Tet3 (tet methylcytosine dioxygenase 3) - Rat Genome Database
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Gene: Tet3 (tet methylcytosine dioxygenase 3) Rattus norvegicus
Analyze
Symbol: Tet3
Name: tet methylcytosine dioxygenase 3
RGD ID: 1590584
Description: Predicted to have methyl-CpG binding activity; methylcytosine dioxygenase activity; and zinc ion binding activity. Predicted to be involved in several processes, including DNA methylation or demethylation; cellular protein modification process; and oxidative demethylation. Predicted to localize to cytoplasm; female pronucleus; and male pronucleus. Orthologous to human TET3 (tet methylcytosine dioxygenase 3); PARTICIPATES IN DNA modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; arsenous acid.
Type: protein-coding
RefSeq Status: MODEL
Also known as: astrotactin-2-like; hypothetical protein LOC680588; LOC102550055; LOC500229; LOC680576; methylcytosine dioxygenase TET3; probable methylcytosine dioxygenase TET3; similar to CXXC finger 6; similar to MGC22014 protein; tet oncogene family member 3
Orthologs:
Homo sapiens (human) : TET3 (tet methylcytosine dioxygenase 3)  HGNC  Alliance
Mus musculus (house mouse) : Tet3 (tet methylcytosine dioxygenase 3)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Tet3 (tet methylcytosine dioxygenase 3)
Pan paniscus (bonobo/pygmy chimpanzee) : TET3 (tet methylcytosine dioxygenase 3)
Canis lupus familiaris (dog) : TET3 (tet methylcytosine dioxygenase 3)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Tet3 (tet methylcytosine dioxygenase 3)
Sus scrofa (pig) : TET3 (tet methylcytosine dioxygenase 3)
Chlorocebus sabaeus (African green monkey) : TET3 (tet methylcytosine dioxygenase 3)
Heterocephalus glaber (naked mole-rat) : Tet3 (tet methylcytosine dioxygenase 3)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.04115,060,702 - 115,160,800 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4115,066,309 - 115,157,263 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04179,650,812 - 179,747,154 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44117,582,351 - 117,659,282 (-)NCBIRGSC3.4rn4RGSC3.4
Celera4104,861,292 - 104,961,373 (-)NCBICelera
Cytogenetic Map4q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:19372391   PMID:20639862   PMID:21321204   PMID:21407207   PMID:21778364   PMID:21892189   PMID:22722204   PMID:23353889   PMID:23690950   PMID:28422379   PMID:29276034   PMID:31252000  


Genomics

Comparative Map Data
Tet3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.04115,060,702 - 115,160,800 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4115,066,309 - 115,157,263 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04179,650,812 - 179,747,154 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44117,582,351 - 117,659,282 (-)NCBIRGSC3.4rn4RGSC3.4
Celera4104,861,292 - 104,961,373 (-)NCBICelera
Cytogenetic Map4q34NCBI
TET3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl273,986,404 - 74,108,176 (+)EnsemblGRCh38hg38GRCh38
GRCh38273,982,036 - 74,135,394 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37274,212,211 - 74,335,303 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36274,126,958 - 74,188,811 (+)NCBINCBI36hg18NCBI36
Celera274,104,908 - 74,166,519 (+)NCBI
Cytogenetic Map2p13.1NCBI
HuRef274,009,368 - 74,071,589 (+)NCBIHuRef
CHM1_1274,142,845 - 74,264,628 (+)NCBICHM1_1
Tet3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39683,339,355 - 83,434,190 (-)NCBI
GRCm38683,362,373 - 83,457,208 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl683,362,373 - 83,459,084 (-)EnsemblGRCm38mm10GRCm38
MGSCv37683,312,367 - 83,391,672 (-)NCBIGRCm37mm9NCBIm37
MGSCv36683,328,031 - 83,424,742 (-)NCBImm8
Celera685,343,470 - 85,422,764 (-)NCBICelera
Cytogenetic Map6C3NCBI
Tet3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542411,617,993 - 11,714,203 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542411,612,124 - 11,722,130 (-)NCBIChiLan1.0ChiLan1.0
TET3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A75,568,636 - 75,688,698 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A75,568,636 - 75,682,701 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A74,058,948 - 74,180,046 (+)NCBIMhudiblu_PPA_v0panPan3
TET3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1748,981,558 - 49,082,675 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11748,976,510 - 49,083,454 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Tet3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936556292,551 - 391,644 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TET3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl368,918,933 - 69,020,986 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1368,918,896 - 69,020,406 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2372,074,722 - 72,176,883 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TET3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1433,176,039 - 33,293,906 (-)Ensembl
ChlSab1.11433,170,046 - 33,293,128 (-)NCBI
Tet3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474929,371,674 - 29,494,785 (-)NCBI

Position Markers
D4Rat124  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04115,141,626 - 115,141,776NCBIRnor6.0
Rnor_5.04179,731,919 - 179,732,069UniSTSRnor5.0
RGSC_v3.44117,658,444 - 117,658,594UniSTSRGSC3.4
RGSC_v3.44117,658,443 - 117,658,594RGDRGSC3.4
RGSC_v3.14117,902,925 - 117,903,075RGD
Celera4104,942,219 - 104,942,369UniSTS
Cytogenetic Map4q34UniSTS
RH 3.4 Map4671.7UniSTS
RH 3.4 Map4671.7RGD
RH 2.0 Map4700.0RGD
SHRSP x BN Map450.99RGD
FHH x ACI Map465.79RGD


