Tenm2 (teneurin transmembrane protein 2) - Rat Genome Database

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Gene: Tenm2 (teneurin transmembrane protein 2) Rattus norvegicus
Analyze
Symbol: Tenm2
Name: teneurin transmembrane protein 2
RGD ID: 727907
Description: Enables cell adhesion molecule binding activity and signaling receptor binding activity. Involved in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules. Located in dendritic spine; glutamatergic synapse; and postsynaptic membrane. Is extrinsic component of postsynaptic membrane. Orthologous to human TENM2 (teneurin transmembrane protein 2); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Lasso; LOC102551468; neurestin; odd Oz/ten-m homolog 2; odd Oz/ten-m homolog 2 (Drosophila); odz, odd Oz/ten-m homolog 2; odz, odd Oz/ten-m homolog 2 (Drosophila); Odz2; ten-2; ten-m2; tenascin-M2; teneurin-2; teneurin-2-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21020,480,662 - 21,706,415 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1020,481,854 - 21,705,597 (-)Ensembl
Rnor_6.01020,846,091 - 21,791,771 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1020,844,899 - 21,265,026 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01020,716,458 - 21,659,087 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41020,939,207 - 21,888,443 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11020,940,255 - 22,096,609 (-)NCBI
Celera1020,101,901 - 21,233,134 (-)NCBICelera
Cytogenetic Map10q12NCBI
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

References

Additional References at PubMed
PMID:12000766  


Genomics

Comparative Map Data
Tenm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21020,480,662 - 21,706,415 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1020,481,854 - 21,705,597 (-)Ensembl
Rnor_6.01020,846,091 - 21,791,771 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1020,844,899 - 21,265,026 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01020,716,458 - 21,659,087 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41020,939,207 - 21,888,443 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11020,940,255 - 22,096,609 (-)NCBI
Celera1020,101,901 - 21,233,134 (-)NCBICelera
Cytogenetic Map10q12NCBI
TENM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5167,284,799 - 168,264,157 (+)EnsemblGRCh38hg38GRCh38
GRCh385166,979,066 - 168,264,159 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375166,500,247 - 167,691,162 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365167,114,519 - 167,623,740 (+)NCBINCBI36hg18NCBI36
Build 345167,477,951 - 167,623,739NCBI
Celera5162,750,499 - 163,726,534 (+)NCBI
Cytogenetic Map5q34NCBI
HuRef5161,812,425 - 162,791,103 (+)NCBIHuRef
CHM1_15166,144,311 - 167,124,193 (+)NCBICHM1_1
Tenm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391135,897,483 - 37,881,486 (-)NCBIGRCm39mm39
GRCm39 Ensembl1135,897,483 - 37,126,791 (-)Ensembl
GRCm381136,006,656 - 37,237,053 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1136,006,656 - 37,235,964 (-)EnsemblGRCm38mm10GRCm38
MGSCv371135,820,171 - 36,757,745 (-)NCBIGRCm37mm9NCBIm37
MGSCv361135,851,071 - 36,787,666 (-)NCBImm8
Celera1140,009,205 - 40,811,666 (-)NCBICelera
Cytogenetic Map11A4- A5NCBI
cM Map1121.96NCBI
Tenm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540820,437,067 - 21,338,897 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540820,150,223 - 21,340,276 (+)NCBIChiLan1.0ChiLan1.0
TENM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15169,420,475 - 170,392,593 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5169,420,480 - 170,392,581 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05162,346,710 - 163,627,371 (+)NCBIMhudiblu_PPA_v0panPan3
TENM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1443,450,278 - 44,962,993 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl443,451,059 - 44,377,371 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha443,408,748 - 44,060,223 (-)NCBI
ROS_Cfam_1.0443,873,657 - 44,519,117 (-)NCBI
UMICH_Zoey_3.1443,643,674 - 44,287,381 (-)NCBI
UNSW_CanFamBas_1.0443,838,128 - 44,482,532 (-)NCBI
UU_Cfam_GSD_1.0444,344,597 - 44,989,412 (-)NCBI
Tenm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721397,485,971 - 98,368,217 (-)NCBI
SpeTri2.0NW_0049366221,101,587 - 1,983,816 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TENM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1655,625,298 - 56,915,287 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11655,624,273 - 59,084,150 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21660,189,355 - 61,223,392 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TENM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12369,206,076 - 70,487,159 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660348,199,738 - 9,519,849 (-)NCBIVero_WHO_p1.0
Tenm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473321,732,997 - 22,921,889 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D10Mit5  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01021,523,906 - 21,524,070NCBIRnor6.0
Rnor_5.01021,392,295 - 21,392,459UniSTSRnor5.0
RGSC_v3.41021,607,719 - 21,607,865RGDRGSC3.4
RGSC_v3.41021,607,720 - 21,607,865UniSTSRGSC3.4
RGSC_v3.11021,608,769 - 21,608,914RGD
RH 3.4 Map10240.41UniSTS
RH 3.4 Map10240.41RGD
RH 2.0 Map10246.1RGD
Cytogenetic Map10q12UniSTS
D10Rat42  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21021,329,805 - 21,329,934 (+)MAPPERmRatBN7.2
mRatBN7.21021,329,805 - 21,330,072 (+)MAPPERmRatBN7.2
Rnor_6.01021,707,766 - 21,708,067NCBIRnor6.0
Rnor_6.01021,707,766 - 21,707,894NCBIRnor6.0
Rnor_5.01021,575,051 - 21,575,352UniSTSRnor5.0
Rnor_5.01021,575,051 - 21,575,179UniSTSRnor5.0
RH 3.4 Map10240.11RGD
RH 3.4 Map10240.11UniSTS
RH 2.0 Map10251.9RGD
SHRSP x BN Map1027.23RGD
FHH x ACI Map1015.2RGD
Cytogenetic Map10q12UniSTS
D10Rat75  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,776,430 - 20,776,562 (+)MAPPERmRatBN7.2
Rnor_6.01021,140,054 - 21,140,185NCBIRnor6.0
Rnor_5.01021,008,287 - 21,008,418UniSTSRnor5.0
RGSC_v3.41021,235,991 - 21,236,123RGDRGSC3.4
RGSC_v3.41021,235,992 - 21,236,123UniSTSRGSC3.4
RGSC_v3.11021,237,040 - 21,237,172RGD
Celera1020,395,511 - 20,395,642UniSTS
SHRSP x BN Map1026.1499RGD
SHRSP x BN Map1026.1499UniSTS
Cytogenetic Map10q12UniSTS
D10Rat179  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01021,236,996 - 21,237,161NCBIRnor6.0
Rnor_5.01021,105,195 - 21,105,360UniSTSRnor5.0
RGSC_v3.41021,332,818 - 21,333,025RGDRGSC3.4
RGSC_v3.41021,332,819 - 21,333,025UniSTSRGSC3.4
RGSC_v3.11021,333,867 - 21,334,074RGD
Celera1020,491,739 - 20,491,934UniSTS
SHRSP x BN Map1027.31UniSTS
SHRSP x BN Map1027.31RGD
Cytogenetic Map10q12UniSTS
D11Mit232  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,526,569 - 20,526,750 (+)MAPPERmRatBN7.2
Rnor_6.01020,890,843 - 20,891,023NCBIRnor6.0
Rnor_5.01020,761,210 - 20,761,390UniSTSRnor5.0
RGSC_v3.41020,983,922 - 20,984,102UniSTSRGSC3.4
Celera1020,146,552 - 20,146,719UniSTS
Cytogenetic Map10q12UniSTS
BE102452  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,499,028 - 20,499,194 (+)MAPPERmRatBN7.2
Rnor_6.01020,863,306 - 20,863,471NCBIRnor6.0
Rnor_5.01020,733,673 - 20,733,838UniSTSRnor5.0
RGSC_v3.41020,956,384 - 20,956,549UniSTSRGSC3.4
Celera1020,119,074 - 20,119,239UniSTS
RH 3.4 Map10214.33UniSTS
Cytogenetic Map10q12UniSTS
RH138576  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,481,529 - 20,481,726 (+)MAPPERmRatBN7.2
Rnor_6.01020,845,767 - 20,845,963NCBIRnor6.0
Rnor_5.01020,716,134 - 20,716,330UniSTSRnor5.0
RGSC_v3.41020,938,883 - 20,939,079UniSTSRGSC3.4
Celera1020,101,577 - 20,101,773UniSTS
RH 3.4 Map10215.72UniSTS
Cytogenetic Map10q12UniSTS
D3Bwg1534e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,481,842 - 20,482,055 (+)MAPPERmRatBN7.2
Rnor_6.01020,846,080 - 20,846,292NCBIRnor6.0
Rnor_5.01020,716,447 - 20,716,659UniSTSRnor5.0
RGSC_v3.41020,939,196 - 20,939,408UniSTSRGSC3.4
Celera1020,101,890 - 20,102,102UniSTS
Cytogenetic Map10q12UniSTS
RH144521  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,635,298 - 20,635,482 (+)MAPPERmRatBN7.2
Rnor_6.01022,105,801 - 22,105,984NCBIRnor6.0
Rnor_6.01020,998,936 - 20,999,119NCBIRnor6.0
Rnor_5.01021,971,053 - 21,971,236UniSTSRnor5.0
