Scarna8 (small Cajal body-specific RNA 8) - Rat Genome Database

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Gene: Scarna8 (small Cajal body-specific RNA 8) Mus musculus
Analyze
Symbol: Scarna8
Name: small Cajal body-specific RNA 8
RGD ID: 2303925
MGI Page MGI
Description: INTERACTS WITH 2-hydroxypropanoic acid (ortholog); aflatoxin B1 (ortholog); benzene-1,2,4-triol (ortholog)
Type: ncrna (Ensembl: scaRNA)
RefSeq Status: PROVISIONAL
Previously known as: MBI-5; MBI-57
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
GRCm39486,504,690 - 86,504,807 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl486,504,690 - 86,504,820 (-)EnsemblGRCm39 Ensembl
GRCm38486,586,453 - 86,586,570 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl486,586,453 - 86,586,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv37486,232,357 - 86,232,474 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera485,101,242 - 85,101,359 (-)NCBICelera
Cytogenetic Map4C4NCBI
cM Map440.69NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scarna8Mouse2-hydroxypropanoic acid increases expressionISOSCARNA8 (Homo sapiens)6480464Lactic Acid results in increased expression of SCARNA8 mRNACTDPMID:30851411
Scarna8Mouseaflatoxin B1 decreases methylationISOSCARNA8 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of SCARNA8 geneCTDPMID:27153756
Scarna8Mousebenzene-1,2,4-triol increases expressionISOSCARNA8 (Homo sapiens)6480464hydroxyhydroquinone results in increased expression of SCARNA8 mRNACTDPMID:39245080
Scarna8Mouserac-lactic acid increases expressionISOSCARNA8 (Homo sapiens)6480464Lactic Acid results in increased expression of SCARNA8 mRNACTDPMID:30851411
Scarna8Mousevalproic acid increases methylationISOSCARNA8 (Homo sapiens)6480464Valproic Acid results in increased methylation of SCARNA8 geneCTDPMID:29154799


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scarna8Mousebiological_process involved_inND 2290270 MGIGO_REF:0000015

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scarna8Mousecellular_component is_active_inND 2290270 MGIGO_REF:0000015

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scarna8Mousemolecular_function enablesND 2290270 MGIGO_REF:0000015

PMID:11387227   PMID:11424213  



Scarna8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39486,504,690 - 86,504,807 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl486,504,690 - 86,504,820 (-)EnsemblGRCm39 Ensembl
GRCm38486,586,453 - 86,586,570 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl486,586,453 - 86,586,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv37486,232,357 - 86,232,474 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera485,101,242 - 85,101,359 (-)NCBICelera
Cytogenetic Map4C4NCBI
cM Map440.69NCBI
SCARNA8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38919,063,656 - 19,063,786 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl919,063,656 - 19,063,786 (-)EnsemblGRCh38hg38GRCh38
GRCh37919,063,654 - 19,063,784 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36919,053,654 - 19,053,784 (-)NCBINCBI36Build 36hg18NCBI36
Celera918,989,849 - 18,989,979 (-)NCBICelera
Cytogenetic Map9p22.1NCBI
HuRef919,025,259 - 19,025,389 (-)NCBIHuRef
CHM1_1919,063,646 - 19,063,776 (-)NCBICHM1_1
T2T-CHM13v2.0919,076,523 - 19,076,653 (-)NCBIT2T-CHM13v2.0
Scarna8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85106,170,119 - 106,170,249 (-)NCBIGRCr8
mRatBN7.25101,124,125 - 101,124,255 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5101,124,125 - 101,124,255 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl5104,951,851 - 104,951,981 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map5q31NCBI
LOC119874085
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1137,558,669 - 37,558,799 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01139,832,953 - 39,833,083 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11138,526,225 - 38,526,355 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01138,321,136 - 38,321,266 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01138,958,225 - 38,958,355 (-)NCBIUU_Cfam_GSD_1.0

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Variants in Scarna8
4 total Variants

Predicted Target Of
Summary Value
Count of predictions:128
Count of miRNA genes:125
Interacting mature miRNAs:127
Transcripts:ENSMUST00000158333
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.


1 to 10 of 73 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
11532714Sluc43_msusceptibility to lung cancer 43 (mouse)446642108123127211Mouse
13506251Cytrq1_mcytokine response QTL 1 (mouse)46571808699718086Mouse
25314312Syncl2_msynaptonemal complex length 2 (mouse)465718237146584457Mouse
1357726Lnopy1_mlens opacity 1 (mouse)Not determined485428838119429037Mouse
11532708Sluc43i_msusceptibility to lung cancer 43i (mouse)474444699108444983Mouse
11532707Sluc43h_msusceptibility to lung cancer 43h (mouse)474444699108444983Mouse
11532706Sluc43c_msusceptibility to lung cancer 43c (mouse)474444699108444983Mouse
11532705Sluc43b_msusceptibility to lung cancer 43b (mouse)474444699108444983Mouse
10412176Habiir3_mhyperoxic acute lung injury imprinted region 3 (mouse)Not determined48375713094293740Mouse
1302044Nss1_mNOD Sjogren's syndrome 1 (mouse)Not determined471982069105982216Mouse

1 to 10 of 73 rows





RefSeq Transcripts NR_028545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF357402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL824707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000158333
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl486,504,690 - 86,504,820 (-)Ensembl
GRCm38.p6 Ensembl486,586,453 - 86,586,583 (-)Ensembl
RefSeq Acc Id: NR_028545
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39486,504,690 - 86,504,807 (-)NCBI
GRCm38486,586,453 - 86,586,570 (-)ENTREZGENE
MGSCv37486,232,357 - 86,232,474 (-)RGD
Celera485,101,242 - 85,101,359 (-)RGD
cM Map4 ENTREZGENE
Sequence:


Database
Acc Id
Source(s)
Ensembl Genes ENSMUSG00000088958 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000158333 ENTREZGENE
MGD MGI:3819488 ENTREZGENE
NCBI Gene 100217448 ENTREZGENE
PhenoGen Scarna8 PhenoGen
RNAcentral URS000004D412 RNACentral
  URS000070F3E0 RNACentral