Dicer1 (dicer 1 ribonuclease III) - Rat Genome Database

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Gene: Dicer1 (dicer 1 ribonuclease III) Rattus norvegicus
Analyze
Symbol: Dicer1
Name: dicer 1 ribonuclease III
RGD ID: 1309381
Description: Predicted to enable RNA binding activity; endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters; and protein domain specific binding activity. Predicted to contribute to pre-miRNA binding activity. Predicted to be involved in several processes, including nervous system development; nucleic acid phosphodiester bond hydrolysis; and post-transcriptional gene silencing by RNA. Predicted to act upstream of or within several processes, including animal organ development; negative regulation of macromolecule metabolic process; and regulation of nervous system development. Located in dendrite; endoplasmic reticulum-Golgi intermediate compartment; and growth cone. Human ortholog(s) of this gene implicated in colorectal cancer; hepatocellular carcinoma; multinodular goiter; nephroma; and pleuropulmonary blastoma. Orthologous to human DICER1 (dicer 1, ribonuclease III); PARTICIPATES IN microRNA pathway; INTERACTS WITH amphetamine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: MODEL
Also known as: dicer 1, ribonuclease type III; Dicer1, Dcr-1 homolog; Dicer1, Dcr-1 homolog (Drosophila); endoribonuclease Dicer; LOC299284
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26123,627,529 - 123,692,278 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl6123,631,250 - 123,693,965 (-)Ensembl
Rnor_6.06128,388,084 - 128,453,234 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6128,388,053 - 128,434,183 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06137,586,335 - 137,633,706 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46128,777,468 - 128,838,780 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16128,781,378 - 128,842,495 (-)NCBI
Celera6121,106,680 - 121,167,957 (-)NCBICelera
Cytogenetic Map6q32NCBI
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
aging  (IEP)
anatomical structure development  (ISO)
angiogenesis  (ISO)
apoptotic DNA fragmentation  (IBA)
branching morphogenesis of an epithelial tube  (ISO)
cardiac muscle cell development  (ISO)
cardiac neural crest cell development involved in outflow tract morphogenesis  (ISO)
cartilage development  (ISO)
cell population proliferation  (ISO)
cellular response to glucose stimulus  (IEP)
cellular response to hydrogen peroxide  (IEP)
cellular response to oxygen-glucose deprivation  (IEP)
cellular response to tumor necrosis factor  (IEP)
cerebral cortex development  (ISO)
conversion of ds siRNA to ss siRNA  (ISO)
conversion of ds siRNA to ss siRNA involved in RNA interference  (ISO)
defense response to virus  (ISO)
digestive tract development  (ISO)
embryonic hindlimb morphogenesis  (ISO)
embryonic limb morphogenesis  (ISO)
epidermis morphogenesis  (ISO)
ganglion development  (ISO)
hair follicle cell proliferation  (ISO)
hair follicle development  (ISO)
hair follicle morphogenesis  (ISO)
inner ear receptor cell development  (ISO)
intestinal epithelial cell development  (ISO)
lung development  (ISO)
meiotic spindle organization  (ISO)
miRNA loading onto RISC involved in gene silencing by miRNA  (ISO)
mRNA stabilization  (ISO)
multicellular organism growth  (ISO)
myoblast differentiation involved in skeletal muscle regeneration  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of glial cell proliferation  (ISO)
negative regulation of Schwann cell proliferation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
nerve development  (ISO)
neuron projection morphogenesis  (ISO)
NIK/NF-kappaB signaling  (ISO)
olfactory bulb interneuron differentiation  (ISO)
pericentric heterochromatin assembly  (ISO)
