Csf2 (colony stimulating factor 2) - Rat Genome Database

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Gene: Csf2 (colony stimulating factor 2) Rattus norvegicus
Analyze
Symbol: Csf2
Name: colony stimulating factor 2
RGD ID: 621065
Description: Enables cytokine activity. Involved in several processes, including cellular response to lipopolysaccharide; macrophage activation; and response to silicon dioxide. Located in extracellular space. Used to study Parkinsonism and myocardial infarction. Biomarker of abdominal aortic aneurysm; interstitial cystitis; and lung disease (multiple). Human ortholog(s) of this gene implicated in acute myeloid leukemia; juvenile myelomonocytic leukemia; neutropenia; pulmonary alveolar proteinosis; and visceral leishmaniasis. Orthologous to human CSF2 (colony stimulating factor 2); PARTICIPATES IN Fc epsilon receptor mediated signaling pathway; granulocyte-macrophage colony-stimulating factor signaling pathway; syndecan signaling pathway; INTERACTS WITH (+)-pilocarpine; 2-amino-2-deoxy-D-glucopyranose; 7,12-dimethyltetraphene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: colony stimulating factor 2 (granulocyte-macrophage); colony-stimulating factor; CSF; Gm-csf; Gmcsf; granulocyte-macrophage colony-stimulating factor
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
mRatBN7.21038,386,945 - 38,388,926 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1039,602,089 - 39,604,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01039,602,089 - 39,604,070 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01039,379,120 - 39,381,430 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,665,850 - 39,667,831 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11039,679,472 - 39,681,403 (-)NCBI
Celera1037,727,629 - 37,729,611 (-)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
abdominal aortic aneurysm  (IEP)
acute myeloid leukemia  (ISO)
agranulocytosis  (ISO)
amnestic disorder  (ISO)
anemia  (ISO)
aplastic anemia  (ISO)
asthma  (ISO)
B-cell lymphoma  (ISO)
Bacteremia  (ISO)
Brain Injuries  (IDA)
Breast Neoplasms  (ISO)
bronchiolitis obliterans  (IEP)
carcinoma  (ISO)
chronic obstructive pulmonary disease  (ISO)
colon adenocarcinoma  (ISO)
Colorectal Neoplasms  (ISO)
congestive heart failure  (ISO)
Cough  (ISO)
COVID-19  (ISO)
disease of cellular proliferation  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
eyelid disease  (ISO)
familial adenomatous polyposis 1  (ISO)
Femoral Fractures  (IEP)
Gastrointestinal Hemorrhage  (ISO)
hepatocellular carcinoma  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
Human Influenza  (ISO)
Inflammation  (ISO)
interstitial cystitis  (IEP)
juvenile myelomonocytic leukemia  (ISO)
Limb Ischemia  (ISO)
Liver Neoplasms  (ISO)
Lymphoma, AIDS-Related  (ISO)
melanoma  (ISO)
mucositis  (ISO)
multiple myeloma  (ISO)
Muscle Weakness  (ISO)
myocardial infarction  (IMP)
Neoplasm, Residual  (ISO)
neural tube defect  (ISO)
Neurodevelopmental Disorders  (ISO)
neutropenia  (ISO)
non-alcoholic fatty liver disease  (ISO)
non-Hodgkin lymphoma  (ISO)
Pain  (ISO)
Parkinsonism  (IDA)
pneumocystosis  (IEP)
pneumonia  (ISO)
Pseudomonas Infections  (ISO)
psoriasis  (ISO)
pulmonary alveolar proteinosis  (ISO,ISS)
pulmonary fibrosis  (IEP,ISO)
