Abl1 (ABL proto-oncogene 1, non-receptor tyrosine kinase) - Rat Genome Database

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Gene: Abl1 (ABL proto-oncogene 1, non-receptor tyrosine kinase) Rattus norvegicus
Analyze
Symbol: Abl1
Name: ABL proto-oncogene 1, non-receptor tyrosine kinase
RGD ID: 1584969
Description: Enables delta-catenin binding activity; protein kinase activity; and protein kinase binding activity. Involved in several processes, including glomerular visceral epithelial cell apoptotic process; positive regulation of cellular component organization; and positive regulation of programmed cell death. Located in several cellular components, including growth cone; neuronal cell body; and ruffle. Biomarker of Parkinson's disease and ureteral obstruction. Human ortholog(s) of this gene implicated in gastrointestinal system cancer (multiple); leukemia (multiple); and lung non-small cell carcinoma. Orthologous to human ABL1 (ABL proto-oncogene 1, non-receptor tyrosine kinase); PARTICIPATES IN p53 signaling pathway; platelet-derived growth factor signaling pathway; cell cycle pathway, mitotic; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',5,5'-tetrabromobisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Abelson murine leukemia viral (v-abl) oncogene homolog 1; Abl; Abl1_mapped; c-abl oncogene 1, non-receptor tyrosine kinase; c-abl oncogene 1, receptor tyrosine kinase; LOC100909750; tyrosine-protein kinase ABL1; tyrosine-protein kinase ABL1-like; v-abl Abelson murine leukemia viral oncogene 1; v-abl Abelson murine leukemia viral oncogene homolog 1; v-abl Abelson murine leukemia viral oncogene homolog 1 (mapped)
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
mRatBN7.2314,979,853 - 15,083,065 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl314,979,853 - 15,083,065 (+)Ensembl
Rnor_6.0310,041,820 - 10,145,076 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl39,410,661 - 9,448,167 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl310,041,826 - 10,144,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0315,401,182 - 15,504,438 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4310,804,594 - 10,907,162NCBIRGSC3.4rn4RGSC3.4
Celera39,728,420 - 9,830,777 (+)NCBICelera
Cytogenetic Map3p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (EXP,ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
4-hydroperoxycyclophosphamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
4-phenylcoumarin  (ISO)
acetaldehyde  (ISO)
all-trans-retinoic acid  (ISO)
alvocidib  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
arsenous acid  (ISO)
ATP  (ISO)
atropine  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
bosutinib  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (ISO)
calcitriol  (ISO)
capsaicin  (ISO)
cisplatin  (EXP,ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crizotinib  (ISO)
Cuprizon  (EXP)
cyproconazole  (EXP)
cytochalasin D  (ISO)
daunorubicin  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
epoxiconazole  (EXP)
gallic acid  (ISO)
genistein  (ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
histamine  (ISO)
hydrogen peroxide  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
mangiferin  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
metformin  (ISO)
methamphetamine  (ISO)
methylmercury chloride  (ISO)
myristicin  (ISO)
Myrtucommulone A  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N,N-dimethylsphingosine  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
nilotinib  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
okadaic acid  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
platycodin D  (ISO)
ponatinib  (ISO)
potassium chloride  (EXP)
purmorphamine  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rottlerin  (ISO)
sodium arsenite  (ISO)
sorafenib  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton organization  (ISO)
actin filament branching  (ISO)
actin filament polymerization  (IMP)
activated T cell proliferation  (ISO)
activation of protein kinase C activity  (ISO)
alpha-beta T cell differentiation  (ISO)
associative learning  (IEP)
B cell proliferation  (ISO)
B cell proliferation involved in immune response  (ISO)
B cell receptor signaling pathway  (ISO)
B-1 B cell homeostasis  (ISO)
Bergmann glial cell differentiation  (ISO)
cell communication  (IEA)
cellular response to DNA damage stimulus  (ISO)
cellular response to hydrogen peroxide  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to oxidative stress  (IEP)