peripheral nervous system myelin formation  (ISO)
positive regulation of collagen biosynthetic process  (IMP)
positive regulation of endothelial cell migration  (IMP)
positive regulation of endothelial cell-matrix adhesion via fibronectin  (IMP)
positive regulation of establishment of endothelial barrier  (IMP)
positive regulation of gene expression  (ISO)
positive regulation of hepatic stellate cell proliferation  (IMP)
positive regulation of miRNA metabolic process  (ISO)
positive regulation of myelination  (ISO)
positive regulation of Schwann cell differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of vascular endothelial cell proliferation  (IMP)
post-embryonic development  (ISO)
pre-miRNA processing  (IBA,ISO)
production of miRNAs involved in gene silencing by miRNA  (ISO)
production of siRNA involved in RNA interference  (IBA,ISO)
regulation of cell cycle  (ISO)
regulation of cell differentiation  (ISO)
regulation of enamel mineralization  (ISO)
regulation of gene expression  (ISO)
regulation of inflammatory response  (ISO)
regulation of miRNA metabolic process  (ISO)
regulation of muscle cell apoptotic process  (ISO)
regulation of myelination  (ISO)
regulation of neurogenesis  (ISO)
regulation of neuron differentiation  (ISO)
regulation of odontogenesis of dentin-containing tooth  (ISO)
regulation of oligodendrocyte differentiation  (ISO)
regulation of protein phosphorylation  (ISO)
regulation of regulatory T cell differentiation  (ISO)
regulation of RNA metabolic process  (ISO)
regulation of stem cell differentiation  (ISO)
regulation of viral genome replication  (ISO)
reproductive structure development  (ISO)
RNA interference  (ISO)
RNA phosphodiester bond hydrolysis  (IBA)
RNA phosphodiester bond hydrolysis, endonucleolytic  (ISO)
RNA processing  (ISO)
siRNA loading onto RISC involved in RNA interference  (ISO)
spermatogonial cell division  (ISO)
spinal cord motor neuron differentiation  (ISO)
spindle assembly  (ISO)
spleen development  (ISO)
stem cell population maintenance  (ISO)
targeting of mRNA for destruction involved in RNA interference  (ISO)
trophectodermal cell proliferation  (ISO)
zygote asymmetric cell division  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Akahane T, Mol Clin Oncol. 2013 Mar;1(2):267-273. doi: 10.3892/mco.2012.43. Epub 2012 Nov 22.
2. Antoniou A, etal., EMBO Rep. 2018 Mar;19(3). pii: embr.201744853. doi: 10.15252/embr.201744853. Epub 2017 Dec 20.
3. Barbato C, etal., Brain Res. 2007 Oct 17;1175:17-27. Epub 2007 Aug 22.
4. Doros LA, etal., Mod Pathol. 2014 Sep;27(9):1267-80. doi: 10.1038/modpathol.2013.242. Epub 2014 Jan 31.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. GOA data from the GO Consortium
7. Hengst U, etal., J Neurosci. 2006 May 24;26(21):5727-32.
8. Hill DA, etal., Science. 2009 Aug 21;325(5943):965. doi: 10.1126/science.1174334. Epub 2009 Jun 25.
9. Kalis M, etal., PLoS One. 2011;6(12):e29166. doi: 10.1371/journal.pone.0029166. Epub 2011 Dec 27.
10. Kim J, etal., Sci Rep. 2019 Mar 4;9(1):3406. doi: 10.1038/s41598-019-39747-5.
11. Krol J, etal., Nat Rev Genet. 2010 Sep;11(9):597-610. Epub 2010 Jul 27.
12. Kumar MS, etal., Genes Dev. 2009 Dec 1;23(23):2700-4. doi: 10.1101/gad.1848209. Epub 2009 Nov 10.
13. Lambertz I, etal., Cell Death Differ. 2010 Apr;17(4):633-41. doi: 10.1038/cdd.2009.202. Epub 2009 Dec 18.
14. Li Y, etal., Sci Rep. 2015 Aug 21;5:13316. doi: 10.1038/srep13316.
15. Liu L, etal., Mol Carcinog. 2013 Nov;52 Suppl 1:E148-54. doi: 10.1002/mc.22062. Epub 2013 Jul 19.
16. MGD data from the GO Consortium
17. OMIM Disease Annotation Pipeline
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. RGD comprehensive gene curation
22. Ungvari Z, etal., J Gerontol A Biol Sci Med Sci. 2013 Aug;68(8):877-91. doi: 10.1093/gerona/gls242. Epub 2012 Dec 13.
