Lif (LIF, interleukin 6 family cytokine) - Rat Genome Database

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Gene: Lif (LIF, interleukin 6 family cytokine) Rattus norvegicus
Analyze
Symbol: Lif
Name: LIF, interleukin 6 family cytokine
RGD ID: 620865
Description: Exhibits leukemia inhibitory factor receptor binding activity. Involved in several processes, including negative regulation of angiogenesis; positive regulation of corticotropin secretion; and transdifferentiation. Localizes to extracellular space. Biomarker of brain ischemia and congestive heart failure. Orthologous to human LIF (LIF interleukin 6 family cytokine); PARTICIPATES IN cytokine mediated signaling pathway; Jak-Stat signaling pathway; INTERACTS WITH (+)-pilocarpine; 1,3-dinitrobenzene; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cholinergic neuronal differentiation factor; leukemia inhibitory factor; leukemia inhibitory factor (cholinergic differentiation factor)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21479,131,049 - 79,140,486 (+)NCBI
Rnor_6.0 Ensembl1484,482,674 - 84,500,642 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,482,652 - 84,500,574 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01485,163,603 - 85,181,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,887,856 - 84,890,630 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11484,907,000 - 84,909,775 (+)NCBI
Celera1478,044,967 - 78,047,741 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(-)-demecolcine  (ISO)
1,1-dichloroethene  (ISO)
1,3-dinitrobenzene  (EXP)
1-naphthyl isothiocyanate  (EXP)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-diaminotoluene  (ISO)
2,4-dinitrobenzenesulfonic acid  (ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (EXP)
2-butoxyethanol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methyl-3H-imidazo[4,5-f]quinolin-2-amine  (ISO)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-methylene-bis-(2-chloroaniline)  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-nitro-1,2-phenylenediamine  (ISO)
4-tert-Octylphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
8-Br-cAMP  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
aripiprazole  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzoates  (ISO)
benzyl alcohol  (ISO)
beta-naphthoflavone  (ISO)
bilirubin IXalpha  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
cadmium atom  (ISO)
calciol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
calyculin a  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chlorambucil  (ISO)
ciglitazone  (ISO)
cisplatin  (ISO)
clomiphene  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
corticosterone  (EXP,ISO)
coumaphos  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (EXP,ISO)
D-glucose  (ISO)
DDT  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dichloroacetic acid  (ISO)
diisopropyl fluorophosphate  (EXP,ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP,ISO)
Ethyl acrylate  (ISO)
ethyl methanesulfonate  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (EXP)
etoposide  (ISO)
fenamidone  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
gamma-aminobutyric acid  (ISO)
gamma-hexachlorocyclohexane  (ISO)
genistein  (ISO)
geraniol  (ISO)
glucose  (ISO)
glyphosate  (EXP,ISO)
gold atom  (ISO)
gold(0)  (ISO)
herbicide  (EXP)
hydrogen peroxide  (ISO)
isoflavones  (ISO)
Lasiocarpine  (ISO)
lead diacetate  (EXP)
leflunomide  (ISO)
letrozole  (ISO)
limonene  (ISO)
linuron  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (EXP)
MeIQx  (ISO)
menadione  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP,ISO)
methyl methanesulfonate  (ISO)
N,N-diethyl-m-toluamide  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-Nitrosopyrrolidine  (ISO)
Nicardipine  (EXP)
nickel sulfate  (ISO)
nitric oxide  (ISO)
O-methyleugenol  (ISO)
ozone  (EXP,ISO)
p-tert-Amylphenol  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
physostigmine  (ISO)
potassium chromate  (ISO)
potassium dichromate  (EXP)
progesterone  (ISO)
puerarin  (EXP)
Pyridostigmine bromide  (ISO)
pyrrolidine dithiocarbamate  (EXP)
quercetin  (ISO)
quinolin-8-ol  (ISO)
resorcinol  (ISO)
resveratrol  (ISO)
ritonavir  (ISO)
SB 203580  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
succimer  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triclosan  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
valsartan  (ISO)
vanadyl sulfate  (ISO)
verapamil  (EXP)
vinclozolin  (EXP)
vincristine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ regeneration  (IEP,IMP)
astrocyte differentiation  (IMP)
blood vessel remodeling  (IEA,ISO)
decidualization  (IEA,ISO)
embryo implantation  (IEA,ISO)
immune response  (IEA)
leukemia inhibitory factor signaling pathway  (IBA,IEA,ISO)
lung alveolus development  (IEA,ISO)
lung development  (ISO)
lung lobe morphogenesis  (IEA,ISO)
lung vasculature development  (IEA,ISO)
maternal process involved in female pregnancy  (ISO)
muscle organ morphogenesis  (IEA,ISO)
negative regulation of angiogenesis  (IDA)
negative regulation of cell population proliferation  (IEA,ISO)
negative regulation of ERK1 and ERK2 cascade  (IEA,ISO)
negative regulation of hormone secretion  (ISO)
negative regulation of meiotic nuclear division  (IEA,ISO)
