RN7SL3

Summary

RN7SL3 (RNA component of signal recognition particle 7SL3, HGNC:23135) is a non-coding RNA gene on chromosome 14q21.3.

The signal recognition particle (SRP) is a cytoplasmic ribonucleoprotein complex that mediates cotranslational insertion of secretory proteins into the lumen of the endoplasmic reticulum. The SRP consists of 6 polypeptides (e.g., SRP19; MIM 182175) and a 7SL RNA molecule, such as RN7SL3, that is partially homologous to Alu DNA (Ullu and Weiner, 1984 [PubMed 6084597]).

Source: NCBI Gene 378707 — RefSeq curated summary.

At a glance

• Gene type: non-coding (misc_RNA) — no protein product.
• GTEx eGene: eQTL in 2 tissues, sQTL in 0 (q < 0.05)

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:23135
Approved symbol	RN7SL3
Name	RNA component of signal recognition particle 7SL3
Location	14q21.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	7L30.2, RNSRP3
Ensembl gene	ENSG00000278771
Ensembl biotype	misc_RNA
OMIM	612180
Entrez	378707
RNAcentral	URS0000A8D543 — ncRNA, 299 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 misc_RNA

ENST00000610674

RefSeq mRNA: 0

Canonical transcript exons

ENST00000610674 — 1 exons

Exon	Start	End
ENSE00003736104	49853616	49853914

Expression profiles

Bgee: expression breadth ubiquitous, 125 present calls, max score 99.95.

Highest expression (Bgee): corpus callosum, colonic epithelium, adrenal tissue, bone marrow cell, urinary bladder.

Genetic regulation across tissues (GTEx eQTL / sQTL)

RN7SL3 is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 2 tissues and its splicing (sQTL) in 0 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

2 significant tissue × QTL associations:

Tissue	QTL	q-value	Slope	Lead variant
Brain Spinal cord cervical c-1	eqtl	2.3e-02	+1.33	14:49557653:C:T
Pituitary	eqtl	2.4e-02	+1.26	14:50166291:C:T

