RNY3

Summary

RNY3 (RNA, Ro60-associated Y3, HGNC:10243) is a non-coding RNA gene on chromosome 7q36.1.

Predicted to act upstream of or within DNA replication initiation and nuclear DNA replication.

Source: NCBI Gene 6085 — RefSeq curated summary.

At a glance

• Gene type: non-coding (misc_RNA) — 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:10243
Approved symbol	RNY3
Name	RNA, Ro60-associated Y3
Location	7q36.1
Locus type	RNA, Y
Status	Approved
Aliases	hY3
Ensembl gene	ENSG00000202354
Ensembl biotype	misc_RNA
OMIM	601822
Entrez	6085
RNAcentral	URS00005CF03F — ncRNA, 102 nt, 21 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 misc_RNA

ENST00000365484

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000365484 — 1 exons

Exon	Start	End
ENSE00001809248	148983755	148983856

Expression profiles

Bgee: expression breadth ubiquitous, 115 present calls, max score 99.89.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
adrenal tissue	UBERON:0018303	99.89	gold quality
sural nerve	UBERON:0015488	99.62	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	90.32	gold quality
endometrium	UBERON:0001295	89.07	gold quality
calcaneal tendon	UBERON:0003701	84.46	gold quality
mucosa of stomach	UBERON:0001199	84.04	gold quality
liver	UBERON:0002107	83.06	gold quality
blood	UBERON:0000178	82.20	gold quality
prostate gland	UBERON:0002367	81.27	gold quality
bone marrow	UBERON:0002371	81.26	gold quality
skeletal muscle tissue	UBERON:0001134	80.74	gold quality
right coronary artery	UBERON:0001625	80.72	gold quality
monocyte	CL:0000576	80.63	gold quality
prefrontal cortex	UBERON:0000451	79.92	gold quality
left testis	UBERON:0004533	79.02	gold quality
testis	UBERON:0000473	78.99	gold quality
body of pancreas	UBERON:0001150	78.20	gold quality
stomach	UBERON:0000945	78.14	gold quality
left ovary	UBERON:0002119	77.80	gold quality
kidney	UBERON:0002113	77.68	gold quality
endocervix	UBERON:0000458	77.49	gold quality
pancreas	UBERON:0001264	77.39	gold quality
apex of heart	UBERON:0002098	77.27	gold quality
ovary	UBERON:0000992	76.92	gold quality
right lobe of thyroid gland	UBERON:0001119	76.88	gold quality
vermiform appendix	UBERON:0001154	76.84	gold quality
saliva-secreting gland	UBERON:0001044	76.83	gold quality
minor salivary gland	UBERON:0001830	76.71	gold quality
adrenal gland	UBERON:0002369	76.59	gold quality
right testis	UBERON:0004534	76.56	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.52

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 4)

• the Y3** ncRNA promotes the 3’ end processing of histone pre-mRNAs by enhancing the recruitment of the CPSF to histone pre-mRNAs at HLBs. (PMID:26443846)
• low expression of RNY1, RNY3 and RNY4 was associated with muscle-invasive BCA, lymph node metastases and advanced grade. Furthermore, expression of RNY1 and RNY3 was predictive for BCA patients’ overall (also RNY4) and cancer-specific survival as estimated using Kaplan-Meier and univariate (but not multivariate) Cox regression analyses. (PMID:29126388)
• yRNA3 up-regulation in cultured dermal fibroblasts and yRNA4 down-regulation in the sera of scleroderma patients. (PMID:33516635)
• RNY3 modulates cell proliferation and IL13 mRNA levels in a T lymphocyte model: a possible new epigenetic mechanism of IL-13 regulation. (PMID:36089628)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Rny3	ENSMUSG00000064945
rattus_norvegicus	Y_RNA	ENSRNOG00000056608

Paralogs (813): Y_RNA (ENSG00000195401), Y_RNA (ENSG00000199200), Y_RNA (ENSG00000199201), Y_RNA (ENSG00000199203), Y_RNA (ENSG00000199204), Y_RNA (ENSG00000199220), Y_RNA (ENSG00000199222), Y_RNA (ENSG00000199223), Y_RNA (ENSG00000199224), Y_RNA (ENSG00000199241), Y_RNA (ENSG00000199245), Y_RNA (ENSG00000199263), Y_RNA (ENSG00000199273), Y_RNA (ENSG00000199285), Y_RNA (ENSG00000199290), Y_RNA (ENSG00000199291), Y_RNA (ENSG00000199303), Y_RNA (ENSG00000199331), Y_RNA (ENSG00000199332), Y_RNA (ENSG00000199349), Y_RNA (ENSG00000199357), Y_RNA (ENSG00000199362), Y_RNA (ENSG00000199366), Y_RNA (ENSG00000199378), Y_RNA (ENSG00000199398), RNY4P19 (ENSG00000199400), Y_RNA (ENSG00000199409), Y_RNA (ENSG00000199410), Y_RNA (ENSG00000199424), Y_RNA (ENSG00000199440), Y_RNA (ENSG00000199442), Y_RNA (ENSG00000199444), Y_RNA (ENSG00000199459), Y_RNA (ENSG00000199461), Y_RNA (ENSG00000199466), Y_RNA (ENSG00000199471), Y_RNA (ENSG00000199472), Y_RNA (ENSG00000199476), Y_RNA (ENSG00000199487), Y_RNA (ENSG00000199490)

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.