Ilf3 (interleukin enhancer binding factor 3) - Rat Genome Database

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Gene: Ilf3 (interleukin enhancer binding factor 3) Rattus norvegicus
Analyze
Symbol: Ilf3
Name: interleukin enhancer binding factor 3
RGD ID: 619734
Description: Exhibits enzyme binding activity. Involved in protein methylation. Predicted to localize to mitochondrion; nuclear lumen; and ribonucleoprotein complex. Orthologous to human ILF3 (interleukin enhancer binding factor 3); INTERACTS WITH 1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine; 17alpha-ethynylestradiol; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: interleukin enhancer-binding factor 3; M phase phosphoprotein 4
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
mRatBN7.2819,922,409 - 19,960,495 (+)NCBI
Rnor_6.0 Ensembl822,402,890 - 22,440,885 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0822,402,877 - 22,440,984 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0822,467,473 - 22,494,771 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4820,481,746 - 20,508,850 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1820,481,745 - 20,508,850 (+)NCBI
Celera821,324,176 - 21,351,393 (+)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
6-propyl-2-thiouracil  (EXP)
aconitine  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
butanal  (ISO)
caffeine  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
cyclophosphamide  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
folic acid  (ISO)
genistein  (ISO)
indometacin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
piroxicam  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP)
sulindac sulfide  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tanespimycin  (ISO)
tert-butyl hydroperoxide  (ISO)
thimerosal  (ISO)
torcetrapib  (ISO)
Tributyltin oxide  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO,ISS)
mitochondrion  (IEA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO,ISS)
ribonucleoprotein complex  (IEA,ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:7519613   PMID:8885239   PMID:10574923   PMID:11739746   PMID:11777942   PMID:14731398   PMID:15057822   PMID:17289661   PMID:19946888   PMID:21123651   PMID:22658674   PMID:22681889  
PMID:22871113   PMID:24625528   PMID:27068509   PMID:31536826   PMID:32196615  


Genomics

Comparative Map Data
Ilf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2819,922,409 - 19,960,495 (+)NCBI
Rnor_6.0 Ensembl822,402,890 - 22,440,885 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0822,402,877 - 22,440,984 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0822,467,473 - 22,494,771 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4820,481,746 - 20,508,850 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1820,481,745 - 20,508,850 (+)NCBI
Celera821,324,176 - 21,351,393 (+)NCBICelera
Cytogenetic Map8q13NCBI
ILF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1910,654,261 - 10,692,417 (+)EnsemblGRCh38hg38GRCh38
GRCh381910,654,295 - 10,692,400 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371910,765,022 - 10,803,076 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,625,988 - 10,664,095 (+)NCBINCBI36hg18NCBI36
Build 341910,625,987 - 10,657,443NCBI
Celera1910,659,687 - 10,697,851 (+)NCBI
Cytogenetic Map19p13.2NCBI
HuRef1910,342,365 - 10,380,213 (+)NCBIHuRef
CHM1_11910,766,190 - 10,804,342 (+)NCBICHM1_1
Ilf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,278,964 - 21,316,659 (+)NCBIGRCm39mm39
GRCm39 Ensembl921,279,167 - 21,316,657 (+)Ensembl
GRCm38921,367,731 - 21,405,363 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,367,871 - 21,405,361 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,172,447 - 21,209,805 (+)NCBIGRCm37mm9NCBIm37
MGSCv36921,118,985 - 21,155,723 (+)NCBImm8
Celera918,636,679 - 18,674,037 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.78NCBI
Ilf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554951,827,860 - 1,844,369 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554951,814,012 - 1,844,605 (+)NCBIChiLan1.0ChiLan1.0
ILF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11910,867,143 - 10,905,965 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1910,867,143 - 10,905,953 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01910,206,636 - 10,244,779 (+)NCBIMhudiblu_PPA_v0panPan3
ILF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,511,915 - 50,544,234 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,515,334 - 50,544,184 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,384,533 - 50,416,978 (-)NCBI
ROS_Cfam_1.02051,034,719 - 51,067,176 (-)NCBI
UMICH_Zoey_3.12050,242,969 - 50,275,171 (-)NCBI
UNSW_CanFamBas_1.02050,670,295 - 50,702,494 (-)NCBI
UU_Cfam_GSD_1.02050,911,363 - 50,943,802 (-)NCBI
Ilf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,414,682 - 209,451,022 (-)NCBI
SpeTri2.0NW_004936659903,690 - 940,024 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ILF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,413,870 - 69,443,216 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1269,413,875 - 69,443,216 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,799,231 - 69,826,499 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ILF3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,654,632 - 9,692,202 (+)NCBI
ChlSab1.1 Ensembl69,672,453 - 9,686,793 (+)Ensembl
Vero_WHO_p1.0NW_02366607410,277,704 - 10,318,529 (-)NCBI
Ilf3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248282,683,868 - 2,715,702 (+)NCBI