23. Wagh PK, etal., J Pathol. 2015 May;236(1):41-52. doi: 10.1002/path.4500. Epub 2015 Jan 20.
24. Wang H, etal., J Biol Chem. 2015 Jan 30;290(5):2699-714. doi: 10.1074/jbc.M114.621565. Epub 2014 Dec 18.
25. Yu F, etal., Mol Med Rep. 2014 Feb;9(2):707-14. doi: 10.3892/mmr.2013.1866. Epub 2013 Dec 16.
26. Zhao H, etal., Med Oncol. 2014 Oct;31(10):206. doi: 10.1007/s12032-014-0206-2. Epub 2014 Sep 7.
27. Zheng ZH, etal., Chin Med J (Engl). 2007 Dec 5;120(23):2099-104.
Additional References at PubMed
PMID:11201747   PMID:11452083   PMID:12411504   PMID:12411505   PMID:12477932   PMID:12526743   PMID:14528307   PMID:15613470   PMID:15713842   PMID:15973356   PMID:16040801   PMID:16319892  
PMID:16357216   PMID:16397794   PMID:16452165   PMID:16462742   PMID:16682203   PMID:17369397   PMID:17452327   PMID:17531811   PMID:17613256   PMID:17761882   PMID:17804764   PMID:18178619  
PMID:18184563   PMID:18256189   PMID:18320056   PMID:18325616   PMID:18508075   PMID:18604195   PMID:18725527   PMID:18997113   PMID:19022417   PMID:19416898   PMID:19701182   PMID:19820710  
PMID:20102707   PMID:20223197   PMID:20463238   PMID:20648646   PMID:20708584   PMID:20805985   PMID:20975942   PMID:21098571   PMID:21307095   PMID:21338882   PMID:21573140   PMID:21753850  
PMID:21911408   PMID:21933712   PMID:22053081   PMID:22105995   PMID:22358842   PMID:22503104   PMID:22701646   PMID:22844247   PMID:22925886   PMID:23322395   PMID:23661684   PMID:24209619  
PMID:25549615   PMID:26435691   PMID:28159509   PMID:31894528  


Genomics

Comparative Map Data
Dicer1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26123,627,529 - 123,692,278 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl6123,631,250 - 123,693,965 (-)Ensembl
Rnor_6.06128,388,084 - 128,453,234 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6128,388,053 - 128,434,183 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06137,586,335 - 137,633,706 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46128,777,468 - 128,838,780 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16128,781,378 - 128,842,495 (-)NCBI
Celera6121,106,680 - 121,167,957 (-)NCBICelera
Cytogenetic Map6q32NCBI
DICER1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1495,086,228 - 95,158,010 (-)EnsemblGRCh38hg38GRCh38
GRCh381495,086,228 - 95,158,263 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371495,552,565 - 95,624,347 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361494,622,319 - 94,693,512 (-)NCBINCBI36hg18NCBI36
Build 341494,622,318 - 94,693,512NCBI
Celera1475,608,684 - 75,679,876 (-)NCBI
Cytogenetic Map14q32.13NCBI
HuRef1475,736,521 - 75,807,615 (-)NCBIHuRef
CHM1_11495,490,915 - 95,561,989 (-)NCBICHM1_1
Dicer1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912104,653,999 - 104,718,227 (-)NCBIGRCm39mm39
GRCm39 Ensembl12104,654,001 - 104,718,211 (-)Ensembl
GRCm3812104,687,740 - 104,751,968 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12104,687,742 - 104,751,952 (-)EnsemblGRCm38mm10GRCm38
MGSCv3712105,925,952 - 105,990,162 (-)NCBIGRCm37mm9NCBIm37
MGSCv3612105,092,486 - 105,153,002 (-)NCBImm8
Celera12105,918,245 - 105,982,441 (-)NCBICelera
Cytogenetic Map12ENCBI
cM Map1254.83NCBI
Dicer1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543817,382,493 - 17,431,797 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543817,374,899 - 17,431,599 (+)NCBIChiLan1.0ChiLan1.0
DICER1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11495,036,385 - 95,107,940 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1495,036,385 - 95,107,940 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01475,709,029 - 75,780,779 (-)NCBIMhudiblu_PPA_v0panPan3
DICER1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1863,970,245 - 64,029,438 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl863,972,027 - 64,019,879 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha863,546,706 - 63,619,316 (-)NCBI
ROS_Cfam_1.0864,236,992 - 64,309,618 (-)NCBI
UMICH_Zoey_3.1863,912,041 - 63,984,637 (-)NCBI
UNSW_CanFamBas_1.0863,970,646 - 64,043,228 (-)NCBI
UU_Cfam_GSD_1.0864,295,524 - 64,368,151 (-)NCBI
