Snord13 (small nucleolar RNA, C/D box 13) - Rat Genome Database

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Gene: Snord13 (small nucleolar RNA, C/D box 13) Mus musculus
Analyze
Symbol: Snord13
Name: small nucleolar RNA, C/D box 13
RGD ID: 2303929
MGI Page MGI
Description: INTERACTS WITH tetrachloromethane; doxorubicin (ortholog); hydrogen peroxide (ortholog)
Type: snorna
RefSeq Status: VALIDATED
Previously known as: 1810029E06Rik; hypothetical protein LOC76694; MBII-1; MBII-136; RIKEN cDNA 1810029E06 gene; uncharacterized protein LOC76694
RGD Orthologs
Human
Rat
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39831,639,889 - 31,639,986 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl831,639,892 - 31,639,995 (-)EnsemblGRCm39 Ensembl
GRCm38831,149,861 - 31,149,958 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl831,149,864 - 31,149,967 (-)EnsemblGRCm38mm10GRCm38
MGSCv37832,260,333 - 32,260,430 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera832,675,361 - 32,675,458 (-)NCBICelera
Cytogenetic Map8A3NCBI
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
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11387227   PMID:11424213   PMID:12466851   PMID:16141072   PMID:16141073  


Genomics

Comparative Map Data
Snord13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39831,639,889 - 31,639,986 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl831,639,892 - 31,639,995 (-)EnsemblGRCm39 Ensembl
GRCm38831,149,861 - 31,149,958 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl831,149,864 - 31,149,967 (-)EnsemblGRCm38mm10GRCm38
MGSCv37832,260,333 - 32,260,430 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera832,675,361 - 32,675,458 (-)NCBICelera
Cytogenetic Map8A3NCBI
SNORD13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38833,513,475 - 33,513,578 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl833,513,475 - 33,513,578 (+)EnsemblGRCh38hg38GRCh38
GRCh37833,370,993 - 33,371,096 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36833,490,535 - 33,490,638 (+)NCBINCBI36Build 36hg18NCBI36
Celera832,320,698 - 32,320,801 (+)NCBICelera
Cytogenetic Map8p12NCBI
HuRef831,903,039 - 31,903,142 (+)NCBIHuRef
CHM1_1833,572,448 - 33,572,551 (+)NCBICHM1_1
T2T-CHM13v2.0833,784,825 - 33,784,928 (+)NCBIT2T-CHM13v2.0
Snord13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81667,691,967 - 67,692,071 (+)NCBIGRCr8
mRatBN7.21660,988,909 - 60,989,013 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1660,988,909 - 60,989,013 (+)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map16q12.3NCBI
LOC119869674
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1631,685,645 - 31,685,747 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01633,187,928 - 33,188,030 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1633,187,928 - 33,188,030 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11631,284,084 - 31,284,186 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01631,863,164 - 31,863,266 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01631,901,971 - 31,902,073 (-)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in Snord13
6 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:103
Count of miRNA genes:101
Interacting mature miRNAs:103
Transcripts:ENSMUST00000157627
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
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
1301298Pgia4_mproteoglycan induced arthritis 4 (mouse)Not determined81656937350569697Mouse
1300912Daq19_mdirectional asymmetry QTL 19 (mouse)Not determined81550657249506729Mouse
13524525Bodwtq7_mbody wweight QTL 7 (mouse)82824955647027681Mouse
11532713Sluc42_msusceptibility to lung cancer 42 (mouse)81344721035321225Mouse
1300603Cd8ts2_mCD8 T cell subset 2 (mouse)Not determined81945501853455150Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse
1301532Scc8_mcolon tumor susceptibility 8 (mouse)Not determined8721249935110107Mouse
10412209Cypr7_mcytokine production 7 (mouse)Not determined8810320142103372Mouse
1301088Alcw6_malcohol withdrawal 6 (mouse)Not determined81550657249506729Mouse
1300906Ap8q_malcohol preference 8 QTL (mouse)Not determined8798418941984342Mouse
1301929Eae24_msusceptibility to experimental allergic encephalomyelitis 24 (mouse)Not determined8810320142103372Mouse
27226756Femd2_mfemur midshaft diameter 2, 5 week (mouse)8495000035067154Mouse
1301128Sluc20_msusceptibility to lung cancer 20 (mouse)Not determined8810320142103372Mouse
1301160Eae14_msusceptibility to experimental allergic encephalomyelitis 14 (mouse)Not determined81945501853455150Mouse
1301550Fembrs2_mfemur breaking strength 2 (mouse)Not determined81832109752321225Mouse
10043974Obq30_mobesity QTL 30 (mouse)Not determined82658332260583322Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000157627
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl831,639,892 - 31,639,995 (-)Ensembl
GRCm38.p6 Ensembl831,149,864 - 31,149,967 (-)Ensembl
RefSeq Acc Id: NR_028522
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39831,639,889 - 31,639,986 (-)NCBI
GRCm38831,149,861 - 31,149,958 (-)ENTREZGENE
MGSCv37832,260,333 - 32,260,430 (-)RGD
Celera832,675,361 - 32,675,458 (-)RGD
cM Map8 ENTREZGENE
Sequence:
Promoters
RGD ID:8666835
Promoter ID:EPDNEW_M11448
Type:single initiation site
Name:Snord13_1
Description:Mus musculus small nucleolar RNA, C/D box 13 , small nucleolarRNA.
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
GRCm38831,149,968 - 31,150,028EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000088252 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000157627 ENTREZGENE
MGD MGI:3819521 ENTREZGENE
NCBI Gene 100217422 ENTREZGENE
PhenoGen Snord13 PhenoGen
RNAcentral URS000069B941 RNACentral
  URS0000E60B35 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-03-07 Snord13  small nucleolar RNA, C/D box 13  1810029E06Rik  RIKEN cDNA 1810029E06 gene  Data Merged 737654 PROVISIONAL