Rps3a (ribosomal protein S3a) - Rat Genome Database

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Gene: Rps3a (ribosomal protein S3a) Rattus norvegicus
Analyze
Symbol: Rps3a
Name: ribosomal protein S3a
RGD ID: 62078
Description: Enables mRNA binding activity and translation initiation factor binding activity. Involved in positive regulation of fibroblast proliferation; positive regulation of translation; and response to ethanol. Located in nucleus. Part of cytosolic small ribosomal subunit. Orthologous to human RPS3A (ribosomal protein S3A); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 40S ribosomal protein S3a; V-fos transformation effector protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22171,524,685 - 171,529,054 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2171,524,500 - 171,529,055 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2178,678,755 - 178,683,124 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02176,698,691 - 176,703,060 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02171,300,509 - 171,304,870 (-)NCBIRnor_WKY
Rnor_6.02185,440,477 - 185,444,846 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2185,440,291 - 185,444,897 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02204,831,252 - 204,835,621 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42178,092,351 - 178,096,720 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12178,042,456 - 178,046,826 (-)NCBI
Celera2165,497,425 - 165,501,795 (-)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
caffeine  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
CGP 52608  (ISO)
chloropicrin  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
clofibric acid  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cylindrospermopsin  (ISO)
decabromodiphenyl ether  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
fenbuconazole  (ISO)
flutamide  (EXP)
folic acid  (ISO)
genistein  (EXP)
hydrogen peroxide  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
L-ethionine  (EXP)
methoxychlor  (EXP)
mitomycin C  (ISO)
N-nitrosodiethylamine  (EXP)
nickel subsulfide  (ISO)
nimesulide  (EXP)
nitrofen  (EXP)
nitroglycerin  (EXP)
omeprazole  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl caffeate  (EXP)
PhIP  (EXP)
pirinixic acid  (EXP)
potassium chromate  (ISO)
Propiverine  (EXP)
resveratrol  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium fluoride  (EXP)
thioacetamide  (EXP)
trichloroethene  (EXP)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Structures of the human and Drosophila 80S ribosome. Anger AM, etal., Nature. 2013 May 2;497(7447):80-5. doi: 10.1038/nature12104.
2. Identification of proteins of the 40 S ribosomal subunit involved in interaction with initiation factor eIF-2 in the quaternary initiation complex by means of monospecific antibodies. Bommer UA, etal., FEBS Lett. 1988 Jun 6;233(1):114-8.
3. The primary structures of rat ribosomal proteins S3a (the V-Fos transformation effector) and of S3b. Chan YL, etal., Biochem Biophys Res Commun 1996 Nov 1;228(1):141-7.
4. Isolation of eukaryotic ribosomal proteins. Purification and characterization of the 40 S ribosomal subunit proteins Sa, Sc, S3a, S3b, S5', S9, S10, S11, S12, S14, S15, S15', S16, S17, S18, S19, S20, S21, S26, S27', and S29. Collatz E, etal., J Biol Chem. 1977 Dec 25;252(24):9071-80.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Effect of ethanol on hepatic ribosomal proteins and mRNA. Haviryaji KS, etal., Mol Cell Biochem. 1992 Oct 7;115(2):143-7.
7. Fte-1, a v-fos transformation effector gene, encodes the mammalian homologue of a yeast gene involved in protein import into mitochondria. Kho CJ and Zarbl H, Proc Natl Acad Sci U S A 1992 Mar 15;89(6):2200-4.
8. Effect of decreased fte-1 gene expression on protein synthesis, cell growth, and transformation. Kho CJ, etal., Cell Growth Differ. 1996 Sep;7(9):1157-66.
9. Electron microscopic investigations on the location of rat liver ribosomal proteins S3a, S5, S6, S7 and S9 by means of antibody labeling. Lutsch G, etal., Biomed Biochim Acta. 1983;42(6):705-23.
10. Immunoelectron microscopic studies on the location of ribosomal proteins on the surface of the 40S ribosomal subunit from rat liver. Lutsch G, etal., Eur J Cell Biol. 1990 Feb;51(1):140-50.
11. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. Functional dichotomy of ribosomal proteins during the synthesis of mammalian 40S ribosomal subunits. O'Donohue MF, etal., J Cell Biol. 2010 Sep 6;190(5):853-66. doi: 10.1083/jcb.201005117.
14. GOA pipeline RGD automated data pipeline
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Comprehensive gene review and curation RGD comprehensive gene curation
17. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
18. Ribosomal proteins cross-linked to natural mRNA by UV irradiation of rat liver polysomes. Takahashi Y and Ogata K, J Biochem. 1981 Nov;90(5):1549-52.
Additional References at PubMed
PMID:8706699   PMID:9566973   PMID:10713066   PMID:11823430   PMID:15489334   PMID:15572026   PMID:15883184   PMID:16213212   PMID:16635246   PMID:16791210   PMID:17289661   PMID:18809582  
PMID:20458337   PMID:21423176   PMID:21630459   PMID:22658674   PMID:22681889   PMID:23106098   PMID:23979707   PMID:24625528   PMID:25931508   PMID:29476059   PMID:30053369  