neuron development  (IEA,ISO)
positive regulation of astrocyte differentiation  (IEA,ISO)
positive regulation of cell adhesion mediated by integrin  (IEA,ISO)
positive regulation of cell population proliferation  (IBA,IEA,ISO)
positive regulation of corticotropin secretion  (IDA)
positive regulation of gene expression  (IEA,ISO)
positive regulation of histone H3-K27 acetylation  (IEA,ISO)
positive regulation of macrophage differentiation  (ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis  (IEA,ISO)
positive regulation of neuron projection development  (IDA)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of peptidyl-serine phosphorylation of STAT protein  (IEA,ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of protein localization to nucleus  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (IEA,ISO)
regulation of cell differentiation  (IBA,ISO)
regulation of metanephric nephron tubule epithelial cell differentiation  (IEA,ISO)
regulation of RNA polymerase II regulatory region sequence-specific DNA binding  (IEA,ISO)
retina development in camera-type eye  (IDA)
spongiotrophoblast differentiation  (IEA,ISO)
stem cell differentiation  (IEA,ISO)
stem cell population maintenance  (IEA,ISO)
transdifferentiation  (IMP)
trophoblast giant cell differentiation  (IEA,ISO)
tyrosine phosphorylation of STAT protein  (IEA,ISO)

Cellular Component
cytosol  (IEA,ISO)
extracellular space  (IBA,IDA,IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1522892   PMID:7508917   PMID:7867561   PMID:7957045   PMID:7959007   PMID:8385113   PMID:8999038   PMID:9671398   PMID:10486560   PMID:11203703   PMID:12397370   PMID:12643274  
PMID:15012602   PMID:15044319   PMID:15131589   PMID:15358627   PMID:15572029   PMID:15716414   PMID:16258063   PMID:16409782   PMID:16489116   PMID:16691571   PMID:17001659   PMID:17045017  
PMID:17828489   PMID:18032527   PMID:18258298   PMID:18469139   PMID:20624457   PMID:20629319   PMID:21385842   PMID:21446866   PMID:22291973   PMID:22783022   PMID:22905257   PMID:22939972  
PMID:22949634   PMID:24006456   PMID:24008729   PMID:25229963   PMID:25639936   PMID:25907681   PMID:26352383   PMID:26723254   PMID:27661001   PMID:29222114  


Genomics

Comparative Map Data
Lif
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21479,131,049 - 79,140,486 (+)NCBI
Rnor_6.0 Ensembl1484,482,674 - 84,500,642 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,482,652 - 84,500,574 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01485,163,603 - 85,181,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,887,856 - 84,890,630 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11484,907,000 - 84,909,775 (+)NCBI
Celera1478,044,967 - 78,047,741 (+)NCBICelera
Cytogenetic Map14q21NCBI
LIF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2230,240,453 - 30,246,759 (-)EnsemblGRCh38hg38GRCh38
GRCh382230,240,453 - 30,257,487 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372230,636,442 - 30,642,748 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,966,441 - 28,972,748 (-)NCBINCBI36hg18NCBI36
Build 342228,960,996 - 28,967,302NCBI
Celera2214,436,129 - 14,442,479 (-)NCBI
Cytogenetic Map22q12.2NCBI
HuRef2213,598,220 - 13,604,620 (-)NCBIHuRef
CHM1_12230,595,573 - 30,601,977 (-)NCBICHM1_1
Lif
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39114,207,568 - 4,222,514 (+)NCBIGRCm39mm39
GRCm39 Ensembl114,207,557 - 4,222,514 (+)Ensembl
GRCm38114,257,568 - 4,272,514 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl114,257,557 - 4,272,514 (+)EnsemblGRCm38mm10GRCm38
MGSCv37114,157,571 - 4,172,517 (+)NCBIGRCm37mm9NCBIm37
MGSCv36114,157,571 - 4,172,517 (+)NCBImm8
Celera114,756,756 - 4,771,684 (+)NCBICelera
Cytogenetic Map11A1NCBI
cM Map112.94NCBI
Lif
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554554,489,421 - 4,497,940 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554554,489,515 - 4,505,439 (-)NCBIChiLan1.0ChiLan1.0
LIF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12229,078,862 - 29,095,608 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2229,078,862 - 29,095,608 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02211,276,576 - 11,282,972 (-)NCBIMhudiblu_PPA_v0panPan3
LIF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12623,400,226 - 23,418,538 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2623,403,364 - 23,406,851 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2623,274,713 - 23,278,054 (-)NCBI
ROS_Cfam_1.02623,784,273 - 23,806,847 (-)NCBI
UMICH_Zoey_3.12623,489,168 - 23,492,514 (-)NCBI
UNSW_CanFamBas_1.02623,752,037 - 23,755,369 (-)NCBI
UU_Cfam_GSD_1.02623,812,337 - 23,815,691 (-)NCBI
Lif
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118116,317,865 - 116,334,346 (-)NCBI
SpeTri2.0NW_004936904410,043 - 413,256 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LIF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1447,221,560 - 47,238,749 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11447,221,540 - 47,239,513 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21450,263,470 - 50,277,784 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LIF
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11913,121,261 - 13,127,663 (-)NCBI
ChlSab1.1 Ensembl1913,121,297 - 13,127,679 (-)Ensembl
Lif