Position Markers
MARC_21355-21356:1023203034:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2819,950,500 - 19,951,206 (+)MAPPER
Rnor_6.0822,430,994 - 22,431,699NCBIRnor6.0
Rnor_5.0822,485,107 - 22,485,812UniSTSRnor5.0
RGSC_v3.4820,499,184 - 20,499,889UniSTSRGSC3.4
RGSC_v3.4X28,479,654 - 28,479,807UniSTSRGSC3.4
Celera821,341,734 - 21,342,439UniSTS
Cytogenetic Map8q13UniSTS
UniSTS:479168  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2819,958,406 - 19,960,038 (+)MAPPER
Rnor_6.0822,438,900 - 22,440,529NCBIRnor6.0
Rnor_5.0822,493,012 - 22,494,641UniSTSRnor5.0
RGSC_v3.4820,507,091 - 20,508,720UniSTSRGSC3.4
Celera821,349,640 - 21,351,263UniSTS
Cytogenetic Map8q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124608226Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125942267Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8210812847108128Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8210812847108128Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8210812847108128Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8210812847108128Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8736807652368076Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8736807652368076Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8736807652368076Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8873867753738677Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)89531047119211942Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)81038843955388439Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)81038843955388439Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810938911120496129Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81137326757541668Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81137350945712344Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81137350945712344Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81144825156448251Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81144825156448251Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81766655562666555Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)82071759265717592Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)82146491991140553Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)821813070100873963Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:248
Count of miRNA genes:168
Interacting mature miRNAs:190
Transcripts:ENSRNOT00000009354
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 36 41 25 19 25 2 5 74 35 41 11 2
Low 7 16 16 16 6 6 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039082216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC130555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF220102 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000009354   ⟹   ENSRNOP00000009354
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl822,423,890 - 22,440,410 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079230   ⟹   ENSRNOP00000072369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl822,402,890 - 22,440,885 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085320   ⟹   ENSRNOP00000073179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl822,423,467 - 22,440,659 (+)Ensembl
RefSeq Acc Id: NM_053412   ⟹   NP_445864
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,932,867 - 19,960,168 (+)NCBI
Rnor_6.0822,413,319 - 22,440,659 (+)NCBI
Rnor_5.0822,467,473 - 22,494,771 (+)NCBI
RGSC_v3.4820,481,746 - 20,508,850 (+)RGD
Celera821,324,176 - 21,351,393 (+)RGD
Sequence:
RefSeq Acc Id: XM_008765990   ⟹   XP_008764212
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,412 - 19,960,495 (+)NCBI
Rnor_6.0822,402,877 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765991   ⟹   XP_008764213
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,410 - 19,960,495 (+)NCBI
Rnor_6.0822,402,877 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765992   ⟹   XP_008764214
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,492 - 19,960,126 (+)NCBI
Rnor_6.0822,402,877 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765993   ⟹   XP_008764215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,412 - 19,959,919 (+)NCBI
Rnor_6.0822,402,877 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765994   ⟹   XP_008764216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,413 - 19,959,919 (+)NCBI
Rnor_6.0822,402,878 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765995   ⟹   XP_008764217
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,409 - 19,956,918 (+)NCBI
Rnor_6.0822,402,877 - 22,437,407 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765996   ⟹   XP_008764218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,425 - 19,956,910 (+)NCBI
