LOC120096440 (U5 spliceosomal RNA) - Rat Genome Database

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Gene: LOC120096440 (U5 spliceosomal RNA) Rattus norvegicus
Analyze
Symbol: LOC120096440
Name: U5 spliceosomal RNA
RGD ID: 41231914
Description: INTERACTS WITH sulforaphane (ortholog)
Type: snrna
RefSeq Status: MODEL
Previously known as: U5
RGD Orthologs
Human
Mouse
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81386,464,306 - 86,464,421 (-)NCBIGRCr8
mRatBN7.21383,931,881 - 83,931,996 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1383,931,881 - 83,931,996 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl1389,884,164 - 89,884,279 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map13q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
sulforaphane  (ISO)

References

Genomics

Comparative Map Data
LOC120096440
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81386,464,306 - 86,464,421 (-)NCBIGRCr8
mRatBN7.21383,931,881 - 83,931,996 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1383,931,881 - 83,931,996 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl1389,884,164 - 89,884,279 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map13q24NCBI
RNU5E-4P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38111,909,808 - 11,909,927 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl111,909,808 - 11,909,927 (-)EnsemblGRCh38hg38GRCh38
GRCh37111,969,865 - 11,969,984 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1p36.22NCBI
HuRef111,125,316 - 11,125,435 (-)NCBIHuRef
CHM1_1111,957,733 - 11,957,852 (-)NCBICHM1_1
T2T-CHM13v2.0111,453,924 - 11,454,043 (-)NCBIT2T-CHM13v2.0
Gm23143
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394117,059,725 - 117,059,840 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4117,059,725 - 117,059,840 (+)EnsemblGRCm39 Ensembl
GRCm384117,202,528 - 117,202,643 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4117,202,528 - 117,202,643 (+)EnsemblGRCm38mm10GRCm38
Cytogenetic Map4D1NCBI
LOC119872766
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha78,553,754 - 8,553,868 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.078,673,442 - 8,673,556 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl78,673,442 - 8,673,556 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.178,602,379 - 8,602,493 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.078,697,490 - 8,697,604 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.078,834,583 - 8,834,697 (-)NCBIUU_Cfam_GSD_1.0


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1366451204106807694Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133466346187525369Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XR_005492846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000088093
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1383,931,881 - 83,931,996 (-)Ensembl
RefSeq Acc Id: XR_005492846
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81386,464,306 - 86,464,421 (-)NCBI
mRatBN7.21383,931,881 - 83,931,996 (-)NCBI
Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-17363 BioCyc
Ensembl Genes ENSRNOG00000057562 Ensembl
NCBI Gene LOC120096440 ENTREZGENE
PhenoGen LOC120096440 PhenoGen
RatGTEx ENSRNOG00000057562 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 LOC120096440  U5 spliceosomal RNA  U5  U5 spliceosomal RNA  Data merged from RGD:15011109 737654 PROVISIONAL
2021-01-27 LOC120096440  U5 spliceosomal RNA      Symbol and Name status set to provisional 70820 PROVISIONAL
2019-11-08 U5  U5 spliceosomal RNA      Symbol and Name status set to provisional 45752 PROVISIONAL