| 2316958 | Gluco58 | Glucose level QTL 58 | 10 | | Glucose level | postprandial | 4 | 6690606 | 185398530 | Rat |
| 1358352 | Srcrt3 | Stress Responsive Cort QTL 3 | 2.29 | | Hypothalamic-pituitary-adrenal axis | corticosterone post-stress | 4 | 8819982 | 149560340 | Rat |
| 1576305 | Emca6 | Estrogen-induced mammary cancer QTL 6 | 5.8 | | Mammary tumor susceptibility | estradiol-induced | 4 | 41729583 | 159115617 | Rat |
| 1354612 | Foco1 | Food consumption QTL 1 | 8.87 | | Consumption level | food intake | 4 | 41729771 | 151158666 | Rat |
| 1354660 | Salc1 | Saline consumption QTL 1 | 11.26 | | Consumption level | saline intake | 4 | 41729771 | 151158666 | Rat |
| 2312567 | Glom19 | Glomerulus QTL 19 | 1.9 | .006 | Renal pathology | | 4 | 43686352 | 149560340 | Rat |
| 1298082 | Stresp4 | Stress response QTL 4 | | | Hormone level | corticosterone | 4 | 47889730 | 149560340 | Rat |
| 70200 | Alc18 | Alcohol consumption QTL 18 | 9.2 | | Consumption level | alcohol preference | 4 | 54828166 | 152570244 | Rat |
| 738009 | Sach4 | Saccharine consumption QTL 4 | 4.9 | .000016 | Consumption level | saccharin preference | 4 | 58421110 | 158108528 | Rat |
| 738016 | Alc16 | Alcohol consumption QTL 16 | 3.6 | .00015 | Consumption level | alcohol preference | 4 | 58421110 | 158108528 | Rat |
| 738031 | Alc14 | Alcohol consumption QTL 14 | 7.6 | .00003 | Consumption level | alcohol preference | 4 | 58421110 | 158108528 | Rat |
| 631674 | Iddm14 | Insulin dependent diabetes mellitus QTL 14 | | | Glucose level | | 4 | 63276741 | 160891592 | Rat |
| 61406 | Scwia1 | Streptococcal cell wall induced arthritis QTL 1 | 2.3 | | Joint/bone inflammation | streptococcal cell wall induced | 4 | 73972453 | 154937227 | Rat |
| 1576316 | Ept5 | Estrogen-induced pituitary tumorigenesis QTL 5 | 3.8 | | Gland mass | pituitary | 4 | 82700691 | 182307104 | Rat |
| 70177 | Xhs1 | X-ray hypersensitivity QTL 1 | 25.1 | | X-ray sensitivity | | 4 | 82861630 | 155893772 | Rat |
| 1582232 | Gluco25 | Glucose level QTL 25 | 3.6 | .0023 | Glucose level | uptake | 4 | 84886545 | 151158853 | Rat |
| 1358202 | Gluco11 | Glucose level QTL 11 | 2.4 | .02 | Glucose level | uptake | 4 | 85014031 | 171204531 | Rat |
| 634335 | Anxrr16 | Anxiety related response QTL 16 | 7.22 | | Anxiety response | | 4 | 93498821 | 171204377 | Rat |
| 61434 | Cia3 | Collagen induced arthritis QTL 3 | 4.8 | | Joint/bone inflammation | type II collagen induced | 4 | 104415843 | 149415843 | Rat |
| 737821 | Hcar9 | Hepatocarcinoma resistance QTL 9 | 3.7 | | Liver tumor resistance | nodule number | 4 | 106554769 | 171204531 | Rat |
| 6478680 | Anxrr29 | Anxiety related response QTL 29 | | .00092 | Anxiety response | open field inner locomotion | 4 | 106808891 | 151808891 | Rat |
| 6478740 | Anxrr39 | Anxiety related response QTL 39 | | .07528 | Anxiety response | open field inner locomotion | 4 | 106808891 | 151808891 | Rat |
| 2302049 | Pia32 | Pristane induced arthritis QTL 32 | 5.1 | .001 | Joint/bone inflammation | pristane induced | 4 | 107728559 | 152728559 | Rat |
| 731165 | Uae21 | Urinary albumin excretion QTL 21 | 2.4 | .0001 | Renal function | urine albumin level | 4 | 108641841 | 153641841 | Rat |
| 1331759 | Hrtrt13 | Heart rate QTL 13 | 3.54628 | | Heart rate | | 4 | 111754988 | 172369380 | Rat |
| 1549832 | Bss3 | Bone structure and strength QTL 3 | 11 | | Bone structure | Femoral midshaft cortical area | 4 | 112039347 | 157039347 | Rat |
| 7207480 | Bss105 | Bone structure and strength QTL 105 | 8.1 | | Bone structure | Femoral midshaft moment of inertia | 4 | 112039347 | 157039347 | Rat |
