Snhg9 (small nucleolar RNA host gene 9) - Rat Genome Database

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Gene: Snhg9 (small nucleolar RNA host gene 9) Mus musculus
Analyze
Symbol: Snhg9
Name: small nucleolar RNA host gene 9
RGD ID: 1610802
MGI Page MGI
Description: Orthologous to human SNHG9 (small nucleolar RNA host gene 9).
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: 1700072N11Rik
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,938,505 - 24,938,939 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,938,496 - 24,938,961 (-)EnsemblGRCm39 Ensembl
GRCm381724,719,531 - 24,719,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,719,531 - 24,719,965 (-)EnsemblGRCm38mm10GRCm38
MGSCv371724,856,476 - 24,856,910 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1725,242,658 - 25,243,092 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.51NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

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:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12904583   PMID:15741177   PMID:16141072   PMID:16141073   PMID:18799693   PMID:24316575   PMID:37616368  
PMID:37851112  


Genomics

Comparative Map Data
Snhg9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,938,505 - 24,938,939 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,938,496 - 24,938,961 (-)EnsemblGRCm39 Ensembl
GRCm381724,719,531 - 24,719,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,719,531 - 24,719,965 (-)EnsemblGRCm38mm10GRCm38
MGSCv371724,856,476 - 24,856,910 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1725,242,658 - 25,243,092 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.51NCBI
SNHG9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38161,964,996 - 1,965,504 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl161,964,895 - 1,965,509 (+)EnsemblGRCh38hg38GRCh38
GRCh37162,014,997 - 2,015,505 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36161,954,998 - 1,955,506 (+)NCBINCBI36Build 36hg18NCBI36
Celera162,227,179 - 2,227,687 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef161,939,124 - 1,939,632 (+)NCBIHuRef
CHM1_1162,014,943 - 2,015,451 (+)NCBICHM1_1
T2T-CHM13v2.0161,984,955 - 1,985,463 (+)NCBIT2T-CHM13v2.0

