SCHLAP1

Summary

SCHLAP1 (SWI/SNF complex antagonist associated with prostate cancer 1, HGNC:48603) is a long non-coding RNA gene on chromosome 2q31.3.

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:48603
Approved symbol	SCHLAP1
Name	SWI/SNF complex antagonist associated with prostate cancer 1
Location	2q31.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	PCAT11
Ensembl gene	ENSG00000281131
Ensembl biotype	lncRNA
OMIM	615568
Entrez	101669767
RNAcentral	URS0000150780 — lncRNA, 1574 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 3 lncRNA

ENST00000629145, ENST00000782824, ENST00000782825

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000629145 — 5 exons

Exon	Start	End
ENSE00003761259	180916273	180916939
ENSE00003762670	180692104	180692441
ENSE00003764290	180899650	180899718
ENSE00003764915	180724596	180724690
ENSE00003773274	180827241	180827507

Expression profiles

Bgee: expression breadth broad, 88 present calls, max score 61.26.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 1.8346 / max 148.7932, expressed in 102 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
23960	1.8346	102

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
ventricular zone	UBERON:0003053	61.26	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	60.25	gold quality
cortical plate	UBERON:0005343	59.23	silver quality
monocyte	CL:0000576	57.94	gold quality
urinary bladder	UBERON:0001255	57.70	gold quality
ganglionic eminence	UBERON:0004023	56.37	silver quality
hindlimb stylopod muscle	UBERON:0004252	56.19	silver quality
stromal cell of endometrium	CL:0002255	53.35	silver quality
ectocervix	UBERON:0012249	51.29	gold quality
uterine cervix	UBERON:0000002	50.75	gold quality
prefrontal cortex	UBERON:0000451	50.41	gold quality
liver	UBERON:0002107	50.40	silver quality
prostate gland	UBERON:0002367	49.90	gold quality
islet of Langerhans	UBERON:0000006	49.78	silver quality
superior frontal gyrus	UBERON:0002661	49.65	gold quality
right lobe of liver	UBERON:0001114	48.92	silver quality
lymph node	UBERON:0000029	48.66	silver quality
blood	UBERON:0000178	48.62	silver quality
vagina	UBERON:0000996	47.18	gold quality
muscle of leg	UBERON:0001383	47.10	silver quality
frontal cortex	UBERON:0001870	46.75	gold quality
gastrocnemius	UBERON:0001388	46.16	silver quality
primary visual cortex	UBERON:0002436	45.27	silver quality
kidney	UBERON:0002113	45.04	gold quality
Brodmann (1909) area 9	UBERON:0013540	44.79	silver quality
cerebral cortex	UBERON:0000956	44.15	silver quality
adult mammalian kidney	UBERON:0000082	44.10	gold quality
tibial artery	UBERON:0007610	44.10	silver quality
myometrium	UBERON:0001296	44.01	gold quality
left ovary	UBERON:0002119	43.88	gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-CURD-119	yes	43.91
E-HCAD-30	no	473.01
E-ANND-3	no	2.69

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 11)

• SChLAP1 contributes to the development of lethal cancer at least in part by antagonizing the tumor-suppressive functions of the SWI/SNF complex. (PMID:24076601)
• Overexpression of SChLAP1 is associated with metastatic progression in prostate cancer. (PMID:25456366)
• We examined expression of the RNA molecule SChLAP1 in a large group of prostate cancer patients with long-term follow-up and found that patients with high SChLAP1 expression had a significantly higher chance of developing lethal disease. (PMID:26724257)
• In summary, SChLAP1 plays a tumor promoter role in bladder cancer. (PMID:26861061)
• Genomic instability and SChLAP1 dysregulation underpin aggression of intraductal and cribriform subpathologies. (PMID:28511883)
• SCHLAP1 may function in a SWI/SNF-independent manner. (PMID:30510238)
• SChLAP1 promotes prostate cancer development through interacting with EZH2 to mediate promoter methylation modification of multiple miRNAs of chromosome 5 with a DNMT3a-feedback loop. (PMID:33589600)
• Long noncoding RNA SChLAP1 regulates the proliferation of triple negative breast cancer cells via the miR5245p/HMGA2 axis. (PMID:33846810)
• SChLAP1 contributes to non-small cell lung cancer cell progression and immune evasion through regulating the AUF1/PD-L1 axis. (PMID:33904361)
• High expression of SCHLAP1 in primary prostate cancer is an independent predictor of biochemical recurrence, despite substantial heterogeneity. (PMID:34107378)
• Expression and clinical significance of lncRNA-SChLAP1 in breast cancer. (PMID:34268927)

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.