Genomics

Comparative Map Data
Rps3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22171,524,685 - 171,529,054 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2171,524,500 - 171,529,055 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2178,678,755 - 178,683,124 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02176,698,691 - 176,703,060 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02171,300,509 - 171,304,870 (-)NCBIRnor_WKY
Rnor_6.02185,440,477 - 185,444,846 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2185,440,291 - 185,444,897 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02204,831,252 - 204,835,621 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42178,092,351 - 178,096,720 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12178,042,456 - 178,046,826 (-)NCBI
Celera2165,497,425 - 165,501,795 (-)NCBICelera
Cytogenetic Map2q34NCBI
RPS3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384151,099,628 - 151,104,642 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl4151,099,624 - 151,104,642 (+)EnsemblGRCh38hg38GRCh38
GRCh374152,020,780 - 152,025,794 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364152,240,204 - 152,245,254 (+)NCBINCBI36Build 36hg18NCBI36
Build 344152,378,388 - 152,383,393NCBI
Celera4149,342,420 - 149,347,475 (+)NCBICelera
Cytogenetic Map4q31.3NCBI
HuRef4147,746,045 - 147,751,132 (+)NCBIHuRef
CHM1_14151,997,753 - 152,002,834 (+)NCBICHM1_1
T2T-CHM13v2.04154,423,512 - 154,428,526 (+)NCBIT2T-CHM13v2.0
Rps3a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39386,045,247 - 86,049,975 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl386,045,247 - 86,050,009 (-)EnsemblGRCm39 Ensembl
GRCm38386,137,940 - 86,142,668 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl386,137,940 - 86,142,702 (-)EnsemblGRCm38mm10GRCm38
MGSCv37385,941,862 - 85,946,590 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36386,223,873 - 86,228,520 (-)NCBIMGSCv36mm8
Celera386,163,967 - 86,168,610 (-)NCBICelera
Cytogenetic Map3F1NCBI
Rps3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554715,705,829 - 5,710,683 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554715,705,829 - 5,710,683 (+)NCBIChiLan1.0ChiLan1.0
LOC100975318
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14155,092,898 - 155,097,954 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4155,092,898 - 155,097,953 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04143,438,184 - 143,443,266 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
RPS3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11549,066,636 - 49,071,012 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1549,066,705 - 49,071,012 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1549,404,642 - 49,409,019 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01549,742,595 - 49,746,972 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11549,011,324 - 49,015,708 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01549,104,917 - 49,109,293 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01549,429,825 - 49,434,209 (+)NCBIUU_Cfam_GSD_1.0
Rps3a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530141,392,090 - 41,396,701 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366891,134,565 - 1,139,161 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPS3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl877,889,607 - 78,023,346 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1877,889,616 - 77,893,740 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2882,594,439 - 82,598,565 (-)NCBISscrofa10.2Sscrofa10.2susScr3


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2143657411190602963Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072175950118Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2152413072175950118Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072175950118Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072175950118Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2152413072175950118Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072175950118Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:121
Count of miRNA genes:99
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000016329
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 2 8 8 3 8 8 14 25 2
Medium 1 43 49 33 16 33 8 11 66 21 16 9 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_017153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC058483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221460 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222773 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229870 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M84716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X75161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016329   ⟹   ENSRNOP00000016329
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2171,524,500 - 171,529,055 (-)Ensembl
Rnor_6.0 Ensembl2185,440,291 - 185,444,897 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110041   ⟹   ENSRNOP00000087509
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2171,524,683 - 171,529,044 (-)Ensembl
RefSeq Acc Id: NM_017153   ⟹   NP_058849
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22171,524,685 - 171,529,054 (-)NCBI
Rnor_6.02185,440,477 - 185,444,846 (-)NCBI
Rnor_5.02204,831,252 - 204,835,621 (-)NCBI
RGSC_v3.42178,092,351 - 178,096,720 (-)RGD
Celera2165,497,425 - 165,501,795 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_058849 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA42335 (Get FASTA)   NCBI Sequence Viewer  
  AAH58483 (Get FASTA)   NCBI Sequence Viewer  
  CAA53004 (Get FASTA)   NCBI Sequence Viewer  
  EDM00796 (Get FASTA)   NCBI Sequence Viewer  
  P49242 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_058849   ⟸   NM_017153
- UniProtKB: P33443 (UniProtKB/Swiss-Prot),   P49242 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016329   ⟸   ENSRNOT00000016329
RefSeq Acc Id: ENSRNOP00000087509   ⟸   ENSRNOT00000110041

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P49242-F1-model_v2 AlphaFold P49242 1-264 view protein structure

Transcriptome

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

Promoters
RGD ID:13691410
Promoter ID:EPDNEW_R1935
Type:multiple initiation site
Name:Rps3a_1
Description:ribosomal protein S3a
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02185,444,846 - 185,444,906EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 178093532 178093533 G A snv ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62078 AgrOrtholog
BioCyc Gene G2FUF-52576 BioCyc
Ensembl Genes ENSRNOG00000011893 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016329 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000087509.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016329 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000110041.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6887884 IMAGE-MGC_LOAD
InterPro Ribosomal_S1/3_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_S3Ae UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_S3Ae_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29288 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72868 IMAGE-MGC_LOAD
NCBI Gene 29288 ENTREZGENE
Pfam Ribosomal_S3Ae UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rps3a PhenoGen
PROSITE RIBOSOMAL_S3AE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Ribosomal_S3Ae UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A843_RAT UniProtKB/TrEMBL
  P33443 ENTREZGENE
  P49242 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P33443 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Rps3a  ribosomal protein S3a      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 263 amino acids 61742
gene_transcript has two alternate splicing forms 61742