cellular response to transforming growth factor beta stimulus  (IEP)
cerebellum morphogenesis  (ISO)
circulatory system development  (ISO)
collateral sprouting  (ISO)
DNA conformation change  (ISO)
DNA damage induced protein phosphorylation  (ISO)
endothelial cell migration  (ISO)
epidermal growth factor receptor signaling pathway  (ISO)
establishment of protein localization  (ISO)
glomerular visceral epithelial cell apoptotic process  (IMP)
integrin-mediated signaling pathway  (ISO)
learning or memory  (IMP)
microspike assembly  (ISO)
negative regulation of BMP signaling pathway  (ISO)
negative regulation of cell-cell adhesion  (ISO)
negative regulation of cellular senescence  (ISO)
negative regulation of endothelial cell apoptotic process  (ISO)
negative regulation of ERK1 and ERK2 cascade  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of long-term synaptic potentiation  (ISO)
negative regulation of mitotic cell cycle  (ISO)
negative regulation of phospholipase C activity  (ISO)
negative regulation of protein serine/threonine kinase activity  (ISO)
negative regulation of ubiquitin-protein transferase activity  (ISO)
neural tube closure  (ISO)
neuroepithelial cell differentiation  (ISO)
neuromuscular process controlling balance  (ISO)
neuron differentiation  (ISO)
neuropilin signaling pathway  (ISO)
peptidyl-tyrosine autophosphorylation  (ISO)
peptidyl-tyrosine phosphorylation  (IEA,ISO)
phagocytosis  (ISO)
platelet-derived growth factor receptor signaling pathway  (ISO)
platelet-derived growth factor receptor-beta signaling pathway  (ISO)
positive regulation of actin cytoskeleton reorganization  (ISO)
positive regulation of actin filament binding  (ISO)
positive regulation of apoptotic process  (IMP,ISO)
positive regulation of blood vessel branching  (ISO)
positive regulation of cell migration involved in sprouting angiogenesis  (ISO)
positive regulation of cytosolic calcium ion concentration  (ISO)
positive regulation of dendrite development  (IMP)
positive regulation of endothelial cell migration  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of extracellular matrix organization  (IMP)
positive regulation of fibroblast proliferation  (IMP)
positive regulation of focal adhesion assembly  (ISO)
positive regulation of hydrogen peroxide-mediated programmed cell death  (IMP)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
positive regulation of interferon-gamma production  (ISO)
positive regulation of interleukin-2 production  (ISO)
positive regulation of microtubule binding  (ISO)
positive regulation of mitotic cell cycle  (ISO)
positive regulation of neuron apoptotic process  (IMP)
positive regulation of neuron death  (IMP,ISO)
positive regulation of osteoblast proliferation  (ISO)
positive regulation of oxidoreductase activity  (ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of release of sequestered calcium ion into cytosol  (ISO)
positive regulation of stress fiber assembly  (ISO)
positive regulation of substrate adhesion-dependent cell spreading  (ISO)
positive regulation of vasoconstriction  (IMP)
positive regulation of Wnt signaling pathway, planar cell polarity pathway  (ISO)
post-embryonic development  (ISO)
protein autophosphorylation  (IDA,ISO)
protein phosphorylation  (ISO)
regulation of actin cytoskeleton organization  (ISO)
regulation of apoptotic process  (IBA)
regulation of axon extension  (ISO)
regulation of Cdc42 protein signal transduction  (ISO)
regulation of cell cycle  (ISO)
regulation of cell population proliferation  (ISO)
regulation of cellular senescence  (ISO)
regulation of extracellular matrix organization  (ISO)
regulation of microtubule polymerization  (ISO)
regulation of modification of synaptic structure  (IGI,ISO)
regulation of response to DNA damage stimulus  (ISO)
regulation of T cell differentiation  (ISO)
response to endoplasmic reticulum stress  (IDA)
response to epinephrine  (IEP)
response to oxidative stress  (ISO)
response to xenobiotic stimulus  (IEP)
signal transduction in response to DNA damage  (ISO)
signaling  (IEA)
spleen development  (ISO)
substrate adhesion-dependent cell spreading  (ISO)
T cell receptor signaling pathway  (ISO)
thymus development  (ISO)
transitional one stage B cell differentiation  (ISO)

Cellular Component

References

References - curated
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24. Liu Y, etal., Front Oncol. 2020 Aug 11;10:1385. doi: 10.3389/fonc.2020.01385. eCollection 2020.