Radiation Injuries  (ISO)
rheumatoid arthritis  (ISO)
sarcoma  (ISO)
schizophrenia  (ISO)
Sepsis  (ISO)
silicosis  (IEP)
Spinal Cord Injuries  (ISO)
systemic primary carnitine deficiency disease  (ISO)
temporal arteritis  (ISO)
thrombocytopenia  (ISO)
Thyroid Neoplasms  (ISO)
Venous Thrombosis  (ISO)
Viral Bronchiolitis  (ISO)
visceral leishmaniasis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(S)-colchicine  (ISO)
(S)-nicotine  (ISO)
1,4-benzoquinone  (ISO)
1,4-phenylenediamine  (ISO)
1-[2-(3,4-dichlorophenyl)ethyl]-4-methylpiperazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-nitroquinoline N-oxide  (ISO)
4-nonylphenol  (ISO)
5-fluorouracil  (ISO)
5-oxo-ETE  (ISO)
7,12-dimethyltetraphene  (EXP,ISO)
7-ketocholesterol  (ISO)
acetaldehyde  (ISO)
acetylcholine  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
albuterol  (ISO)
alclometasone dipropionate  (ISO)
aldehydo-D-glucosamine  (EXP)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
aluminium hydroxide  (ISO)
aluminium oxide  (ISO)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
ampicillin  (ISO)
andrastin A  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
anthracene-1,8,9-triol  (ISO)
apocynin  (ISO)
aripiprazole  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (EXP,ISO)
asbestos  (ISO)
atorvastatin calcium  (ISO)
ATP  (ISO)
baicalein  (ISO)
beclomethasone  (ISO)
benzalkonium chloride  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (EXP)
betamethasone valerate  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
boric acid  (ISO)
brefeldin A  (ISO)
budesonide  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
Calcimycin  (EXP,ISO)
calcitriol  (ISO)
capsaicin  (EXP)
carbon nanotube  (ISO)
carmustine  (ISO)
carvedilol  (ISO)
chenodeoxycholic acid  (ISO)
choline  (ISO)
ciprofloxacin  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
cobalt atom  (EXP,ISO)
columbamine  (ISO)
cortisol  (ISO)
crocidolite asbestos  (ISO)
crotonaldehyde  (ISO)
cyanidin cation  (EXP,ISO)
cycloheximide  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (ISO)
cytochalasin B  (ISO)
cytochalasin D  (ISO)
D-penicillamine  (EXP)
deoxycholic acid  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (EXP,ISO)
dichlorine  (ISO)
dihydroxyacetone  (ISO)
dinitrogen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ethyl acetate  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
fenofibrate  (EXP)
ferroheme b  (ISO)
flavonoids  (EXP)
fluticasone  (ISO)
formaldehyde  (ISO)
formoterol fumarate  (ISO)
fulvestrant  (ISO)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glycyrrhetinate  (ISO)
glycyrrhetinic acid  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
graphite  (ISO)
GW 4064  (ISO)
heme b  (ISO)
histamine  (EXP,ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
IC-87114  (ISO)
indometacin  (ISO)
ionomycin  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
iron(2+) sulfate (anhydrous)  (ISO)
isotretinoin  (EXP)
kaempferol  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
leukotriene B4  (ISO)
leukotriene D4  (ISO)
linuron  (ISO)
lipoarabinomannan  (ISO)
lipopolysaccharide  (EXP,ISO)
lipoteichoic acid  (ISO)
luteolin  (EXP,ISO)
LY294002  (ISO)
manganese(II) chloride  (EXP,ISO)
mangiferin  (ISO)
