LOC120102001 (U1 spliceosomal RNA) - Rat Genome Database

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Gene: LOC120102001 (U1 spliceosomal RNA) Rattus norvegicus
Analyze
Symbol: LOC120102001
Name: U1 spliceosomal RNA
RGD ID: 41085601
Description: Orthologous to human RNU1-89P (RNA, U1 small nuclear 89, pseudogene).
Type: snrna
RefSeq Status: MODEL
Previously known as: U1
RGD Orthologs
Human
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83164,422,829 - 164,422,993 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3164,422,829 - 164,422,993 (-)EnsemblGRCr8
mRatBN7.23143,962,670 - 143,962,834 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3143,962,670 - 143,962,834 (-)EnsemblmRatBN7.2
Rnor_6.0 Ensembl3150,991,084 - 150,991,248 (-)NCBIrn6Rnor6.0
Cytogenetic Map3q42NCBI
JBrowse:




References

Genomics

Comparative Map Data
LOC120102001
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83164,422,829 - 164,422,993 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3164,422,829 - 164,422,993 (-)EnsemblGRCr8
mRatBN7.23143,962,670 - 143,962,834 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3143,962,670 - 143,962,834 (-)EnsemblmRatBN7.2
Rnor_6.0 Ensembl3150,991,084 - 150,991,248 (-)NCBIrn6Rnor6.0
Cytogenetic Map3q42NCBI
RNU1-89P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384135,995,929 - 135,996,092 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4135,995,929 - 135,996,092 (-)Ensemblhg38GRCh38
GRCh374136,917,084 - 136,917,247 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map4q28.3NCBI
CHM1_14136,894,221 - 136,894,384 (-)NCBICHM1_1
T2T-CHM13v2.04139,318,612 - 139,318,775 (-)NCBIT2T-CHM13v2.0
LOC119869870
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha155,056,450 - 55,056,614 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0154,446,594 - 54,446,758 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl154,446,594 - 54,446,758 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1154,342,829 - 54,342,993 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0154,193,143 - 54,193,307 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0154,816,616 - 54,816,780 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3140069424146976080Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 15 44 66 136 91 11 43 38 32 14 14

Sequence

Nucleotide Sequences
RefSeq Transcripts XR_005503046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000079612
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3164,422,829 - 164,422,993 (-)Ensembl
mRatBN7.2 Ensembl3143,962,670 - 143,962,834 (-)Ensembl
RefSeq Acc Id: XR_005503046
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83164,422,829 - 164,422,993 (-)NCBI
mRatBN7.23143,962,670 - 143,962,834 (-)NCBI
Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:41085601 AgrOrtholog
BioCyc Gene G2FUF-47132 BioCyc
Ensembl Genes ENSRNOG00000054947 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000079612 ENTREZGENE
NCBI Gene LOC120102001 ENTREZGENE
PhenoGen LOC120102001 PhenoGen
RatGTEx ENSRNOG00000054947 RatGTEx
RNAcentral URS00006BB167 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 LOC120102001  U1 spliceosomal RNA  U1  U1 spliceosomal RNA  Data merged from RGD:15009078 737654 PROVISIONAL
2021-01-27 LOC120102001  U1 spliceosomal RNA      Symbol and Name status set to provisional 70820 PROVISIONAL
2019-11-08 U1  U1 spliceosomal RNA      Symbol and Name status set to provisional 45752 PROVISIONAL