25. Lu Q, etal., J Neurosci Res. 2002 Mar 1;67(5):618-24.
26. Mahul-Mellier AL, etal., Hum Mol Genet. 2014 Jun 1;23(11):2858-79. doi: 10.1093/hmg/ddt674. Epub 2014 Jan 9.
27. Marin D, etal., Br J Haematol. 2009 May;145(3):373-5. doi: 10.1111/j.1365-2141.2009.07646.x. Epub 2009 Mar 12.
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33. Pipeline to import KEGG annotations from KEGG into RGD
34. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
35. RGD automated data pipeline
36. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
37. RGD automated import pipeline for gene-chemical interactions
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Additional References at PubMed
PMID:2065352   PMID:7565706   PMID:7590236   PMID:7671324   PMID:8438166   PMID:8612582   PMID:8663064   PMID:8806812   PMID:9037071   PMID:9109492   PMID:9144171   PMID:9168116  
PMID:9461559   PMID:9558345   PMID:9636171   PMID:9883720   PMID:10518561   PMID:10713049   PMID:10805805   PMID:10825157   PMID:10970852   PMID:11120811   PMID:11121037   PMID:11279004  
PMID:11390389   PMID:11809706   PMID:11864995   PMID:11971963   PMID:12167702   PMID:12379650   PMID:12384576   PMID:12672821   PMID:12893824   PMID:12944467   PMID:15657060   PMID:15657136  
PMID:17515907   PMID:17626041   PMID:17888034   PMID:18025176   PMID:18280240   PMID:18305217   PMID:18827006   PMID:19228876   PMID:19805123   PMID:20417104   PMID:20585028   PMID:20610769  
PMID:20624904   PMID:20837657   PMID:20980600   PMID:21690296   PMID:22301057   PMID:22665498   PMID:22729085   PMID:23006999   PMID:23100514   PMID:23840065   PMID:24367707   PMID:24520051  
PMID:24700464   PMID:24863063   PMID:26051942   PMID:27226592   PMID:28288113   PMID:28428613   PMID:32399753   PMID:32498644  


Genomics

Comparative Map Data
Abl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2314,979,853 - 15,083,065 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl314,979,853 - 15,083,065 (+)Ensembl
Rnor_6.0310,041,820 - 10,145,076 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl39,410,661 - 9,448,167 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl310,041,826 - 10,144,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0315,401,182 - 15,504,438 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4310,804,594 - 10,907,162NCBIRGSC3.4rn4RGSC3.4
Celera39,728,420 - 9,830,777 (+)NCBICelera
Cytogenetic Map3p12NCBI
ABL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9130,713,016 - 130,887,675 (+)EnsemblGRCh38hg38GRCh38
GRCh389130,713,043 - 130,887,675 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379133,589,268 - 133,763,062 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369132,579,089 - 132,752,883 (+)NCBINCBI36hg18NCBI36
Build 349130,619,260 - 130,792,614NCBI
Celera9104,127,800 - 104,301,349 (+)NCBI
Cytogenetic Map9q34.12NCBI
HuRef9103,075,969 - 103,249,725 (+)NCBIHuRef
CHM1_19133,738,310 - 133,911,675 (+)NCBICHM1_1
Abl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39231,578,256 - 31,697,105 (+)NCBIGRCm39mm39
GRCm39 Ensembl231,578,388 - 31,694,239 (+)Ensembl
GRCm38231,688,244 - 31,807,093 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl231,688,376 - 31,804,227 (+)EnsemblGRCm38mm10GRCm38
MGSCv37231,544,076 - 31,659,747 (+)NCBIGRCm37mm9NCBIm37
MGSCv36231,581,991 - 31,626,236 (+)NCBImm8
Celera231,389,208 - 31,506,940 (+)NCBICelera
Cytogenetic Map2BNCBI
cM Map221.86NCBI
Abl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955513653,252 - 799,239 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955513652,048 - 799,182 (+)NCBIChiLan1.0ChiLan1.0
ABL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19130,482,852 - 130,652,941 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9130,484,333 - 130,652,941 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09101,834,189 - 102,005,811 (+)NCBIMhudiblu_PPA_v0panPan3
ABL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1953,118,462 - 53,262,092 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl953,119,641 - 53,261,307 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha952,318,603 - 52,461,396 (-)NCBI
ROS_Cfam_1.0954,019,016 - 54,162,127 (-)NCBI
ROS_Cfam_1.0 Ensembl954,019,025 - 54,161,522 (-)Ensembl
UMICH_Zoey_3.1952,796,621 - 52,939,392 (-)NCBI
UNSW_CanFamBas_1.0953,117,155 - 53,260,443 (-)NCBI
UU_Cfam_GSD_1.0953,210,098 - 53,353,656 (-)NCBI
Abl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947197,921,710 - 198,051,040 (+)NCBI
SpeTri2.0NW_00493648717,690,206 - 17,819,619 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1270,761,668 - 270,906,711 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11270,761,641 - 270,906,708 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21304,684,385 - 304,829,654 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ABL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1127,258,932 - 7,435,658 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl127,256,648 - 7,312,734 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660798,028,989 - 8,209,295 (+)NCBIVero_WHO_p1.0