Variants

.
Variants in Snhg9
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:137
Count of miRNA genes:132
Interacting mature miRNAs:135
Transcripts:ENSMUST00000161706
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
1357902Obq19_mobesity QTL 19 (mouse)Not determined17125662076Mouse
12910982Pifs2_mpeptide-induced fatal syndrome 2 (mouse)17126189355Mouse
1357743Lith3_mlithogenic gene 3 (mouse)Not determined17126194456Mouse
1301615Cfld3_mcystic fibrosis lung disease 3 (mouse)Not determined17127081639Mouse
1300613Pcyts4_mplasmacytoma susceptibility 4 (mouse)Not determined17127081639Mouse
1302100Circp2_mcircadian photosensitivity 2 (mouse)Not determined17129198453Mouse
12910527Nrq1a_mnoise-induced hearing loss resistant QTL 1a (mouse)17129198453Mouse
12910528Nrq1_mnoise-induced hearing loss resistant QTL 1 (mouse)17129198453Mouse
13524851Asrq8_macoustic startle response 8 (mouse)17131030170Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1357680Idd23_minsulin dependent diabetes susceptibility 23 (mouse)Not determined17397489026401133Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
1301327Lmr7_mleishmaniasis resistance 7 (mouse)Not determined17485475227715939Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17689393640893936Mouse
4141608Phl1_mprogressive hearing loss 1 (mouse)Not determined17787584329487423Mouse
1301935Skull24_mskull morphology 24 (mouse)Not determined17858491442585149Mouse
1300787Cd8mts5_mCD8 memory T cell subset 5 (mouse)Not determined17858491442585149Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined171008134086996400Mouse
1302028Asbb3_mautoimmune susceptibility in C57BL/6J and BALB/c 3 (mouse)Not determined171087811944878219Mouse
4142342Lfnq4_mlung function QTL 4 (mouse)Not determined1120648439364059Mouse
4141067Hbnr2_mHeligmosomoides bakeri nematode resistance 2 (mouse)Not determined1188597145886119Mouse
14747010Mancz14_mmandible centroid size 14 (mouse)171199818445998184Mouse
4142507Obrq13_mobesity resistance QTL 13 (mouse)Not determined1219832925076769Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171228621183361768Mouse
12904946Tammq8_mtibialis anterior muscle mass QTL 8 (mouse)171245178746451787Mouse
1558807Ceat1_mchronic experimental autoimmune thyroiditis 1 (mouse)Not determined171263668226401133Mouse
13524847Asrq8a_macoustic startle response 8a (mouse)171264696146646961Mouse
11081168Tir7_mtrypanosome infection response 7 (mouse)171412337248123496Mouse
1300995Fembrs4_mfemur breaking strength 4 (mouse)Not determined171506165249061760Mouse
1300914Pcir4_mperiosteal circumference 4 (mouse)Not determined171506165249061760Mouse
1302070Tbbmd7_mtotal body bone mineral density 7 (mouse)Not determined171506165249061760Mouse
1558886Lgth9_mbody length 9 (mouse)Not determined171506165249061760Mouse
1302140Wta4_mweight adult 4 (mouse)Not determined171681972150819843Mouse
1302152Skull25_mskull morphology 25 (mouse)Not determined171681972150819843Mouse
1302038Radpf1_mradiation pulmonary fibrosis 1 (mouse)Not determined171683545533819843Mouse
10412083Sm2_msusceptibility to Schistosoma mansoni infection 2 (mouse)Not determined171702994351030078Mouse
13452396Leusq3_mleucocytosis susceptibility QTL 3 (mouse)171746220851462345Mouse
13452399Leusq6_mleucocytosis susceptibility QTL 6 (mouse)171746220851462345Mouse
10412214Sxbq3_mSGC/Knj cross B6 QTL 3 (mouse)Not determined171746220851462345Mouse
1300535Char3_mP. chabaudi malaria resistance QTL 3 (mouse)Not determined171746220851462345Mouse
1301840Ssial4_msusceptibility to sialadenitiss 4 (mouse)Not determined171817541252178214Mouse
1301331Lbw1_mlupus NZB x NZW 1 (mouse)Not determined171841835752420983Mouse
1301056Pas2_mpulmonary adenoma susceptibility 2 (mouse)Not determined171842214152424327Mouse
15039354Nmrs36_mNAFLD-associated magnetic resonance shift 36 (mouse)171914502553145025Mouse
12910769Rtmq1_mrenal tumor modifier QTL 1 (mouse)172290003625721472Mouse
1301454Eae5_msusceptibility to experimental allergic encephalomyelitis 5 (mouse)Not determined172461275058612864Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000161706
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,938,496 - 24,938,961 (-)Ensembl
GRCm38.p6 Ensembl1724,719,531 - 24,719,965 (-)Ensembl
RefSeq Acc Id: NR_027900
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,938,505 - 24,938,939 (-)NCBI
GRCm381724,719,531 - 24,719,965 (-)ENTREZGENE
MGSCv371724,856,476 - 24,856,910 (-)RGD
Celera1725,242,658 - 25,243,092 (-)RGD
cM Map17 ENTREZGENE
Sequence:
Promoters
RGD ID:13675066
Promoter ID:EPDNEW_M21682
Type:multiple initiation site
Name:Snhg9_1
Description:Mus musculus small nucleolar RNA host gene 9 , long non-codingRNA.
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
GRCm381724,719,902 - 24,719,962EPDNEW
RGD ID:15094781
Promoter ID:EPDNEWNC_M2697
Type:initiation region
Name:Snhg9_1
Description:small nucleolar RNA host gene 9 [Source:MGISymbol;Acc:MGI:1920724]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381724,719,929 - 24,719,989EPDNEWNC

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1920724 AgrOrtholog
Ensembl Genes ENSMUSG00000090101 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000161706 ENTREZGENE
MGD MGI:1920724 ENTREZGENE
NCBI Gene 73474 ENTREZGENE
PhenoGen Snhg9 PhenoGen
RNAcentral URS000075BA92 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-03-26 Snhg9  small nucleolar RNA host gene 9    small nucleolar RNA host gene (non-protein coding) 9  Symbol and/or name change 5135510 APPROVED