Top tissues by expression

showing 100 of 125 tissues by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
corpus callosum	UBERON:0002336	99.95	gold quality
colonic epithelium	UBERON:0000397	99.90	gold quality
adrenal tissue	UBERON:0018303	99.71	gold quality
bone marrow cell	CL:0002092	99.65	gold quality
urinary bladder	UBERON:0001255	99.59	gold quality
tonsil	UBERON:0002372	99.53	gold quality
sural nerve	UBERON:0015488	99.18	gold quality
calcaneal tendon	UBERON:0003701	93.46	gold quality
bone marrow	UBERON:0002371	90.63	gold quality
superior frontal gyrus	UBERON:0002661	90.37	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	89.98	gold quality
skeletal muscle tissue	UBERON:0001134	87.73	gold quality
primary visual cortex	UBERON:0002436	87.31	gold quality
muscle tissue	UBERON:0002385	84.63	gold quality
hindlimb stylopod muscle	UBERON:0004252	81.06	gold quality
liver	UBERON:0002107	78.82	gold quality
uterine cervix	UBERON:0000002	78.10	gold quality
Ammon’s horn	UBERON:0001954	74.92	gold quality
ventricular zone	UBERON:0003053	74.64	gold quality
monocyte	CL:0000576	74.25	gold quality
leukocyte	CL:0000738	73.82	gold quality
prefrontal cortex	UBERON:0000451	73.06	gold quality
kidney	UBERON:0002113	72.85	gold quality
substantia nigra	UBERON:0002038	72.65	gold quality
blood	UBERON:0000178	71.61	gold quality
cortical plate	UBERON:0005343	71.42	gold quality
lung	UBERON:0002048	70.39	gold quality
hypothalamus	UBERON:0001898	70.16	gold quality
frontal cortex	UBERON:0001870	69.73	gold quality
putamen	UBERON:0001874	69.54	gold quality
thoracic mammary gland	UBERON:0005200	69.38	gold quality
cerebral cortex	UBERON:0000956	68.60	gold quality
temporal lobe	UBERON:0001871	68.26	gold quality
myometrium	UBERON:0001296	68.11	gold quality
amygdala	UBERON:0001876	67.95	gold quality
adult mammalian kidney	UBERON:0000082	67.40	gold quality
stomach	UBERON:0000945	67.06	gold quality
adrenal gland	UBERON:0002369	66.91	gold quality
brain	UBERON:0000955	66.47	gold quality
lymph node	UBERON:0000029	65.76	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	65.41	gold quality
caudate nucleus	UBERON:0001873	65.39	gold quality
placenta	UBERON:0001987	65.28	gold quality
muscle of leg	UBERON:0001383	64.73	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	64.62	gold quality
anterior cingulate cortex	UBERON:0009835	64.58	gold quality
Brodmann (1909) area 9	UBERON:0013540	64.57	gold quality
mucosa of stomach	UBERON:0001199	64.48	gold quality
stromal cell of endometrium	CL:0002255	64.07	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	64.05	gold quality
cortex of kidney	UBERON:0001225	63.80	gold quality
islet of Langerhans	UBERON:0000006	63.63	gold quality
right frontal lobe	UBERON:0002810	63.24	gold quality
nucleus accumbens	UBERON:0001882	62.90	gold quality
cerebellum	UBERON:0002037	62.13	gold quality
right hemisphere of cerebellum	UBERON:0014890	62.11	gold quality
cerebellar cortex	UBERON:0002129	61.66	gold quality
left adrenal gland	UBERON:0001234	61.44	gold quality
pancreas	UBERON:0001264	61.38	gold quality
smooth muscle tissue	UBERON:0001135	61.29	gold quality
multicellular organism	UBERON:0000468	61.26	gold quality
right adrenal gland	UBERON:0001233	60.93	gold quality
cerebellar hemisphere	UBERON:0002245	60.64	gold quality
right adrenal gland cortex	UBERON:0035827	60.58	gold quality
left adrenal gland cortex	UBERON:0035825	60.14	gold quality
heart	UBERON:0000948	59.46	gold quality
endometrium	UBERON:0001295	58.95	gold quality
heart left ventricle	UBERON:0002084	58.92	gold quality
gastrocnemius	UBERON:0001388	58.81	gold quality
colon	UBERON:0001155	58.39	gold quality
right lobe of liver	UBERON:0001114	58.26	gold quality
intestine	UBERON:0000160	58.22	gold quality
mucosa of transverse colon	UBERON:0004991	56.70	gold quality
popliteal artery	UBERON:0002250	55.90	gold quality
tibial artery	UBERON:0007610	55.73	gold quality
ovary	UBERON:0000992	55.11	gold quality
vermiform appendix	UBERON:0001154	55.08	gold quality
esophagus	UBERON:0001043	54.91	gold quality
lower esophagus muscularis layer	UBERON:0035833	54.61	gold quality
lower esophagus	UBERON:0013473	54.55	gold quality
body of pancreas	UBERON:0001150	54.45	gold quality
small intestine	UBERON:0002108	54.31	gold quality
transverse colon	UBERON:0001157	53.79	gold quality
prostate gland	UBERON:0002367	53.78	gold quality
body of stomach	UBERON:0001161	53.75	gold quality
adenohypophysis	UBERON:0002196	53.74	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	53.71	gold quality
omental fat pad	UBERON:0010414	53.35	gold quality
thoracic aorta	UBERON:0001515	53.27	gold quality
left coronary artery	UBERON:0001626	53.13	gold quality
ascending aorta	UBERON:0001496	52.95	gold quality
descending thoracic aorta	UBERON:0002345	52.75	gold quality
fundus of stomach	UBERON:0001160	52.69	gold quality
adipose tissue	UBERON:0001013	52.57	gold quality
upper lobe of left lung	UBERON:0008952	52.21	gold quality
right atrium auricular region	UBERON:0006631	52.13	gold quality
esophagus mucosa	UBERON:0002469	51.81	gold quality
muscle layer of sigmoid colon	UBERON:0035805	51.81	gold quality
zone of skin	UBERON:0000014	51.74	gold quality
minor salivary gland	UBERON:0001830	51.68	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	3.73

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• RN7SL3 is a functional gene with two novelregiulatory sequences: a TATA box and intrnal A and B box-like motifs. (PMID:15667936)