mercury dichloride  (ISO)
metam  (ISO)
methanol  (ISO)
metronidazole  (ISO)
microcystin-LR  (ISO)
ML-7  (ISO)
mometasone furoate  (ISO)
monensin A  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (ISO)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP)
NAD zwitterion  (ISO)
NAD(+)  (ISO)
naproxen  (EXP)
neomycin  (ISO)
nickel atom  (EXP)
nickel dichloride  (ISO)
nicotine  (ISO)
nitrates  (EXP)
nitric oxide  (EXP,ISO)
nitro blue tetrazolium dichloride  (ISO)
nitrogen dioxide  (ISO)
nocodazole  (ISO)
octadecanoic acid  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
pentanal  (ISO)
peptidoglycan  (ISO)
permethrin  (EXP)
phenethyl isothiocyanate  (ISO)
Phomenone  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pimecrolimus  (ISO)
piperine  (ISO)
poly(ethylene)  (ISO)
poly(I:C)  (ISO)
polymyxin B2  (ISO)
pomalidomide  (ISO)
procyanidin B3  (ISO)
propan-2-ol  (ISO)
prostaglandin E2  (ISO)
Pyridostigmine bromide  (EXP)
quartz  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rutin  (ISO)
Salmeterol xinafoate  (ISO)
SB 203580  (ISO)
scopolamine  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
spironolactone  (ISO)
staurosporine  (ISO)
sulfasalazine  (ISO)
sulforaphane  (ISO)
sumatriptan  (EXP)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
taurocholic acid  (ISO)
temozolomide  (ISO)
thalidomide  (ISO)
theophylline  (ISO)
thymidine  (ISO)
tipifarnib  (ISO)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
triamcinolone acetonide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tubocurarine  (ISO)
tungsten  (EXP)
tyrphostin AG 1478  (ISO)
U-73122  (ISO)
urethane  (ISO)
usnic acid  (ISO)
vanadyl sulfate  (ISO)
vancomycin  (ISO)
vincristine  (ISO)
vitamin K  (EXP)
wortmannin  (ISO)
zearalenone  (ISO)
zidovudine  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc oxide  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to granulocyte macrophage colony-stimulating factor stimulus  (ISO)
cellular response to lipopolysaccharide  (IEP)
dendritic cell differentiation  (IDA,ISO)
embryonic placenta development  (ISO)
epithelial cell proliferation  (TAS)
epithelial fluid transport  (IDA)
ERK1 and ERK2 cascade  (ISO)
histamine secretion  (IDA)
immune response  (IEA)
macrophage activation  (IMP)
macrophage differentiation  (ISO)
monocyte differentiation  (ISO)
myeloid cell differentiation  (IBA)
myeloid dendritic cell differentiation  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
negative regulation of transcription, DNA-templated  (ISO)
neutrophil differentiation  (ISO)
phosphatidylinositol 3-kinase signaling  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of interleukin-23 production  (ISO)
positive regulation of macrophage derived foam cell differentiation  (ISO)
positive regulation of macrophage differentiation  (TAS)
positive regulation of podosome assembly  (ISO)
positive regulation of trophectodermal cell proliferation  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO)
protein kinase B signaling  (ISO)
regulation of cell population proliferation  (ISO)
regulation of circadian sleep/wake cycle, sleep  (IMP)
regulation of gene expression  (ISO)
response to fluid shear stress  (IEP)
response to silicon dioxide  (IEP)
signal transduction  (IEA)
TOR signaling  (ISO)

