Fto (FTO, alpha-ketoglutarate dependent dioxygenase) - Rat Genome Database

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Gene: Fto (FTO, alpha-ketoglutarate dependent dioxygenase) Rattus norvegicus
Analyze
Symbol: Fto
Name: FTO, alpha-ketoglutarate dependent dioxygenase
RGD ID: 1305121
Description: Predicted to have several functions, including DNA-N1-methyladenine dioxygenase activity; ferrous iron binding activity; and oxidative RNA demethylase activity. Predicted to be involved in several processes, including mRNA destabilization; nucleic acid metabolic process; and regulation of respiratory system process. Predicted to localize to cytosol; nuclear speck; and plasma membrane. Human ortholog(s) of this gene implicated in obesity. Orthologous to human FTO (FTO alpha-ketoglutarate dependent dioxygenase); INTERACTS WITH acetamide; aconitine; arsenite(3-).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: alpha-ketoglutarate-dependent dioxygenase FTO; fat mass and obesity associated; fat mass and obesity-associated protein; LOC291905; m6A(m)-demethylase FTO; mRNA (2'-O-methyladenosine-N(6)-)-demethylase FTO; mRNA N(6)-methyladenosine demethylase FTO; RGD1305121; similar to fatso; similar to FTO; tRNA N1-methyl adenine demethylase FTO; U6 small nuclear RNA (2'-O-methyladenosine-N(6)-)-demethylase FTO; U6 small nuclear RNA N(6)-methyladenosine-demethylase FTO
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
mRatBN7.21915,284,898 - 15,692,142 (-)NCBI
Rnor_6.0 Ensembl1916,772,744 - 17,115,113 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01916,774,549 - 17,115,098 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01927,803,098 - 28,182,268 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41916,514,746 - 16,858,800 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11916,517,774 - 16,845,431 (-)NCBI
Celera1915,258,617 - 15,598,740 (-)NCBICelera
Cytogenetic Map19p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:17991826   PMID:18218688   PMID:18775698   PMID:19234441   PMID:20098739   PMID:20376003   PMID:21267512   PMID:21779089   PMID:21980407   PMID:22002720   PMID:23329013  
PMID:23671692   PMID:24019958   PMID:25452335   PMID:26287746   PMID:26457839   PMID:26458103   PMID:28002401   PMID:28179100   PMID:28914170   PMID:29890211   PMID:30197295  


Genomics

Comparative Map Data
Fto
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21915,284,898 - 15,692,142 (-)NCBI
Rnor_6.0 Ensembl1916,772,744 - 17,115,113 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01916,774,549 - 17,115,098 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01927,803,098 - 28,182,268 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41916,514,746 - 16,858,800 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11916,517,774 - 16,845,431 (-)NCBI
Celera1915,258,617 - 15,598,740 (-)NCBICelera
Cytogenetic Map19p11NCBI
FTO
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1653,701,692 - 54,158,512 (+)EnsemblGRCh38hg38GRCh38
GRCh381653,703,963 - 54,121,941 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371653,737,875 - 54,155,853 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361652,295,376 - 52,705,882 (+)NCBINCBI36hg18NCBI36
Celera1638,252,466 - 38,662,847 (+)NCBI
Cytogenetic Map16q12.2NCBI
HuRef1639,624,702 - 40,035,200 (+)NCBIHuRef
CHM1_11655,145,011 - 55,555,415 (+)NCBICHM1_1
Fto
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39892,039,995 - 92,395,061 (+)NCBIGRCm39mm39
GRCm39 Ensembl892,040,153 - 92,395,067 (+)Ensembl
GRCm38891,313,367 - 91,668,433 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl891,313,525 - 91,668,439 (+)EnsemblGRCm38mm10GRCm38
MGSCv37893,837,424 - 94,192,332 (+)NCBIGRCm37mm9NCBIm37
MGSCv36894,203,644 - 94,558,535 (+)NCBImm8
Celera895,629,636 - 95,973,782 (+)NCBICelera
Cytogenetic Map8C5NCBI
cM Map844.34NCBI
Fto
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543311,424,176 - 11,813,771 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543311,424,069 - 11,834,955 (+)NCBIChiLan1.0ChiLan1.0
FTO
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11653,023,203 - 53,451,708 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1653,023,425 - 53,490,231 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01633,939,300 - 34,343,419 (+)NCBIMhudiblu_PPA_v0panPan3
FTO
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1261,699,864 - 62,080,199 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl261,652,236 - 62,080,059 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha258,284,508 - 58,713,282 (-)NCBI
ROS_Cfam_1.0262,193,054 - 62,621,914 (-)NCBI
UMICH_Zoey_3.1259,017,676 - 59,445,579 (-)NCBI
UNSW_CanFamBas_1.0260,044,508 - 60,472,356 (-)NCBI
UU_Cfam_GSD_1.0260,919,844 - 61,348,533 (-)NCBI
Fto
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934952,899,665 - 53,267,356 (-)NCBI
SpeTri2.0NW_0049364756,321,725 - 6,689,410 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FTO
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl631,174,569 - 31,564,707 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1631,177,112 - 31,564,674 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
FTO
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1539,487,304 - 39,900,238 (+)NCBI
ChlSab1.1 Ensembl539,487,418 - 39,725,747 (+)Ensembl
Fto
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247572,675,810 - 3,081,751 (-)NCBI