| 6478760 | Anxrr45 | Anxiety related response QTL 45 | | .06717 | Anxiety response | response in light-dark box | 4 | 113136999 | 158136999 | Rat |
| 6478763 | Anxrr46 | Anxiety related response QTL 46 | | .07428 | Anxiety response | response in light-dark box | 4 | 113136999 | 158136999 | Rat |
| 1331802 | Srn5 | Serum renin concentration QTL 5 | 3.045 | | Renin concentration | serum | 4 | 115896404 | 160896404 | Rat |
| 1300116 | Hrtrt5 | Heart rate QTL 5 | 3.76 | | Heart rate | salt-loaded | 4 | 117887605 | 154283969 | Rat |
| 724535 | Cm18 | Cardiac mass QTL 18 | 2.6 | | Cardiac mass | | 4 | 121375269 | 166375269 | Rat |
| 2293840 | Kiddil9 | Kidney dilation QTL 9 | 2.9 | | Renal pathology | kidney dilation | 4 | 122550935 | 151158853 | Rat |
| 631683 | Bp116 | Blood pressure QTL 116 | | .0001 | Blood pressure | salt-loaded systolic | 4 | 127060280 | 172060280 | Rat |
| 6478778 | Anxrr51 | Anxiety related response QTL 51 | | .25384 | Anxiety response | open field inner locomotion | 4 | 127547983 | 172547983 | Rat |
| 61451 | Ciaa4 | CIA Autoantibody QTL 4 | 3.1 | | Anti-type II collagen autoantibody titer | | 4 | 128179957 | 171204531 | Rat |
| 1358364 | Sradr4 | Stress Responsive Adrenal Weight QTL 4 | 4.92 | | Hypothalamic-pituitary-adrenal axis | adrenal gland weight | 4 | 132846974 | 177846974 | Rat |
| 631511 | Pia7 | Pristane induced arthritis QTL 7 | 4.3 | | Joint/bone inflammation | pristane induced | 4 | 133939407 | 171204531 | Rat |
| 737978 | Pia23 | Pristane induced arthritis QTL 23 | 5.3 | | Joint/bone inflammation | pristane induced | 4 | 133939407 | 171204531 | Rat |
| 61422 | Cia13 | Collagen induced arthritis QTL 13 | 4.5 | | Joint/bone inflammation | type II collagen induced | 4 | 134858561 | 171204531 | Rat |
| 1549827 | Scl46 | Serum cholesterol level QTL 46 | 3.5 | | Lipid level | baseline serum cholesterol | 4 | 135601855 | 180601855 | Rat |
| 724558 | Plsm2 | Polydactyly-luxate syndrome (PLS) morphotypes QTL 2 | | .0003 | Limb morphology | hind feet phalanges number | 4 | 135628567 | 180628567 | Rat |
| 61362 | Oia2 | Oil induced arthritis QTL 2 | | .001 | Joint/bone inflammation | oil induced | 4 | 136668162 | 181668162 | Rat |
| 1298524 | Oia8 | Oil induced arthritis QTL 8 | | | Joint/bone inflammation | oil induced | 4 | 136668162 | 181668162 | Rat |
| 2303623 | Vencon2 | Ventilatory control QTL 2 | 3.8 | | Ventilatory control | re-oxygenation after hypoxia | 4 | 138523557 | 183523557 | Rat |
| 1578674 | Bmd12 | Bone mineral density QTL 12 | 3.8 | | Bone mineral density | femoral neck cortical vBMD | 4 | 140398530 | 185398530 | Rat |
| 2293659 | Bmd35 | Bone mineral density QTL 35 | 4.5 | .0001 | Bone mineral density | | 4 | 140454608 | 186104310 | Rat |
| 70201 | Gcr1 | Gastric cancer resistance QTL 1 | 2.7 | | Gastric tumor resistance | tumor size | 4 | 144600129 | 150048167 | Rat |
| 1581561 | Eae22 | Experimental allergic encephalomyelitis QTL 22 | | | Brain/spinal cord inflammation | | 4 | 145746752 | 187126005 | Rat |
| 6478693 | Anxrr32 | Anxiety related response QTL 32 | | .00092 | Anxiety response | response in light-dark box | 4 | 148704454 | 187126005 | Rat |
| 6478700 | Anxrr33 | Anxiety related response QTL 33 | | .00896 | Anxiety response | response in light-dark box | 4 | 148704454 | 187126005 | Rat |
| 6478718 | Anxrr34 | Anxiety related response QTL 34 | | .00896 | Anxiety response | response in light-dark box | 4 | 148704454 | 187126005 | Rat |
| 6478748 | Anxrr42 | Anxiety related response QTL 42 | | .28008 | Anxiety response | pen field inner locomotion | 4 | 148704454 | 187126005 | Rat |
| 6478754 | Anxrr43 | Anxiety related response QTL 43 | | .14035 | Anxiety response | pen field inner locomotion | 4 | 148704454 | 187126005 | Rat |