Cellular Component

Molecular Function

References

References - curated
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2. Badaro R, etal., J Infect Dis. 1994 Aug;170(2):413-8.
3. Bermudez LE, etal., Cytokine. 1990 Jul;2(4):287-93.
4. Bosnar M, etal., J Pharmacol Exp Ther. 2009 Oct;331(1):104-13. Epub 2009 Jul 24.
5. Cannistra SA, etal., Leukemia. 1991 Mar;5(3):230-8.
6. Chang CM, etal., Blood. 1995 Sep 15;86(6):2130-6.
7. Choi J, etal., Pediatr Allergy Immunol. 2010 May;21(3):474-9. Epub 2009 Jan 14.
8. Danielyan L, etal., Rejuvenation Res. 2011 Feb;14(1):3-16. Epub 2011 Feb 3.
9. Dougan M, etal., J Clin Invest. 2011 Jun 1;121(6):2436-46. doi: 10.1172/JCI44796. Epub 2011 May 2.
10. Frenck RW, etal., J Infect Dis. 1990 Jul;162(1):109-14.
11. Gao HS, etal., Toxicol Ind Health. 2011 Aug;27(7):607-16. doi: 10.1177/0748233710393778. Epub 2011 Apr 19.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Gibson PG, etal., J Allergy Clin Immunol. 1998 Mar;101(3):320-6.
14. Ha Y, etal., J Neurosurg Spine. 2005 Jan;2(1):55-61.
15. Holowachuk EW and Ruhoff MS, Protein Expr Purif. 1995 Oct;6(5):588-96.
16. Huang C, etal., Lancet. 2020 Feb 15;395(10223):497-506. doi: 10.1016/S0140-6736(20)30183-5. Epub 2020 Jan 24.
17. Huang FF, etal., Am J Respir Crit Care Med. 2011 Apr 7.
18. Huang H, etal., Cytokine. 2010 Aug;51(2):151-7. Epub 2010 Apr 27.
19. Iversen PO, etal., Blood. 1997 Dec 15;90(12):4910-7.
20. Jawan B, etal., Toxicol Appl Pharmacol. 2008 Jun 15;229(3):362-73. Epub 2008 Feb 21.
21. Jin DK, etal., Nat Med. 2006 May;12(5):557-67. Epub 2006 Apr 30.
22. Kantar M, etal., Eur J Pediatr. 2000 Mar;159(3):156-7.
23. Kaschina E, etal., Physiol Genomics 2004 Sep 16;19(1):41-9. Epub 2004 Jul 06.
24. Kavuru MS, etal., Eur Respir J. 2011 Apr 8.
25. Kellar RS, etal., J Cardiovasc Pharmacol. 2011 Feb 12.
26. Kimura M and Inoue S, Psychiatry Clin Neurosci. 2002 Jun;56(3):337-8.
27. Lasbury ME, etal., Infect Immun. 2009 Aug;77(8):3344-54. Epub 2009 Jun 1.
28. Lechanteur C, etal., Cancer Gene Ther. 2000 May;7(5):676-82.
29. Lei XF, etal., Clin Exp Immunol. 1998 Aug;113(2):157-65.
30. Li B, etal., Am J Transplant. 2008 Aug;8(8):1614-21. Epub 2008 Jun 28.
31. Luo X, etal., PLoS One. 2010 Apr 13;5(4):e10149.
32. MGD data from the GO Consortium
33. NCBI rat LocusLink and RefSeq merged data July 26, 2002
34. Nishihara T, etal., Exp Neurol. 2011 Jun;229(2):507-16. Epub 2011 Apr 16.
35. Orphanos V, etal., Clin Exp Rheumatol. 1998 Nov-Dec;16(6):683-8.
36. Pelaez A, etal., Am J Physiol Lung Cell Mol Physiol 2004 Jan;286(1):L106-11. Epub 2003 Sep 22.
37. Pipeline to import KEGG annotations from KEGG into RGD
38. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
39. Pipeline to import SMPDB annotations from SMPDB into RGD
40. Ray M, etal., Indian J Pediatr. 2000 Jan;67(1):67-8.
41. RGD automated data pipeline
42. RGD automated import pipeline for gene-chemical interactions
43. Saha S, etal., Thorax. 2009 Aug;64(8):671-6. Epub 2009 Feb 12.
44. Sears BW, etal., J Inflamm Res. 2010 Aug 1;2010(3):105-114.
45. Seymour JF, etal., Am J Respir Crit Care Med. 2001 Feb;163(2):524-31.
46. Seymour JF, etal., Blood. 1998 Oct 15;92(8):2657-67.
47. Shiraishi M, etal., Biochim Biophys Acta. 1998 Jul 24;1403(3):273-80.
48. Sho E, etal., Exp Mol Pathol. 2004 Apr;76(2):108-16.
49. Smaldone MC, etal., Urology. 2009 Feb;73(2):421-6. Epub 2008 Oct 9.
50. Smith LR, etal., Immunogenetics 1994;39(1):80.
51. Tai KF, etal., J Gene Med. 2003 May;5(5):386-98.
52. Tao MH and Levy R, Nature. 1993 Apr 22;362(6422):755-8.
53. Zorzi P, etal., J Leukoc Biol. 2010 Nov;88(5):1051-9. Epub 2010 Jul 13.
Additional References at PubMed
PMID:1350248   PMID:3925454   PMID:7690439   PMID:9697835   PMID:9722506   PMID:10652277   PMID:10666185   PMID:10678181   PMID:12021780   PMID:12071442   PMID:14557677   PMID:14651956  
PMID:15220135   PMID:15958400   PMID:16116184   PMID:16276414   PMID:16606666   PMID:16792532   PMID:16877635   PMID:17457367   PMID:17478029   PMID:17953750   PMID:18832728   PMID:19022682  
PMID:19032770   PMID:19109256   PMID:19228596   PMID:19560459   PMID:20027291   PMID:21148126   PMID:21149635   PMID:21932404   PMID:24520418   PMID:24942581   PMID:25677907   PMID:27364613  
PMID:28550897   PMID:28898718  