Dicer1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864010,443,874 - 10,504,962 (+)NCBI
SpeTri2.0NW_004936846528,768 - 584,599 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DICER1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7116,361,630 - 116,436,519 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17116,361,630 - 116,436,471 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27123,581,725 - 123,652,553 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DICER1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12472,915,550 - 72,986,658 (-)NCBI
ChlSab1.1 Ensembl2472,915,499 - 72,963,006 (-)Ensembl
Vero_WHO_p1.0NW_02366605360,107,379 - 60,178,341 (-)NCBI
Dicer1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247347,604,049 - 7,681,481 (-)NCBI

Position Markers
D6Got177  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,676,097 - 123,676,336 (+)MAPPERmRatBN7.2
Rnor_6.06128,436,877 - 128,437,115NCBIRnor6.0
Rnor_5.06137,635,128 - 137,635,366UniSTSRnor5.0
RGSC_v3.46128,822,544 - 128,822,931RGDRGSC3.4
RGSC_v3.46128,822,636 - 128,822,874UniSTSRGSC3.4
RGSC_v3.16128,826,383 - 128,826,621RGD
Celera6121,151,578 - 121,151,816UniSTS
RH 3.4 Map6819.5RGD
RH 3.4 Map6819.5UniSTS
Cytogenetic Map6q32UniSTS
RH143307  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,692,615 - 123,692,727 (+)MAPPERmRatBN7.2
Rnor_6.06128,453,383 - 128,453,494NCBIRnor6.0
Rnor_5.06137,651,657 - 137,651,768UniSTSRnor5.0
RGSC_v3.46128,839,054 - 128,839,165UniSTSRGSC3.4
Celera6121,168,106 - 121,168,217UniSTS
RH 3.4 Map6823.3UniSTS
Cytogenetic Map6q32UniSTS
UniSTS:498691  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,672,314 - 123,673,180 (+)MAPPERmRatBN7.2
Rnor_6.06128,433,094 - 128,433,959NCBIRnor6.0
Rnor_5.06137,631,345 - 137,632,210UniSTSRnor5.0
RGSC_v3.46128,818,853 - 128,819,718UniSTSRGSC3.4
Celera6121,147,795 - 121,148,660UniSTS
Cytogenetic Map6q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6104085867128713626Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6106752656132339866Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6112636280140994061Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6116506292130245370Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)6122549046137801795Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6122549046140286318Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)6122549046140994061Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:76
Count of miRNA genes:64
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000014405
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
Medium 3 26 52 36 19 36 4 4 74 29 34 11 4
Low 17 5 5 5 4 7 6 7 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_008764904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008776310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603281 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC098796 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000014405   ⟹   ENSRNOP00000014405
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6123,631,250 - 123,693,965 (-)Ensembl
Rnor_6.0 Ensembl6128,388,053 - 128,434,183 (-)Ensembl
RefSeq Acc Id: XM_008764904   ⟹   XP_008763126
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,276 (-)NCBI
Rnor_6.06128,388,084 - 128,453,234 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594505   ⟹   XP_017449994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,671,487 (-)NCBI
Rnor_6.06128,388,084 - 128,432,219 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039113358   ⟹   XP_038969286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,627,529 - 123,692,278 (-)NCBI
RefSeq Acc Id: XM_039113359   ⟹   XP_038969287
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,275 (-)NCBI
RefSeq Acc Id: XM_039113360   ⟹   XP_038969288
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,275 (-)NCBI
RefSeq Acc Id: XM_039113361   ⟹   XP_038969289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,278 (-)NCBI
RefSeq Acc Id: XM_039113362   ⟹   XP_038969290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,278 (-)NCBI
RefSeq Acc Id: XM_039113363   ⟹   XP_038969291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,275 (-)NCBI