Cross-species orthologs

0 orthologs

Paralogs (847): Metazoa_SRP (ENSG00000196274), Metazoa_SRP (ENSG00000197334), Metazoa_SRP (ENSG00000203286), Metazoa_SRP (ENSG00000203411), Metazoa_SRP (ENSG00000203436), Metazoa_SRP (ENSG00000203573), Metazoa_SRP (ENSG00000213167), Metazoa_SRP (ENSG00000214305), Metazoa_SRP (ENSG00000237261), Metazoa_SRP (ENSG00000237611), RN7SL499P (ENSG00000239202), RN7SL563P (ENSG00000239211), RN7SL442P (ENSG00000239221), RN7SL546P (ENSG00000239224), RN7SL578P (ENSG00000239228), RN7SL589P (ENSG00000239247), RN7SL757P (ENSG00000239249), RN7SL271P (ENSG00000239250), RN7SL184P (ENSG00000239279), RN7SL11P (ENSG00000239316), RN7SL854P (ENSG00000239319), RN7SL658P (ENSG00000239333), RN7SL309P (ENSG00000239356), RN7SL477P (ENSG00000239367), RN7SL87P (ENSG00000239390), RN7SL414P (ENSG00000239396), RN7SL342P (ENSG00000239398), RN7SL535P (ENSG00000239419), RN7SL752P (ENSG00000239437), RN7SL691P (ENSG00000239464), RN7SL552P (ENSG00000239466), RN7SL569P (ENSG00000239468), RN7SL584P (ENSG00000239471), RN7SL221P (ENSG00000239472), RN7SL333P (ENSG00000239494), RN7SL583P (ENSG00000239504), RN7SL399P (ENSG00000239542), RN7SL822P (ENSG00000239545), RN7SL843P (ENSG00000239547), RN7SL12P (ENSG00000239553), RN7SL841P (ENSG00000239555), RN7SL479P (ENSG00000239560), RN7SL388P (ENSG00000239577), RN7SL325P (ENSG00000239579), RN7SL675P (ENSG00000239580), RN7SL79P (ENSG00000239595), RN7SL573P (ENSG00000239607), RN7SL241P (ENSG00000239625), RN7SL62P (ENSG00000239640), RN7SL193P (ENSG00000239679), RN7SL668P (ENSG00000239690), RN7SL507P (ENSG00000239702), RN7SL568P (ENSG00000239703), RN7SL782P (ENSG00000239708), RN7SL692P (ENSG00000239710), RN7SL688P (ENSG00000239726), RN7SL825P (ENSG00000239731), RN7SL672P (ENSG00000239742), RN7SL63P (ENSG00000239744), RN7SL790P (ENSG00000239745)

+787 more (showing top 60).

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

Symbol	Type	Entrez
RN7SL2	scRNA	378706
ARF6	protein-coding	382
NEMF	protein-coding	9147
KLHDC1	protein-coding	122773
KLHDC2	protein-coding	23588
POLE2	protein-coding	5427

Protein

Non-coding RNA — no protein product.

Function

Gene-set membership (MSigDB)

This non-coding RNA is a member of 25 curated MSigDB gene sets — regulatory-target and signature collections that include it (it has no protein-based pathway / GO / interaction data).

GOBP_PROTEIN_TARGETING, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_ENDOPLASMIC_RETICULUM, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_ORGANELLE, GOBP_PROTEIN_TARGETING_TO_MEMBRANE, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_MEMBRANE, GOBP_LOCALIZATION_WITHIN_MEMBRANE, GOCC_RIBONUCLEOPROTEIN_COMPLEX, GOBP_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE, GOCC_SIGNAL_RECOGNITION_PARTICLE, FOXD2_TARGET_GENES, GUCY1B1_TARGET_GENES, NKX2_2_TARGET_GENES, TEAD2_TARGET_GENES, ZMYM2_TARGET_GENES, ZNF22_TARGET_GENES, ZNF768_TARGET_GENES, GOBP_SRP_DEPENDENT_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE_SIGNAL_SEQUENCE_RECOGNITION, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION, ZSCAN5DP_TARGET_GENES, ZNF549_TARGET_GENES, ZNF579_TARGET_GENES, WRNIP1_TARGET_GENES, GOBP_SRP_DEPENDENT_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE, GOBP_PROTEIN_CONTAINING_COMPLEX_ORGANIZATION, chr14q21

Non-coding RNA function

Functional annotation for the RNA itself (RNAcentral / Rfam), independent of any protein product.

Rfam family: Metazoan signal recognition particle RNA (RF00017)

Gene Ontology (Rfam-derived)

GO ID	Aspect	Term
GO:0005786	cellular component	signal recognition particle, endoplasmic reticulum targeting
GO:0006617	biological process	SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition

ncRNA interactions

Experimentally supported non-coding-RNA interaction partners (NPInter).

9 interaction partners:

Partner	Partner type	Level	Source
WDR33	protein	RNA-Protein	High-throughput data
CPSF7	protein	RNA-Protein	High-throughput data combine LncPro prediction
CPSF6	protein	RNA-Protein	High-throughput data combine LncPro prediction
CPSF5	protein	RNA-Protein	High-throughput data
FXR2	protein	RNA-Protein	High-throughput data combine LncPro prediction
Ataxin-2	protein	RNA-Protein	High-throughput data combine LncPro prediction
FUS	protein	RNA-Protein	High-throughput data combine LncPro prediction
TARBP2	protein	RNA-Protein	High-throughput data
hnRNPA2B1	protein	RNA-Protein	High-throughput data

Disease & clinical

ncRNA disease associations

Curated non-coding-RNA → disease associations (LncRNADisease, HMDD) — these are RNA-level associations for this gene, not the positional variant data omitted above.

1 ncRNA–disease associations:

Disease	Causal?	Validated by
Atrial Fibrillation	No	RNA-seq

Drugs & pharmacology

No curated drug or pharmacology associations for this gene.