Abl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247604,878,811 - 5,032,719 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D3Rat58  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2315,005,422 - 15,005,567 (-)MAPPERmRatBN7.2
Rnor_6.0310,119,318 - 10,119,462NCBIRnor6.0
Rnor_5.0315,478,680 - 15,478,824UniSTSRnor5.0
RGSC_v3.4310,829,503 - 10,829,729RGDRGSC3.4
RGSC_v3.4310,829,519 - 10,829,663UniSTSRGSC3.4
RGSC_v3.1310,725,672 - 10,725,816RGD
Celera39,753,732 - 9,753,876UniSTS
RH 3.4 Map353.9UniSTS
RH 3.4 Map353.9RGD
RH 2.0 Map30.0RGD
SHRSP x BN Map33.4899RGD
FHH x ACI Map36.9RGD
Cytogenetic Map3p12UniSTS
AU028664  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2315,011,531 - 15,011,721 (-)MAPPERmRatBN7.2
Rnor_6.0310,113,166 - 10,113,353NCBIRnor6.0
Rnor_5.0315,472,528 - 15,472,715UniSTSRnor5.0
RGSC_v3.4310,835,628 - 10,835,815UniSTSRGSC3.4
Celera39,759,841 - 9,760,031UniSTS
Cytogenetic Map3p12UniSTS
RH128159  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2315,082,670 - 15,082,851 (-)MAPPERmRatBN7.2
Rnor_6.039,409,407 - 9,409,587NCBIRnor6.0
Rnor_6.0310,042,034 - 10,042,214NCBIRnor6.0
Rnor_5.0315,401,396 - 15,401,576UniSTSRnor5.0
Rnor_5.0314,769,202 - 14,769,382UniSTSRnor5.0
RGSC_v3.4310,906,768 - 10,906,948UniSTSRGSC3.4
Celera39,830,388 - 9,830,568UniSTS
RH 3.4 Map359.0UniSTS
Cytogenetic Map3p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)31077870450302886Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)31077882330356773Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:193
Count of miRNA genes:142
Interacting mature miRNAs:154
Transcripts:ENSRNOT00000042495
Prediction methods:Miranda, Rnahybrid
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 6 6 2 6 62 23 33 5
Low 17 51 35 17 35 8 11 12 12 8 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000012617   ⟹   ENSRNOP00000012617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl39,410,661 - 9,448,167 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000042495   ⟹   ENSRNOP00000044534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl314,979,853 - 15,083,065 (+)Ensembl
Rnor_6.0 Ensembl310,041,826 - 10,144,388 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000043661   ⟹   ENSRNOP00000042940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl39,410,661 - 9,447,813 (-)Ensembl
RefSeq Acc Id: NM_001100850   ⟹   NP_001094320
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2314,979,853 - 15,083,065 (+)NCBI
Rnor_6.0310,041,820 - 10,145,076 (-)NCBI
Rnor_5.0315,401,182 - 15,504,438 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233918   ⟹   XP_006233980
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,043,987 - 15,083,060 (+)NCBI
Rnor_6.0310,041,826 - 10,080,881 (-)NCBI
Rnor_5.0315,401,182 - 15,504,438 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001094320 (Get FASTA)   NCBI Sequence Viewer  
  XP_006233980 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABC46642 (Get FASTA)   NCBI Sequence Viewer  
  ABC46643 (Get FASTA)   NCBI Sequence Viewer  
  EDL93267 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001094320   ⟸   NM_001100850
- UniProtKB: E9PT20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233980   ⟸   XM_006233918
- Peptide Label: isoform X1
- UniProtKB: D3ZGM3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000044534   ⟸   ENSRNOT00000042495
RefSeq Acc Id: ENSRNOP00000012617   ⟸   ENSRNOT00000012617
RefSeq Acc Id: ENSRNOP00000042940   ⟸   ENSRNOT00000043661
Protein Domains
Protein kinase   SH2   SH3

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)
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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
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
ACI/N (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (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
F344/NRrrc (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
F344/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
FHH/EurMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
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)
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
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
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)
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
FXLE16/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
FXLE18/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
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
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)
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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (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