Position Markers
D19Mit4  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01917,028,003 - 17,028,244NCBIRnor6.0
Rnor_5.01928,094,796 - 28,095,037UniSTSRnor5.0
RGSC_v3.41916,770,857 - 16,771,099RGDRGSC3.4
RGSC_v3.41916,770,858 - 16,771,099UniSTSRGSC3.4
RGSC_v3.11916,775,647 - 16,775,997RGD
Celera1915,511,806 - 15,512,046UniSTS
RH 2.0 Map19284.5RGD
Cytogenetic Map19p11UniSTS
D19Got6  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01916,776,583 - 16,776,799NCBIRnor6.0
Rnor_5.01927,844,089 - 27,844,305UniSTSRnor5.0
RGSC_v3.41916,516,779 - 16,516,992RGDRGSC3.4
RGSC_v3.41916,516,780 - 16,516,992UniSTSRGSC3.4
RGSC_v3.11916,521,605 - 16,521,818RGD
Celera1915,260,651 - 15,260,863UniSTS
RH 2.0 Map19266.6RGD
Cytogenetic Map19p11UniSTS
RH134051  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01916,774,500 - 16,774,688NCBIRnor6.0
Rnor_5.01927,842,006 - 27,842,194UniSTSRnor5.0
RGSC_v3.41916,514,697 - 16,514,885UniSTSRGSC3.4
Celera1915,258,568 - 15,258,756UniSTS
Cytogenetic Map19p11UniSTS
RH129525  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01916,772,769 - 16,772,967NCBIRnor6.0
Rnor_5.01927,840,275 - 27,840,473UniSTSRnor5.0
RGSC_v3.41916,512,966 - 16,513,164UniSTSRGSC3.4
Celera1915,256,837 - 15,257,035UniSTS
Cytogenetic Map19p11UniSTS
BE110336  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01917,110,942 - 17,111,155NCBIRnor6.0
Rnor_5.01928,178,032 - 28,178,245UniSTSRnor5.0
RGSC_v3.41916,854,644 - 16,854,857UniSTSRGSC3.4
Celera1915,594,576 - 15,594,789UniSTS
Cytogenetic Map19p11UniSTS
BF396845  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01916,991,093 - 16,991,215NCBIRnor6.0
Rnor_5.01928,058,288 - 28,058,410UniSTSRnor5.0
RGSC_v3.41916,733,843 - 16,733,965UniSTSRGSC3.4
Celera1915,474,907 - 15,475,029UniSTS
Cytogenetic Map19p11UniSTS
BI295974  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01917,069,014 - 17,069,170NCBIRnor6.0
Rnor_5.01928,135,813 - 28,135,969UniSTSRnor5.0
RGSC_v3.41916,812,620 - 16,812,776UniSTSRGSC3.4
Celera1915,552,922 - 15,553,078UniSTS
Cytogenetic Map19p11UniSTS
BE120169  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01916,954,524 - 16,954,690NCBIRnor6.0
Rnor_5.01928,021,688 - 28,021,854UniSTSRnor5.0
RGSC_v3.41916,695,715 - 16,695,881UniSTSRGSC3.4
Celera1915,438,362 - 15,438,528UniSTS
Cytogenetic Map19p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124933090Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127635288Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19129558305Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19129558305Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19132379055Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19138221845Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19138221845Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19138221845Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19138221845Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19104464846044648Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19195770746957707Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19243296347217667Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)19370183548701835Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)19370183548701835Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19500757143907843Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19807254547318201Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191073992926201726Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191130392747879277Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191529452433991703Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191593952838798459Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191702800352538299Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:526
Count of miRNA genes:235
Interacting mature miRNAs:302
Transcripts:ENSRNOT00000015718
Prediction methods:Microtar, Miranda, 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 38 57 41 19 41 8 11 74 35 41 11 8
Low 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015718   ⟹   ENSRNOP00000015718
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1916,772,754 - 17,115,113 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086829   ⟹   ENSRNOP00000073704
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1916,772,744 - 17,045,349 (-)Ensembl
RefSeq Acc Id: NM_001039713   ⟹   NP_001034802
