCDH9 antisense RNA 2
Location	13q21.32
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000228842
Ensembl biotype	lncRNA
Entrez	100874064
RNAcentral	URS00000941B9 — lncRNA, 538 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 4 lncRNA

ENST00000419371, ENST00000611609, ENST00000730193, ENST00000730194

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000419371 — 6 exons

Exon	Start	End
ENSE00001602973	66858988	66859120
ENSE00001680107	66914398	66914486
ENSE00001695657	66914937	66915031
ENSE00001763164	66876844	66876919
ENSE00001782202	66886000	66886076
ENSE00003020501	66825169	66825236

Expression profiles

Bgee: expression breadth broad, 93 present calls, max score 99.41.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
corpus callosum	UBERON:0002336	99.41	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	86.59	gold quality
hindlimb stylopod muscle	UBERON:0004252	84.12	gold quality
calcaneal tendon	UBERON:0003701	74.40	gold quality
kidney	UBERON:0002113	68.44	gold quality
bone marrow cell	CL:0002092	66.57	silver quality
liver	UBERON:0002107	65.67	gold quality
muscle of leg	UBERON:0001383	65.04	gold quality
sural nerve	UBERON:0015488	64.06	silver quality
right lobe of liver	UBERON:0001114	62.99	gold quality
superior frontal gyrus	UBERON:0002661	61.16	gold quality
adult mammalian kidney	UBERON:0000082	60.86	gold quality
prefrontal cortex	UBERON:0000451	60.06	gold quality
putamen	UBERON:0001874	58.91	gold quality
intestine	UBERON:0000160	58.83	gold quality
stomach	UBERON:0000945	58.69	gold quality
adrenal tissue	UBERON:0018303	58.62	gold quality
right adrenal gland cortex	UBERON:0035827	58.52	gold quality
right ovary	UBERON:0002118	58.43	gold quality
blood	UBERON:0000178	58.38	gold quality
gastrocnemius	UBERON:0001388	58.24	gold quality
Brodmann (1909) area 9	UBERON:0013540	57.79	gold quality
lung	UBERON:0002048	57.76	gold quality
substantia nigra	UBERON:0002038	57.46	gold quality
myometrium	UBERON:0001296	57.27	gold quality
primary visual cortex	UBERON:0002436	56.29	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	55.88	gold quality
right hemisphere of cerebellum	UBERON:0014890	55.73	gold quality
heart	UBERON:0000948	55.67	gold quality
cerebellar hemisphere	UBERON:0002245	55.61	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-GEOD-180759	yes	928.58
E-ANND-3	no	2.10

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.