RefSeq Acc Id: XM_039113364   ⟹   XP_038969292
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,245 - 123,692,275 (-)NCBI
RefSeq Acc Id: XM_039113365   ⟹   XP_038969293
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26123,631,425 - 123,692,278 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_008763126   ⟸   XM_008764904
- Peptide Label: isoform X1
- UniProtKB: E9PU15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449994   ⟸   XM_017594505
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000014405   ⟸   ENSRNOT00000014405
RefSeq Acc Id: XP_038969286   ⟸   XM_039113358
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038969290   ⟸   XM_039113362
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038969289   ⟸   XM_039113361
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038969291   ⟸   XM_039113363
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038969288   ⟸   XM_039113360
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038969292   ⟸   XM_039113364
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038969287   ⟸   XM_039113359
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038969293   ⟸   XM_039113365
- Peptide Label: isoform X3
Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
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/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
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
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
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
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
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
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
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
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
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
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
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
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
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/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
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
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309381 AgrOrtholog
Ensembl Genes ENSRNOG00000010711 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000014405 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014405 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1520.10 UniProtKB/TrEMBL
  3.30.160.380 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7375807 IMAGE-MGC_LOAD
InterPro Dicer_dimer_sf UniProtKB/TrEMBL
  DICER_DSRM UniProtKB/TrEMBL
  Dicer_dsRNA_binding_fold UniProtKB/TrEMBL
  dsRNA-bd-like_dom UniProtKB/TrEMBL
  Helicase/UvrB_N UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  PAZ_dom_sf UniProtKB/TrEMBL
  RNase_III UniProtKB/TrEMBL
  RNase_III_sf UniProtKB/TrEMBL
KEGG Report rno:299284 UniProtKB/TrEMBL
MGC_CLONE MGC:112838 IMAGE-MGC_LOAD
NCBI Gene 299284 ENTREZGENE
Pfam Helicase_C UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  ResIII UniProtKB/TrEMBL
  Ribonuclease_3 UniProtKB/TrEMBL
PhenoGen Dicer1 PhenoGen
PROSITE DICER_DSRBF UniProtKB/TrEMBL
  DS_RBD UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  RNASE_3_1 UniProtKB/TrEMBL
  RNASE_3_2 UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  DSRM UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  RIBOc UniProtKB/TrEMBL
Superfamily-SCOP PAZ UniProtKB/TrEMBL
  RNase_III UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt E9PU15 ENTREZGENE, UniProtKB/TrEMBL
  Q4G034_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Dicer1  dicer 1 ribonuclease III  Dicer1  dicer 1, ribonuclease type III  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Dicer1  dicer 1, ribonuclease type III  Dicer1  Dicer1, Dcr-1 homolog (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Dicer1  Dicer1, Dcr-1 homolog (Drosophila)  Dicer1_predicted  Dicer1, Dcr-1 homolog (Drosophila) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Dicer1_predicted  Dicer1, Dcr-1 homolog (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED