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); rac-lactic acid (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


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
Additional References at PubMed
PMID:11387227   PMID:11424213  


Genomics

Comparative Map Data
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

miRNA Target Status

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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
11532704Sluc43a_msusceptibility to lung cancer 43a (mouse)474444699108444983Mouse
1357453Kidq4_mkidney weight QTL 4 (mouse)Not determined41789261688982216Mouse
1302031Bulb1_mbulb size 1 (mouse)Not determined474033887108034029Mouse
27095939Ulnl9_mulna length 9, 16 week (mouse)465318237118857197Mouse
27095938Ulnl6_mulna length 6, 10 week (mouse)46671823798588237Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
12904933Edlmmq3_mextensor digitorum longus muscle mass QTL 3 (mouse)481213991115213991Mouse
10043964Obq26_mobesity QTL 26 (mouse)Not determined45904725193047251Mouse
13524841Hbasrq1_mhabituation of the acoustic startle response QTL 1 (mouse)45447158988471589Mouse
1301556Cd4vts1_mCD4 virgin T cell subset 1 (mouse)Not determined485428838119429037Mouse
13524838Hbasrq1a_mhabituation of the acoustic startle response QTL 1a (mouse)45447158988471589Mouse
26884406Huml3_mhumerus length 3, 10 week (mouse)475618237100157197Mouse
1302204Spm1_msplenomegaly modifier (mouse)Not determined482244395116244582Mouse
11532703Sluc43g_msusceptibility to lung cancer 43g (mouse)474444699108444983Mouse
11532702Sluc43f_msusceptibility to lung cancer 43f (mouse)474444699108444983Mouse
11532701Sluc43e_msusceptibility to lung cancer 43e (mouse)474444699108444983Mouse
1558948Ath8_matherosclerosis 8 (mouse)Not determined445658442105156995Mouse
11532700Sluc43d_msusceptibility to lung cancer 43d (mouse)474444699108444983Mouse
11039517Ltpr4_mLeishmania tropica response 4 (mouse)479365751113365867Mouse
11039504Ltpr4a_mLeishmania tropica response 4a (mouse)479365751113365867Mouse
11039505Ltpr4c_mLeishmania tropica response 4c (mouse)479365751113365867Mouse
1301930Papg1_mpulmonary adenoma progression 1 (mouse)Not determined485781167119781279Mouse
1301033Abbp2_mA/J and C57BL/6 blood pressure 2 (mouse)Not determined45355083993763305Mouse
1357870Pfat1_mpredicted fat percentage 1 (mouse)Not determined46361952697619685Mouse
1302057Pgia27_mproteoglycan induced arthritis 27 (mouse)Not determined470067227104067464Mouse
1301545Gauc_mglucose area under curve (mouse)Not determined476763107110763305Mouse
11039506Ltpr4b_mLeishmania tropica response 4b (mouse)479365751113365867Mouse
27226787Feml14_mfemur length 14, 10 week (mouse)484918237107157197Mouse
10412193Plep_mplasma lepin levels (mouse)Not determined474444699108444983Mouse
27095900Scvln9_msacral vertebrae length 2, 10 week (mouse)468018237107157197Mouse
4142203Lyr_mlymphoma resistance (mouse)Not determined8075244588769188Mouse
39128211Lwq22_mliver weight QTL 22 (mouse)41789261688982216Mouse
26884445Sklq7_mskull length QTL 7, 10 week (mouse)468018237150884457Mouse
26884434Zlq1_mzygomatic length QTL 1, 5 week (mouse)453700000103257197Mouse
26884435Zlq4_mzygomatic length QTL 4, 10 week (mouse)485118237104957197Mouse
1300697Sle2_msystemic lupus erythmatosus susceptibility 2 (mouse)Not determined477957579111957775Mouse
1301597Anxty_manxiety (mouse)Not determined474137574128009280Mouse
26884437Sklq13_mskull length QTL 13, 16 week (mouse)457700000155684457Mouse
12880404Embq1_memotional behavior QTL 1 (mouse)46575720395921546Mouse
1357895Ctrcts_mcataract severity (mouse)Not determined445709925138342753Mouse
1301190Cd4ts2_mCD4 T cell subset 2 (mouse)Not determined46014527794145424Mouse
26884431Zlq8_mzygomatic length QTL 8, 16 week (mouse)474718237108357197Mouse
1357507Synch2_msynechia 2 (mouse)Not determined46014527794145424Mouse
12879903Berr8_mberghei resistance locus 8 (mouse)46422246098222460Mouse
13207572Spir2_mStreptococcus pneumoniae infection resistance 2 (mouse)45068279588510637Mouse
12879897Berr4_mberghei resistance locus 4 (mouse)471982069105982216Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
27095934Ulnl2_mulna length 2, 5 week (mouse)45770000094788237Mouse
12904738Idohtq_miris defect with ocular hypertension QTL (mouse)48075246793112991Mouse
4141911W6q15_mweight 6 weeks QTL 15 (mouse)Not determined1789261688982216Mouse
27095924Pglq2_mpelvic girdle length QTL 2, 5 week (mouse)469118237130727311Mouse
27095921Pglq12_mpelvic girdle length QTL 12, 16 week (mouse)483118237108357197Mouse
1357561Mbsyd_mmetabolic syndrome (mouse)Not determined466888445100888588Mouse
1301118Bbaa23_mB.burgdorferi-associated arthritis 23 (mouse)Not determined485781167119781279Mouse
1301757Tlsr4_mthymic lymphoma suppressor region 4 (mouse)Not determined466757130100757258Mouse
27095917Scvln14_msacral vertebrae length 2, 16 week (mouse)468018237130277062Mouse
4141900Skts-fp1_mskin tumor susceptibility in FVB and PWK 1 (mouse)Not determined453550839124055180Mouse
1300966Pabr2_mplasma apolipoprotein B (human) regulator 2 (mouse)Not determined446332646105801860Mouse
1301739Pitm2_mprion incubation time 2 (mouse)Not determined471982069105982216Mouse
1301867Idd11_minsulin dependent diabetes susceptibility 11 (mouse)Not determined483604870117605006Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
27095905Scvln3_msacral vertebrae length 2, 5 week (mouse)455600000128993793Mouse


Expression

RNA-SEQ Expression


Sequence


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:

Additional Information

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