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)43043231145254791Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)436615599145611886Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)437703272115372927Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)443414605155469929Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)443414792146942075Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)443414792146942075Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)446898276145611886Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)449906054145611886Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)455324953148360954Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)455375865125671711Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)458640017154427984Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)461038901127777403Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)462947687125671711Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)463537179157286626Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470773471132455556Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)471476518116476518Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)471476518116476518Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473786419132455556Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)475258970120258970Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)475258970120258970Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)476567036121567036Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)477307388116916073Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)477307388116916073Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)479555067124555067Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)479557856116916073Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)481874073119546974Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)481959983152055009Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)484475257178931073Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)485794049129615056Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486312589146942261Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)486312589147702403Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486438317168047091Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)486532519131532519Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)487136446132136446Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)487136446132136446Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)494414208139414208Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494893247168046938Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)499066823144066823Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105277348150277348Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4105682594150682594Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4105971071168047091Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106347236151347236Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4108876717169215811Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109636356154636356Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109636356154636356Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110702761155702761Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110702761155702761Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4112807675157807675Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:277
Count of miRNA genes:182
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000015296, ENSRNOT00000031312, ENSRNOT00000031521
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 1 20 11 2 17 2 60 22 29 11
Low 2 23 46 39 2 39 8 11 14 13 11 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_001057850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_002726424 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224966 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_345910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_353411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01031252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01031253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC110623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC115473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015296   ⟹   ENSRNOP00000015296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4115,066,309 - 115,157,263 (-)Ensembl
RefSeq Acc Id: XM_001057850   ⟹   XP_001057850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,142,483 (-)NCBI
Rnor_5.04179,650,812 - 179,747,154 (-)NCBI
RGSC_v3.44117,582,351 - 117,659,282 (-)RGD
Sequence:
RefSeq Acc Id: XM_002726424   ⟹   XP_002726470
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,943,075 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006224966   ⟹   XP_006225028
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,957,613 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006224967   ⟹   XP_006225029
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,961,373 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006224968   ⟹   XP_006225030
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,957,613 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006224969   ⟹   XP_006225031
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,927,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006236793   ⟹   XP_006236855
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,157,123 (-)NCBI
Rnor_5.04179,650,812 - 179,747,154 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006236794   ⟹   XP_006236856
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,126,421 (-)NCBI
Rnor_5.04179,650,812 - 179,747,154 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763094   ⟹   XP_008761316
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,157,410 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763095   ⟹   XP_008761317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,160,800 (-)NCBI
Sequence:
RefSeq Acc Id: XR_345910
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4104,861,292 - 104,957,613 (-)NCBI
Sequence:
RefSeq Acc Id: XR_353411
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04115,060,702 - 115,157,123 (-)NCBI
Rnor_5.04179,650,812 - 179,747,154 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_002726470   ⟸   XM_002726424
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_001057850   ⟸   XM_001057850
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006225029   ⟸   XM_006224967
- Peptide Label: isoform X1
- UniProtKB: D3ZQT7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006225028   ⟸   XM_006224966
- Peptide Label: isoform X1
- UniProtKB: D3ZQT7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006225030   ⟸   XM_006224968
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006225031   ⟸   XM_006224969
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006236855   ⟸   XM_006236793
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006236856   ⟸   XM_006236794
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008761317   ⟸   XM_008763095
- Peptide Label: isoform X1
- UniProtKB: D3ZQT7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761316   ⟸   XM_008763094
- Peptide Label: isoform X1
- UniProtKB: D3ZQT7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015296   ⟸   ENSRNOT00000015296
Protein Domains
CXXC-type

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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:1590584 AgrOrtholog
Ensembl Genes ENSRNOG00000011387 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015296 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015296 ENTREZGENE, UniProtKB/TrEMBL
InterPro TET1/2/3 UniProtKB/TrEMBL
  TET_DSBH UniProtKB/TrEMBL
  Znf_CXXC UniProtKB/TrEMBL
NCBI Gene 680576 ENTREZGENE
PANTHER PTHR23358 UniProtKB/TrEMBL
Pfam TET_DSBH UniProtKB/TrEMBL
PhenoGen Tet3 PhenoGen
PROSITE ZF_CXXC UniProtKB/TrEMBL
SMART Tet_JBP UniProtKB/TrEMBL
UniProt D3ZQT7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Tet3  tet methylcytosine dioxygenase 3  LOC102550055  astrotactin-2-like  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102550055  astrotactin-2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-05-24 Tet3  tet methylcytosine dioxygenase 3  LOC680588  hypothetical protein LOC680588  Data Merged 1643240 APPROVED
2011-10-18 Tet3  tet methylcytosine dioxygenase 3  Tet3  tet oncogene family member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-31 Tet3  tet oncogene family member 3  LOC680576  similar to CXXC finger 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC680576  similar to CXXC finger 6  RGD1561966_predicted  similar to MGC22014 protein (predicted)  Data Merged 1643240 APPROVED
2006-11-20 LOC680576  similar to CXXC finger 6      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC680588  hypothetical protein LOC680588      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1561966_predicted  similar to MGC22014 protein (predicted)  LOC500229  similar to MGC22014 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500229  similar to MGC22014 protein      Symbol and Name status set to provisional 70820 PROVISIONAL