Rnor_5.01020,866,384 - 20,866,567UniSTSRnor5.0
RGSC_v3.41021,093,062 - 21,093,245UniSTSRGSC3.4
Celera1020,254,868 - 20,255,051UniSTS
RH 3.4 Map10241.11UniSTS
Cytogenetic Map10q12UniSTS
BE096193  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21021,131,025 - 21,131,224 (+)MAPPERmRatBN7.2
Rnor_6.01021,507,177 - 21,507,375NCBIRnor6.0
Rnor_5.01021,375,566 - 21,375,764UniSTSRnor5.0
RGSC_v3.41021,591,079 - 21,591,277UniSTSRGSC3.4
Celera1020,748,252 - 20,748,450UniSTS
RH 3.4 Map10239.4UniSTS
Cytogenetic Map10q12UniSTS
AI501498  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,949,883 - 20,950,071 (+)MAPPERmRatBN7.2
Rnor_6.01021,314,944 - 21,315,131NCBIRnor6.0
Rnor_5.01021,182,663 - 21,182,850UniSTSRnor5.0
RGSC_v3.41021,410,540 - 21,410,727UniSTSRGSC3.4
Celera1020,568,102 - 20,568,289UniSTS
RH 3.4 Map10235.7UniSTS
Cytogenetic Map10q12UniSTS
AW529537  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21021,044,921 - 21,045,131 (+)MAPPERmRatBN7.2
Rnor_6.01021,420,490 - 21,420,699NCBIRnor6.0
Rnor_5.01021,287,635 - 21,287,844UniSTSRnor5.0
Celera1020,662,181 - 20,662,390UniSTS
RH 3.4 Map10241.7UniSTS
Cytogenetic Map10q12UniSTS
AU049925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21021,330,407 - 21,330,599 (+)MAPPERmRatBN7.2
Rnor_6.01021,708,541 - 21,708,732NCBIRnor6.0
Rnor_5.01021,575,826 - 21,576,017UniSTSRnor5.0
RGSC_v3.41021,791,994 - 21,792,185UniSTSRGSC3.4
Celera1020,947,151 - 20,947,312UniSTS
Cytogenetic Map10q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:302
Count of miRNA genes:115
Interacting mature miRNAs:125
Transcripts:ENSRNOT00000011922, ENSRNOT00000068312
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 60
Low 3 10 20 4 8 4 7 7 14 2 33 3 7
Below cutoff 22 33 33 11 33 1 3 32 8 8 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_020088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF086607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF086608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF086609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF086610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000011922   ⟹   ENSRNOP00000011922
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1020,481,854 - 21,705,597 (-)Ensembl
Rnor_6.0 Ensembl1020,844,899 - 21,265,026 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097791   ⟹   ENSRNOP00000077386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1020,481,854 - 21,705,597 (-)Ensembl
RefSeq Acc Id: NM_020088   ⟹   NP_064473
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,481,854 - 21,617,003 (-)NCBI
Rnor_6.01020,846,091 - 21,791,771 (-)NCBI
Rnor_5.01020,716,458 - 21,659,087 (-)NCBI
RGSC_v3.41020,939,207 - 21,888,443 (-)RGD
Celera1020,101,901 - 21,233,134 (-)RGD
Sequence:
RefSeq Acc Id: XM_039085062   ⟹   XP_038940990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085063   ⟹   XP_038940991
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,706,415 (-)NCBI
RefSeq Acc Id: XM_039085064   ⟹   XP_038940992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085065   ⟹   XP_038940993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,480,662 - 21,413,393 (-)NCBI
RefSeq Acc Id: XM_039085066   ⟹   XP_038940994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085067   ⟹   XP_038940995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085068   ⟹   XP_038940996
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085069   ⟹   XP_038940997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085070   ⟹   XP_038940998
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,812 (-)NCBI
RefSeq Acc Id: XM_039085071   ⟹   XP_038940999
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,705,811 (-)NCBI
RefSeq Acc Id: XM_039085072   ⟹   XP_038941000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,163,766 (-)NCBI
RefSeq Acc Id: XM_039085073   ⟹   XP_038941001
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 20,901,530 (-)NCBI
RefSeq Acc Id: XM_039085074   ⟹   XP_038941002
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 20,905,100 (-)NCBI
RefSeq Acc Id: XM_039085075   ⟹   XP_038941003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 20,905,100 (-)NCBI