HXB10/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/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
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)
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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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/NCrlBR (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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/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
LEXF1A/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
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)
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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
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)
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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
LL/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
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)
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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
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)
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
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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1584969 AgrOrtholog
Ensembl Genes ENSRNOG00000009371 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000047356 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000012617 UniProtKB/TrEMBL
  ENSRNOP00000042940 UniProtKB/TrEMBL
  ENSRNOP00000044534 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012617 UniProtKB/TrEMBL
  ENSRNOT00000042495 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000043661 UniProtKB/TrEMBL
Gene3D-CATH 3.30.505.10 UniProtKB/TrEMBL
InterPro ABL1 UniProtKB/TrEMBL
  ABL_SH2 UniProtKB/TrEMBL
  F-actin_binding UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser-Thr/Tyr-Pkinase UniProtKB/TrEMBL
  SH2 UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/TrEMBL
  SH3-like_dom UniProtKB/TrEMBL
  SH3_domain UniProtKB/TrEMBL
  Tyr_Pkinase_cat_dom UniProtKB/TrEMBL
  Tyr_prot_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:311860 UniProtKB/TrEMBL
NCBI Gene 311860 ENTREZGENE
PANTHER PTHR24418:SF162 UniProtKB/TrEMBL
Pfam F_actin_bind UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/TrEMBL
  SH2 UniProtKB/TrEMBL
  SH3_1 UniProtKB/TrEMBL
PharmGKB ABL1 RGD
PhenoGen Abl1 PhenoGen
PRINTS SH2DOMAIN UniProtKB/TrEMBL
  TYRKINASE UniProtKB/TrEMBL
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/TrEMBL
  SH2 UniProtKB/TrEMBL
  SH3 UniProtKB/TrEMBL
SMART FABD UniProtKB/TrEMBL
  SH2 UniProtKB/TrEMBL
  SH3 UniProtKB/TrEMBL
  TyrKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
  SH3 UniProtKB/TrEMBL
  SSF55550 UniProtKB/TrEMBL
UniProt D3ZGM3 ENTREZGENE, UniProtKB/TrEMBL
  E9PT20 ENTREZGENE, UniProtKB/TrEMBL
  F1M0A6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Abl1  ABL proto-oncogene 1, non-receptor tyrosine kinase  LOC100909750  tyrosine-protein kinase ABL1-like  Data Merged 737654 PROVISIONAL
2014-07-09 Abl1  ABL proto-oncogene 1, non-receptor tyrosine kinase  Abl1  c-abl oncogene 1, non-receptor tyrosine kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100909750  tyrosine-protein kinase ABL1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2011-07-28 Abl1  c-abl oncogene 1, non-receptor tyrosine kinase  Abl1  c-abl oncogene 1, receptor tyrosine kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-09-17 Abl1  c-abl oncogene 1, receptor tyrosine kinase  Abl1  c-abl oncogene 1, non-receptor tyrosine kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-08-23 Abl1  c-abl oncogene 1, non-receptor tyrosine kinase  Abl1  c-abl oncogene 1, receptor tyrosine kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-10 Abl1  c-abl oncogene 1, receptor tyrosine kinase  Abl1  v-abl Abelson murine leukemia viral oncogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-26 Abl1  v-abl Abelson murine leukemia viral oncogene 1  Abl1  v-abl Abelson murine leukemia viral oncogene homolog 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-05 Abl1  v-abl Abelson murine leukemia viral oncogene homolog 1  Abl1  v-abl Abelson murine leukemia viral oncogene homolog 1 (mapped)  Name updated 737654 APPROVED
2007-04-05 Abl1  v-abl Abelson murine leukemia viral oncogene homolog 1 (mapped)  Abl1_mapped  v-abl Abelson murine leukemia viral oncogene homolog 1 (mapped)  Data Merged 737654 APPROVED
2005-11-17 Abl1_mapped  v-abl Abelson murine leukemia viral oncogene homolog 1 (mapped)  Abl1  Abelson murine leukemia viral (v-abl) oncogene homolog 1  Symbol and Name updated 1556543 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease may be associated with chronic myeloid leukemia 1298612
gene_expression mRNA levels elevated during the preleukemic stage in the spleen of juvenile LE rats 1298613