Snord4a (small nucleolar RNA, C/D box 4A) - Rat Genome Database

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Gene: Snord4a (small nucleolar RNA, C/D box 4A) Mus musculus
Analyze
Symbol: Snord4a
Name: small nucleolar RNA, C/D box 4A
RGD ID: 2302461
MGI Page MGI
Description: INTERACTS WITH trovafloxacin; (-)-epigallocatechin 3-gallate (ortholog); cisplatin (ortholog)
Type: snorna
RefSeq Status: PROVISIONAL
RGD Orthologs
Human
Rat
Dog
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,072,513 - 78,072,582 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,072,512 - 78,072,582 (-)EnsemblGRCm39 Ensembl
GRCm381178,181,687 - 78,181,756 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,181,686 - 78,181,756 (-)EnsemblGRCm38mm10GRCm38
MGSCv371177,995,189 - 77,995,258 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1185,681,560 - 85,681,629 (-)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
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

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

Genomics

Comparative Map Data
Snord4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,072,513 - 78,072,582 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,072,512 - 78,072,582 (-)EnsemblGRCm39 Ensembl
GRCm381178,181,687 - 78,181,756 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,181,686 - 78,181,756 (-)EnsemblGRCm38mm10GRCm38
MGSCv371177,995,189 - 77,995,258 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1185,681,560 - 85,681,629 (-)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
SNORD4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381728,722,582 - 28,722,653 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1728,722,582 - 28,722,653 (+)EnsemblGRCh38hg38GRCh38
GRCh371727,049,600 - 27,049,671 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361724,073,727 - 24,073,798 (+)NCBINCBI36Build 36hg18NCBI36
Celera1723,908,763 - 23,908,834 (+)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1723,258,498 - 23,258,569 (+)NCBIHuRef
CHM1_11727,112,070 - 27,112,141 (+)NCBICHM1_1
T2T-CHM13v2.01729,665,389 - 29,665,460 (+)NCBIT2T-CHM13v2.0
Snord4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81063,575,491 - 63,575,561 (-)NCBIGRCr8
mRatBN7.21063,077,419 - 63,077,489 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1063,077,419 - 63,077,489 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl1065,442,054 - 65,442,124 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map10q25NCBI
LOC119873486
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha942,073,323 - 42,073,394 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0943,735,731 - 43,735,802 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1942,518,886 - 42,518,957 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0942,811,105 - 42,811,176 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0942,889,409 - 42,889,480 (+)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in Snord4a
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:149
Count of miRNA genes:137
Interacting mature miRNAs:147
Transcripts:ENSMUST00000104437
Prediction methods:Miranda, Rnahybrid, Targetscan
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
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117220979684731462Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
12903994Opfaq3_mopen field activity QTL 3 (mouse)117373754182069425Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
4141365Ltxs3_mlethal factor toxin susceptibility 3 (mouse)Not determined117757387380746358Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117757387399377820Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000104437
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,072,512 - 78,072,582 (-)Ensembl
GRCm38.p6 Ensembl1178,181,686 - 78,181,756 (-)Ensembl
RefSeq Acc Id: NR_030702
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,072,513 - 78,072,582 (-)NCBI
GRCm381178,181,687 - 78,181,756 (-)ENTREZGENE
MGSCv371177,995,189 - 77,995,258 (-)RGD
Celera1185,681,560 - 85,681,629 (-)RGD
cM Map11 ENTREZGENE
Sequence:

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000077625 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000104437 ENTREZGENE
MGD MGI:3819540 ENTREZGENE
NCBI Gene 100216539 ENTREZGENE
PhenoGen Snord4a PhenoGen
RNAcentral URS000075C88E RNACentral