Rny1 (RNA, Y1 small cytoplasmic, Ro-associated) - Rat Genome Database

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Gene: Rny1 (RNA, Y1 small cytoplasmic, Ro-associated) Mus musculus
Analyze
Symbol: Rny1
Name: RNA, Y1 small cytoplasmic, Ro-associated
RGD ID: 1612341
MGI Page MGI
Description: Predicted to act upstream of or within DNA replication initiation and nuclear DNA replication. Orthologous to human RNY1 (RNA, Ro60-associated Y1).
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: PROVISIONAL
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39647,765,004 - 47,765,114 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl647,765,003 - 47,765,114 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl647,765,004 - 47,765,114 (-)EnsemblGRCm39 Ensembl
GRCm38647,788,070 - 47,788,180 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl647,788,069 - 47,788,180 (-)EnsemblGRCm38mm10GRCm38
MGSCv37647,738,069 - 47,738,179 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera648,320,845 - 48,320,955 (-)NCBICelera
Cytogenetic Map6B2.3NCBI
cM Map622.94NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:2473445   PMID:8863726   PMID:9721221   PMID:19657016  


Genomics

Comparative Map Data
Rny1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39647,765,004 - 47,765,114 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl647,765,003 - 47,765,114 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl647,765,004 - 47,765,114 (-)EnsemblGRCm39 Ensembl
GRCm38647,788,070 - 47,788,180 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl647,788,069 - 47,788,180 (-)EnsemblGRCm38mm10GRCm38
MGSCv37647,738,069 - 47,738,179 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera648,320,845 - 48,320,955 (-)NCBICelera
Cytogenetic Map6B2.3NCBI
cM Map622.94NCBI
RNY1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387148,987,136 - 148,987,248 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7148,987,136 - 148,987,248 (-)EnsemblGRCh38hg38GRCh38
GRCh377148,684,228 - 148,684,340 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367148,684,228 - 148,684,340 (-)NCBINCBI36Build 36hg18NCBI36
Celera7143,355,070 - 143,355,182 (-)NCBICelera
Cytogenetic Map7q36.1NCBI
HuRef7142,763,066 - 142,763,178 (-)NCBIHuRef
CHM1_17148,692,625 - 148,692,737 (-)NCBICHM1_1
T2T-CHM13v2.07150,169,312 - 150,169,424 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27148,022,614 - 148,022,726 (-)NCBI

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:59
Interacting mature miRNAs:59
Transcripts:ENSMUST00000083767
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
1301266Lmr4_mleishmaniasis resistance 4 (mouse)Not determined64209335876093500Mouse
4140989Spqq2_msperm quality QTL 2 (mouse)Not determined1771159851711719Mouse
12910785Pwgrq16_mpost-weaning growth rate QTL 16 (mouse)64380374777788506Mouse
11252142Mom12_mModifier of Min 12 (mouse)63387226167872400Mouse
12910798Pwgrq5_mpre-weaning growth rate QTL 5 (mouse)64380374777788506Mouse
1300767Aliq4_macute lung injury QTL 4 (mouse)Not determined63627333270273435Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
14746995Manh60_mmandible shape 60 (mouse)63720266271202662Mouse
12910807Pwbwq11_mpost-weaning body weight QTL 11 (mouse)64380374777788506Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414773364675Mouse
12910802Pwbwq12_mpost-weaning body weight QTL 12 (mouse)64380374777788506Mouse
4141094Hrtr1_mheart rate 1 (mouse)Not determined3674146370741463Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64529099387403016Mouse
4141988Obrq3_mobesity resistance QTL 3 (mouse)Not determined2829099362291115Mouse
12910809Pwbwq10_mpost-weaning body weight QTL 10 (mouse)64380374777788506Mouse
12910820Ogrq3_moverall growth rate QTL 3 (mouse)64380374777788506Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
12904940Edlmmq5_mextensor digitorum longus muscle mass QTL 5 (mouse)61961634653616346Mouse
12904943Tammq4_mtibialis anterior muscle mass QTL 4 (mouse)61961634653616346Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268571299759Mouse
4141454Obrq4_mobesity resistance QTL 4 (mouse)Not determined3170349965703611Mouse
12904952Gmmq4_mgastrocnemius muscle mass QTL 4 (mouse)61961634653616346Mouse
1357481Aaj2_manxiety in A/J 2 (mouse)Not determined6450382348703611Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62499999979976983Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080576983Mouse
1357520Axtq2_manxiety QTL 2 (mouse)Not determined6450382348703611Mouse
1301850Fglu_mfasting glucose (mouse)Not determined61771159851711719Mouse
1300959Lxw2_mlupus BXSB x NZW 2 (mouse)Not determined63387226167872400Mouse
1301724Pcd4ts1_mp-glycoprotein positive CD4 T cell subset 1 (mouse)Not determined61771159851711719Mouse
10412107Desp4_mdespair 4 (mouse)Not determined62004983054049830Mouse
11353841Bmiq3_mbody mass index QTL 3 (mouse)6450382348703611Mouse
1301326Trbv4c2_mT cell receptor beta variable 4 (mouse)Not determined64086823071356155Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63864656092584431Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
4141782Mrdq5_mmodifier of retinal degeneration QTL 5 (mouse)Not determined3282758578215957Mouse
12880424V25Dq4_mvitamin D inactive form serum level QTL 4 (mouse)64157698575576985Mouse
12880425V25Dq5_mvitamin D inactive form serum level QTL 5 (mouse)63267698066676980Mouse
11040600Lmr4c_mleishmaniasis resistance 4c (mouse)64209335876093500Mouse
11040601Lmr4a_mleishmaniasis resistance 4a (mouse)64209335876093500Mouse
14700690Ccs6_mcolon cancer susceptibility 6 (mouse)62377693457776934Mouse
11533915Mts4_mmammary tumor susceptibility 4 (mouse)64209335876093500Mouse
10043885Cia6c_mcollagen induced arthritis QTL 6c (mouse)Not determined64444280571096451Mouse
1357539Bsbob3_mBSB obesity 3 (mouse)Not determined63644845670448576Mouse
27226726Tibmd7_mtibia midshaft diameter 7, 16 week (mouse)61769999953476985Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000083767
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl647,765,003 - 47,765,114 (-)Ensembl
GRCm38.p6 Ensembl647,788,069 - 47,788,180 (-)Ensembl
Ensembl Acc Id: ENSMUST00000345119
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl647,765,004 - 47,765,114 (-)Ensembl
RefSeq Acc Id: NR_004419
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39647,765,004 - 47,765,114 (-)NCBI
GRCm38647,788,070 - 47,788,180 (-)ENTREZGENE
MGSCv37647,738,069 - 47,738,179 (-)RGD
Celera648,320,845 - 48,320,955 (-)RGD
cM Map6 ENTREZGENE
Sequence:
Promoters
RGD ID:6889568
Promoter ID:EPDNEW_M8235
Type:multiple initiation site
Name:Rny1_1
Description:Mus musculus RNA, Y1 small cytoplasmic, Ro-associated , Y RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38647,788,179 - 47,788,239EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:97995 AgrOrtholog
Ensembl Genes ENSMUSG00000065701 Ensembl
  ENSMUSG00000138036 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000345119 ENTREZGENE
MGD MGI:97995 ENTREZGENE
NCBI Gene 19872 ENTREZGENE
PhenoGen Rny1 PhenoGen
RNAcentral URS000047A291 RNACentral