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,351,202 - 15,692,056 (-)NCBI
Rnor_6.01916,774,549 - 17,115,098 (-)NCBI
Rnor_5.01927,803,098 - 28,182,268 (-)NCBI
RGSC_v3.41916,514,746 - 16,858,800 (-)RGD
Celera1915,258,617 - 15,598,740 (-)RGD
Sequence:
RefSeq Acc Id: XM_039097564   ⟹   XP_038953492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,311,827 - 15,692,142 (-)NCBI
RefSeq Acc Id: XM_039097565   ⟹   XP_038953493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,284,898 - 15,692,142 (-)NCBI
RefSeq Acc Id: XM_039097566   ⟹   XP_038953494
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,349,399 - 15,692,088 (-)NCBI
RefSeq Acc Id: XM_039097567   ⟹   XP_038953495
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,349,399 - 15,627,851 (-)NCBI
RefSeq Acc Id: XM_039097568   ⟹   XP_038953496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21915,349,399 - 15,631,429 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001034802   ⟸   NM_001039713
- UniProtKB: Q2A121 (UniProtKB/Swiss-Prot),   B4F7E0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073704   ⟸   ENSRNOT00000086829
RefSeq Acc Id: ENSRNOP00000015718   ⟸   ENSRNOT00000015718
RefSeq Acc Id: XP_038953493   ⟸   XM_039097565
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953492   ⟸   XM_039097564
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953494   ⟸   XM_039097566
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953496   ⟸   XM_039097568
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953495   ⟸   XM_039097567
- Peptide Label: isoform X3
Protein Domains
FTO_NTD

Transcriptome

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

Promoters
RGD ID:13700971
Promoter ID:EPDNEW_R11494
Type:multiple initiation site
Name:Fto_1
Description:FTO, alpha-ketoglutarate dependent dioxygenase
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_6.01917,115,125 - 17,115,185EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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)
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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)
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
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)
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
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)
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
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)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305121 AgrOrtholog
Ensembl Genes ENSRNOG00000011728 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015718 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000073704 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015718 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086829 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.1470 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.120.590 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AlkB-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FTO UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FTO_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FTO_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FTO_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:291905 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 291905 ENTREZGENE
PANTHER PTHR31291 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FTO_CTD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FTO_NTD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fto PhenoGen
SMART FTO_NTD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K675_RAT UniProtKB/TrEMBL
  B4F7E0 ENTREZGENE, UniProtKB/TrEMBL
  FTO_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-09-21 Fto  FTO, alpha-ketoglutarate dependent dioxygenase  Fto  fat mass and obesity associated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Fto  fat mass and obesity associated  RGD1305121_predicted  similar to FTO (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-06   similar to FTO (predicted)  RGD1305121_predicted  similar to fatso (predicted)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1305121_predicted  similar to fatso (predicted)  LOC291905_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC291905_predicted  similar to fatso (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL