SPATA41

Summary

SPATA41 (spermatogenesis associated 41, HGNC:48613) is a long non-coding RNA gene on chromosome 15q26.3.

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:48613
Approved symbol	SPATA41
Name	spermatogenesis associated 41
Location	15q26.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	FLJ42289, HSD47
Ensembl gene	ENSG00000189419
Ensembl biotype	lncRNA
Entrez	388182
RNAcentral	URS000075C600 — lncRNA, 3176 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 8 lncRNA

ENST00000558307, ENST00000560282, ENST00000647665, ENST00000662214, ENST00000729637, ENST00000729638, ENST00000729639, ENST00000729640

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000558307 — 2 exons

Exon	Start	End
ENSE00002551754	100344457	100345627
ENSE00003463877	100349308	100349388

Expression profiles

Bgee: expression breadth ubiquitous, 149 present calls, max score 88.21.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0746 / max 14.3536, expressed in 28 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
151785	0.0746	28

Top tissues by expression

239 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	88.21	gold quality
right lobe of liver	UBERON:0001114	75.22	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	72.13	gold quality
gastrocnemius	UBERON:0001388	68.94	gold quality
right testis	UBERON:0004534	68.72	gold quality
left testis	UBERON:0004533	68.70	gold quality
muscle of leg	UBERON:0001383	67.63	gold quality
testis	UBERON:0000473	67.09	gold quality
hindlimb stylopod muscle	UBERON:0004252	66.47	gold quality
lower esophagus mucosa	UBERON:0035834	65.79	gold quality
right ovary	UBERON:0002118	64.73	gold quality
left ovary	UBERON:0002119	63.47	gold quality
Brodmann (1909) area 9	UBERON:0013540	63.12	gold quality
right frontal lobe	UBERON:0002810	62.75	gold quality
anterior cingulate cortex	UBERON:0009835	62.73	gold quality
ventricular zone	UBERON:0003053	62.27	gold quality
cerebellar hemisphere	UBERON:0002245	62.20	gold quality
cerebellar cortex	UBERON:0002129	62.10	gold quality
right hemisphere of cerebellum	UBERON:0014890	62.05	gold quality
prefrontal cortex	UBERON:0000451	61.78	gold quality
liver	UBERON:0002107	61.41	gold quality
left uterine tube	UBERON:0001303	61.28	gold quality
mucosa of stomach	UBERON:0001199	60.88	gold quality
amygdala	UBERON:0001876	60.69	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	60.64	gold quality
ovary	UBERON:0000992	60.56	gold quality
cerebellum	UBERON:0002037	60.53	gold quality
body of uterus	UBERON:0009853	60.31	gold quality
apex of heart	UBERON:0002098	59.69	gold quality
body of pancreas	UBERON:0001150	59.38	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.68

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.