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247476,558,872 - 6,565,207 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)1478172765102549388Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1478172765102549388Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765106641756Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:156
Count of miRNA genes:114
Interacting mature miRNAs:124
Transcripts:ENSRNOT00000009313
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 3 8 18 1 1 5 23 29 11 1
Below cutoff 41 36 28 1 28 7 10 61 12 12 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009313   ⟹   ENSRNOP00000009313
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1484,482,674 - 84,500,642 (+)Ensembl
RefSeq Acc Id: NM_022196   ⟹   NP_071532
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,134,661 - 79,137,435 (+)NCBI
Rnor_6.01484,496,470 - 84,499,244 (+)NCBI
Rnor_5.01485,163,603 - 85,181,855 (+)NCBI
RGSC_v3.41484,887,856 - 84,890,630 (+)RGD
Celera1478,044,967 - 78,047,741 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251364   ⟹   XP_006251426
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,131,114 - 79,140,486 (+)NCBI
Rnor_6.01484,492,909 - 84,500,574 (+)NCBI
Rnor_5.01485,163,603 - 85,181,855 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770359   ⟹   XP_008768581
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,134,709 - 79,140,486 (+)NCBI
Rnor_6.01484,496,266 - 84,500,574 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599365   ⟹   XP_017454854
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01484,482,652 - 84,500,574 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092388   ⟹   XP_038948316
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,131,049 - 79,140,486 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_071532   ⟸   NM_022196
- Peptide Label: precursor
- UniProtKB: O88211 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251426   ⟸   XM_006251364
- Peptide Label: isoform X1
- UniProtKB: O88211 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768581   ⟸   XM_008770359
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454854   ⟸   XM_017599365
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000009313   ⟸   ENSRNOT00000009313
RefSeq Acc Id: XP_038948316   ⟸   XM_039092388
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13699445
Promoter ID:EPDNEW_R9968
Type:multiple initiation site
Name:Lif_1
Description:LIF, interleukin 6 family cytokine
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_6.01484,496,408 - 84,496,468EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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
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
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
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
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 (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
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
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 (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 (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
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 (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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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:620865 AgrOrtholog
Ensembl Genes ENSRNOG00000007002 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009313 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009313 UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leukemia_IF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leukemia_IF/oncostatin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leukemia_IF/oncostatin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60584 UniProtKB/TrEMBL
NCBI Gene 60584 ENTREZGENE
PANTHER PTHR10633 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIF_OSM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lif PhenoGen
PRINTS LEUKAEMIAIF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE LIF_OSM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LIF_OSM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47266 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt LIF_RAT UniProtKB/Swiss-Prot
  O88211 ENTREZGENE, UniProtKB/TrEMBL
  P17777 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-27 Lif  LIF, interleukin 6 family cytokine  Lif  leukemia inhibitory factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-18 Lif  leukemia inhibitory factor  Lif  leukemia inhibitory factor (cholinergic differentiation factor)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Lif  leukemia inhibitory factor (cholinergic differentiation factor)  Lif  leukemia inhibitory factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Lif  leukemia inhibitory factor      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Lif  leukemia inhibitory factor      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_process regulates growth and differentiation in the embryo and in the adult 728949
gene_process may be involved in neurogenesis in the granule cell layer and in ectopic migration of granule cells to the polymorph and molecular layers of the dentate gyrus 729116