RefSeq Acc Id: XM_039085076   ⟹   XP_038941004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21020,482,113 - 21,163,766 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_064473   ⟸   NM_020088
- UniProtKB: Q9R1K2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000011922   ⟸   ENSRNOT00000011922
RefSeq Acc Id: XP_038940993   ⟸   XM_039085065
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940991   ⟸   XM_039085063
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940998   ⟸   XM_039085070
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038940997   ⟸   XM_039085069
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038940996   ⟸   XM_039085068
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038940995   ⟸   XM_039085067
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038940994   ⟸   XM_039085066
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038940990   ⟸   XM_039085062
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940992   ⟸   XM_039085064
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940999   ⟸   XM_039085071
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038941004   ⟸   XM_039085076
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038941000   ⟸   XM_039085072
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038941003   ⟸   XM_039085075
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038941002   ⟸   XM_039085074
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038941001   ⟸   XM_039085073
- Peptide Label: isoform X9
RefSeq Acc Id: ENSRNOP00000077386   ⟸   ENSRNOT00000097791
Protein Domains
EGF-like   Teneurin N-terminal

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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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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-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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:727907 AgrOrtholog
Ensembl Genes ENSRNOG00000027341 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000011922 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000011922 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CarboxyPept-like_regulatory UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPR006530 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rhs_assc_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ten-2/3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ten_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tox-GHH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117242 UniProtKB/Swiss-Prot
NCBI Gene 117242 ENTREZGENE
PANTHER PTHR11219:SF8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ten_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tox-GHH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tenm2 PhenoGen
PROSITE EGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TENEURIN_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49464 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs Rhs_assc_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  YD_repeat_2x UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096P6L6_RAT UniProtKB/TrEMBL
  Q9R1K2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9R1J9 UniProtKB/Swiss-Prot
  Q9R1K0 UniProtKB/Swiss-Prot
  Q9R1K1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tenm2  teneurin transmembrane protein 2  LOC102551468  teneurin-2-like  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102551468  teneurin-2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-10-11 Tenm2  teneurin transmembrane protein 2  Odz2  odz, odd Oz/ten-m homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Odz2  odz, odd Oz/ten-m homolog 2 (Drosophila)  Odz2  odd Oz/ten-m homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Odz2  odd Oz/ten-m homolog 2 (Drosophila)      Symbol and Name status set to approved 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in many types of neurons, including pyramidal cells in the cerebral cortex and tufted cells in the olfactory bulb during development 1299591