SCAT1

Summary

SCAT1 (S-phase cancer associated transcript 1, HGNC:52930) is a long non-coding RNA gene on chromosome 17q25.3.

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:52930
Approved symbol	SCAT1
Name	S-phase cancer associated transcript 1
Location	17q25.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	CTD-2357A8.3, XLOC_012582
Ensembl gene	ENSG00000267123
Ensembl biotype	lncRNA
Entrez	101928710
RNAcentral	URS000075B9E6 — lncRNA, 2261 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 34 — 34 lncRNA

ENST00000586185, ENST00000590023, ENST00000591384, ENST00000647847, ENST00000647878, ENST00000647919, ENST00000647957, ENST00000647961, ENST00000648052, ENST00000648396, ENST00000648404, ENST00000648562, ENST00000648757, ENST00000649349, ENST00000649418, ENST00000649477, ENST00000649700, ENST00000649791, ENST00000649880, ENST00000650214, ENST00000650316, ENST00000650475, ENST00000650520, ENST00000650625, ENST00000652831, ENST00000663352, ENST00000664798, ENST00000665544, ENST00000665836, ENST00000666340, ENST00000666453, ENST00000667424, ENST00000669040, ENST00000669841

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000586185 — 5 exons

Exon	Start	End
ENSE00002766153	78630032	78630280
ENSE00002833567	78624192	78624315
ENSE00002844860	78617393	78619044
ENSE00002888290	78627918	78628035
ENSE00002974948	78631949	78632051

Expression profiles

Bgee: expression breadth ubiquitous, 140 present calls, max score 80.65.

FANTOM5 (CAGE): breadth broad, TPM avg 0.5712 / max 27.7936, expressed in 245 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
168439	0.4738	222
208393	0.0691	45
168440	0.0282	9

Top tissues by expression

229 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	80.65	gold quality
bone marrow cell	CL:0002092	68.70	silver quality
calcaneal tendon	UBERON:0003701	68.33	gold quality
sural nerve	UBERON:0015488	66.05	silver quality
vermiform appendix	UBERON:0001154	63.52	gold quality
smooth muscle tissue	UBERON:0001135	62.51	gold quality
granulocyte	CL:0000094	61.25	gold quality
leukocyte	CL:0000738	60.24	gold quality
lymph node	UBERON:0000029	60.09	gold quality
monocyte	CL:0000576	59.96	gold quality
caecum	UBERON:0001153	58.44	gold quality
ganglionic eminence	UBERON:0004023	57.19	silver quality
blood	UBERON:0000178	56.43	gold quality
tonsil	UBERON:0002372	55.30	gold quality
right lung	UBERON:0002167	55.21	gold quality
tendon	UBERON:0000043	55.11	gold quality
upper lobe of left lung	UBERON:0008952	53.73	gold quality
upper lobe of lung	UBERON:0008948	52.94	gold quality
spleen	UBERON:0002106	52.91	gold quality
hindlimb stylopod muscle	UBERON:0004252	52.84	silver quality
gall bladder	UBERON:0002110	52.64	gold quality
sperm	CL:0000019	51.98	gold quality
nasal cavity epithelium	UBERON:0005384	51.92	gold quality
muscle of leg	UBERON:0001383	50.99	gold quality
lower esophagus mucosa	UBERON:0035834	50.51	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	50.26	gold quality
testis	UBERON:0000473	50.12	gold quality
lung	UBERON:0002048	49.80	gold quality
small intestine Peyer’s patch	UBERON:0003454	49.79	gold quality
islet of Langerhans	UBERON:0000006	49.73	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	3.04

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.