Snord90 (small nucleolar RNA, C/D box 90) - Rat Genome Database

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Gene: Snord90 (small nucleolar RNA, C/D box 90) Rattus norvegicus
Analyze
Symbol: Snord90
Name: small nucleolar RNA, C/D box 90
RGD ID: 41133334
Description: Orthologous to human SNORD90 (small nucleolar RNA, C/D box 90); INTERACTS WITH aflatoxin B1 (ortholog); versicolorin A (ortholog).
Type: snorna
RefSeq Status: MODEL
Previously known as: LOC120102086; small nucleolar RNA SNORD90
RGD Orthologs
Human
Mouse
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8341,572,754 - 41,572,864 (-)NCBIGRCr8
mRatBN7.2321,162,968 - 21,163,078 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl321,162,968 - 21,163,078 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map3q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Snord90
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8341,572,754 - 41,572,864 (-)NCBIGRCr8
mRatBN7.2321,162,968 - 21,163,078 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl321,162,968 - 21,163,078 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map3q11NCBI
SNORD90
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389122,880,213 - 122,880,319 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9122,880,213 - 122,880,323 (-)EnsemblGRCh38hg38GRCh38
GRCh379125,642,492 - 125,642,598 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369124,682,313 - 124,682,419 (-)NCBINCBI36Build 36hg18NCBI36
Celera996,290,803 - 96,290,909 (-)NCBICelera
Cytogenetic Map9q33.2NCBI
HuRef995,257,323 - 95,257,429 (-)NCBIHuRef
CHM1_19125,791,153 - 125,791,259 (-)NCBICHM1_1
T2T-CHM13v2.09135,077,451 - 135,077,557 (-)NCBIT2T-CHM13v2.0
Snord90
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39237,290,073 - 37,290,140 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl237,290,059 - 37,290,169 (-)EnsemblGRCm39 Ensembl
GRCm38237,400,061 - 37,400,128 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl237,400,047 - 37,400,157 (-)EnsemblGRCm38mm10GRCm38
MGSCv37237,255,581 - 37,255,648 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera237,084,058 - 37,084,125 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map224.19NCBI
LOC119873501
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha959,101,538 - 59,101,648 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0960,825,713 - 60,825,823 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl960,825,713 - 60,825,823 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1959,584,466 - 59,584,576 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0959,899,474 - 59,899,584 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0959,992,224 - 59,992,334 (+)NCBIUU_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
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)body weight (CMO:0000012)31737470335528639Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)31043430624512004Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
12879852Cm93Cardiac mass QTL 930.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)31831145447233430Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
12879853Am5Aortic mass QTL 50.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)31831145447233430Rat
12879854Kidm63Kidney mass QTL 630.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)31831145447233430Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)31077882330356773Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
12879849Bw180Body weight QTL 1800.037body mass (VT:0001259)body weight (CMO:0000012)31831145447233430Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
12879850Cm91Cardiac mass QTL 910.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)31831145447233430Rat
731172Bp151Blood pressure QTL 1510.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145447233430Rat
12879851Cm92Cardiac mass QTL 920.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)31831145447233430Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2325840Bp345Blood pressure QTL 3450.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145428441896Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31695470861954708Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XR_005503109 (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: ENSRNOT00000078772
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl321,162,968 - 21,163,078 (-)Ensembl
RefSeq Acc Id: XR_005503109
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8341,572,754 - 41,572,864 (-)NCBI
mRatBN7.2321,162,968 - 21,163,078 (-)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-49939 BioCyc
Ensembl Genes ENSRNOG00000058017 Ensembl
NCBI Gene LOC120102086 ENTREZGENE
PhenoGen Snord90 PhenoGen
RatGTEx ENSRNOG00000058017 RatGTEx
RNAcentral URS00006624B8 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-04-01 Snord90  small nucleolar RNA, C/D box 90  LOC120102086  small nucleolar RNA SNORD90  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2021-01-27 LOC120102086  small nucleolar RNA SNORD90      Symbol and Name status set to provisional 70820 PROVISIONAL