SCARNA12

Summary

SCARNA12 (small Cajal body-specific RNA 12, HGNC:32569) is a small nucleolar RNA gene on chromosome 12p13.31.

This gene produces a small nuclear RNA that localizes specifically to Cajal bodies, which are conserved subnuclear organelles that are present in the nucleoplasm. This RNA is processed from an intron of the prohibitin 2 host gene. It includes both an H/ACA box and a C/D box, and is thought to guide the pseudouridylation of residue U46 in the U5 small nuclear RNA.

Source: NCBI Gene 677777 — RefSeq curated summary.

At a glance

• Gene type: non-coding (snoRNA) — 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:32569
Approved symbol	SCARNA12
Name	small Cajal body-specific RNA 12
Location	12p13.31
Locus type	RNA, small nucleolar
Status	Approved
Aliases	U89
Ensembl gene	ENSG00000238795
Ensembl biotype	snoRNA
OMIM	615642
Entrez	677777
RNAcentral	URS000014FF3E — snoRNA, 270 nt, 2 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 snoRNA

ENST00000459155

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000459155 — 1 exons

Exon	Start	End
ENSE00001808658	6967337	6967606

Expression profiles

Bgee: expression breadth broad, 93 present calls, max score 99.67.

FANTOM5 (CAGE): breadth broad, TPM avg 0.6903 / max 54.1666, expressed in 307 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
129220	0.6903	307

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
bone marrow cell	CL:0002092	99.67	gold quality
uterine cervix	UBERON:0000002	99.53	gold quality
colonic epithelium	UBERON:0000397	99.52	gold quality
tonsil	UBERON:0002372	99.30	gold quality
corpus callosum	UBERON:0002336	99.27	gold quality
calcaneal tendon	UBERON:0003701	98.90	gold quality
adrenal tissue	UBERON:0018303	98.82	gold quality
sural nerve	UBERON:0015488	93.68	gold quality
lung	UBERON:0002048	92.19	gold quality
thoracic mammary gland	UBERON:0005200	91.30	gold quality
urinary bladder	UBERON:0001255	91.20	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	90.28	gold quality
liver	UBERON:0002107	88.98	gold quality
prostate gland	UBERON:0002367	88.31	gold quality
stomach	UBERON:0000945	88.02	gold quality
adrenal gland	UBERON:0002369	87.68	gold quality
intestine	UBERON:0000160	86.83	gold quality
skeletal muscle tissue	UBERON:0001134	85.81	gold quality
colon	UBERON:0001155	84.91	gold quality
small intestine	UBERON:0002108	84.58	gold quality
kidney	UBERON:0002113	83.30	gold quality
ovary	UBERON:0000992	82.11	gold quality
blood	UBERON:0000178	79.61	gold quality
hindlimb stylopod muscle	UBERON:0004252	79.27	gold quality
muscle of leg	UBERON:0001383	78.19	gold quality
adult mammalian kidney	UBERON:0000082	77.45	gold quality
multicellular organism	UBERON:0000468	75.58	gold quality
heart	UBERON:0000948	75.34	gold quality
stromal cell of endometrium	CL:0002255	73.94	gold quality
zone of skin	UBERON:0000014	72.93	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	2.96

Regulation

Is transcription factor: no

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Gm23547	ENSMUSG00000088835
rattus_norvegicus	LOC120102747	ENSRNOG00000052563

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.