Genomics

Comparative Map Data
Csf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21038,386,945 - 38,388,926 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1039,602,089 - 39,604,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01039,602,089 - 39,604,070 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01039,379,120 - 39,381,430 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,665,850 - 39,667,831 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11039,679,472 - 39,681,403 (-)NCBI
Celera1037,727,629 - 37,729,611 (-)NCBICelera
Cytogenetic Map10q22NCBI
CSF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5132,073,789 - 132,076,170 (+)EnsemblGRCh38hg38GRCh38
GRCh385132,073,789 - 132,076,170 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375131,409,482 - 131,411,863 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365131,437,384 - 131,439,758 (+)NCBINCBI36hg18NCBI36
Build 345131,437,383 - 131,439,758NCBI
Celera5127,539,561 - 127,541,935 (+)NCBI
Cytogenetic Map5q31.1NCBI
HuRef5126,601,846 - 126,604,224 (+)NCBIHuRef
CHM1_15130,842,312 - 130,844,690 (+)NCBICHM1_1
Csf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391154,138,096 - 54,140,725 (-)NCBIGRCm39mm39
GRCm39 Ensembl1154,138,097 - 54,140,493 (-)Ensembl
GRCm381154,247,270 - 54,249,899 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1154,247,271 - 54,249,667 (-)EnsemblGRCm38mm10GRCm38
MGSCv371154,060,772 - 54,063,401 (-)NCBIGRCm37mm9NCBIm37
MGSCv361154,090,687 - 54,093,065 (-)NCBImm8
Celera1158,835,805 - 58,838,455 (-)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1132.13NCBI
Csf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554083,451,965 - 3,454,312 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554083,452,009 - 3,454,255 (+)NCBIChiLan1.0ChiLan1.0
CSF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15133,660,775 - 133,663,146 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5133,660,775 - 133,663,146 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05127,496,951 - 127,499,325 (+)NCBIMhudiblu_PPA_v0panPan3
CSF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11120,342,880 - 20,346,959 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1120,344,648 - 20,346,959 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1119,140,218 - 19,142,512 (+)NCBI
ROS_Cfam_1.01121,128,373 - 21,132,476 (+)NCBI
UMICH_Zoey_3.11119,849,460 - 19,851,754 (+)NCBI
UNSW_CanFamBas_1.01119,697,439 - 19,699,733 (+)NCBI
UU_Cfam_GSD_1.01120,339,024 - 20,341,318 (+)NCBI
Csf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213116,079,008 - 116,081,102 (-)NCBI
SpeTri2.0NW_0049366473,081,896 - 3,083,864 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2134,354,724 - 134,357,155 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12134,354,724 - 134,357,155 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22139,706,386 - 139,708,817 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CSF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12334,906,987 - 34,911,252 (+)NCBI
ChlSab1.1 Ensembl2334,908,911 - 34,911,140 (+)Ensembl
Vero_WHO_p1.0NW_02366603443,046,561 - 43,048,998 (-)NCBI
Csf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473340,039,127 - 40,041,294 (-)NCBI


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103449055945579777Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:77
Interacting mature miRNAs:91
Transcripts:ENSRNOT00000032333
Prediction methods: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 renal system reproductive system respiratory system appendage
High
Medium 2
Low 8 9 9
Below cutoff 3 3 4 4 9 4 1 1 5 12 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000032333   ⟹   ENSRNOP00000034235
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1039,602,089 - 39,604,070 (-)Ensembl
RefSeq Acc Id: NM_053852   ⟹   NP_446304
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21038,386,945 - 38,388,926 (-)NCBI
Rnor_6.01039,602,089 - 39,604,070 (-)NCBI
Rnor_5.01039,379,120 - 39,381,430 (-)NCBI
Celera1037,727,629 - 37,729,611 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_446304 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA18281 (Get FASTA)   NCBI Sequence Viewer  
  EDM04426 (Get FASTA)   NCBI Sequence Viewer  
  P48750 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446304   ⟸   NM_053852
- Peptide Label: precursor
- UniProtKB: P48750 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000034235   ⟸   ENSRNOT00000032333

Transcriptome

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

Promoters
RGD ID:13697187
Promoter ID:EPDNEW_R7711
Type:single initiation site
Name:Csf2_1
Description:colony stimulating factor 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01039,604,102 - 39,604,162EPDNEW

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)
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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)
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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/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)
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)
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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)
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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
LEXF2B/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
LEXF3/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
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)
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
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)
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
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)
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
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)
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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:621065 AgrOrtholog
Ensembl Genes ENSRNOG00000026805 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000034235 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000032333 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro 4_helix_cytokine-like_core UniProtKB/Swiss-Prot
  GM_colony-stim-fac UniProtKB/Swiss-Prot
KEGG Report rno:116630 UniProtKB/Swiss-Prot
NCBI Gene 116630 ENTREZGENE
PANTHER PTHR10059 UniProtKB/Swiss-Prot
Pfam GM_CSF UniProtKB/Swiss-Prot
PhenoGen Csf2 PhenoGen
PRINTS GMCSFACTOR UniProtKB/Swiss-Prot
PROSITE GM_CSF UniProtKB/Swiss-Prot
SMART CSF2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47266 UniProtKB/Swiss-Prot
UniProt CSF2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 Csf2  colony stimulating factor 2  Csf2  colony stimulating factor 2 (granulocyte-macrophage)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Csf2  colony stimulating factor 2 (granulocyte-macrophage)      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Csf2  colony stimulating factor 2 (granulocyte-macrophage)      Symbol and Name status set to provisional 70820 PROVISIONAL