Rnor_6.0822,402,878 - 22,437,407 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595942   ⟹   XP_017451431
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,411 - 19,959,919 (+)NCBI
Rnor_6.0822,402,877 - 22,440,984 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039082210   ⟹   XP_038938138
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,932,180 - 19,959,919 (+)NCBI
RefSeq Acc Id: XM_039082211   ⟹   XP_038938139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,411 - 19,959,919 (+)NCBI
RefSeq Acc Id: XM_039082212   ⟹   XP_038938140
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,412 - 19,959,919 (+)NCBI
RefSeq Acc Id: XM_039082213   ⟹   XP_038938141
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,410 - 19,960,495 (+)NCBI
RefSeq Acc Id: XM_039082214   ⟹   XP_038938142
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,409 - 19,960,495 (+)NCBI
RefSeq Acc Id: XM_039082215   ⟹   XP_038938143
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,922,412 - 19,959,919 (+)NCBI
RefSeq Acc Id: XM_039082216   ⟹   XP_038938144
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,949,931 - 19,960,495 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_445864   ⟸   NM_053412
- Sequence:
RefSeq Acc Id: XP_008764213   ⟸   XM_008765991
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008764212   ⟸   XM_008765990
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008764214   ⟸   XM_008765992
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008764215   ⟸   XM_008765993
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008764216   ⟸   XM_008765994
- Peptide Label: isoform X5
- UniProtKB: A0A0G2K2T6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764217   ⟸   XM_008765995
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008764218   ⟸   XM_008765996
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017451431   ⟸   XM_017595942
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000072369   ⟸   ENSRNOT00000079230
RefSeq Acc Id: ENSRNOP00000073179   ⟸   ENSRNOT00000085320
RefSeq Acc Id: ENSRNOP00000009354   ⟸   ENSRNOT00000009354
RefSeq Acc Id: XP_038938142   ⟸   XM_039082214
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038938141   ⟸   XM_039082213
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038938139   ⟸   XM_039082211
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038938140   ⟸   XM_039082212
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038938143   ⟸   XM_039082215
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038938138   ⟸   XM_039082210
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038938144   ⟸   XM_039082216
- Peptide Label: isoform X11
Protein Domains
DRBM   DZF

Transcriptome

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

Promoters
RGD ID:13695787
Promoter ID:EPDNEW_R6304
Type:initiation region
Name:Ilf3_1
Description:interleukin enhancer binding factor 3
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_6.0822,402,946 - 22,403,006EPDNEW

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:619734 AgrOrtholog
Ensembl Genes ENSRNOG00000022741 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009354 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072369 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073179 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009354 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000079230 UniProtKB/TrEMBL
  ENSRNOT00000085320 UniProtKB/TrEMBL
Gene3D-CATH 3.30.460.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro dsRBD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DZF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ILF3/NF90 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NT_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84472 UniProtKB/Swiss-Prot
NCBI Gene 84472 ENTREZGENE
PANTHER PTHR45762:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam dsrm UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DZF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ilf3 PhenoGen
PROSITE DS_RBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DZF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DSRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DZF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K2T6 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K4U6_RAT UniProtKB/TrEMBL
  F1LRU1_RAT UniProtKB/TrEMBL
  ILF3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Ilf3  interleukin enhancer binding factor 3      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Ilf3  interleukin enhancer binding factor 3      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction COOH-terminal region rich in arginine, glycine, and serine is responsible for interaction with protein-arginine methyltransferase I 633174