| 1305086 | Kbtbd6 | kelch repeat and BTB (POZ) domain containing 6 | 15 | 61501576 | 61503070 | Rat |
| 620033 | Wbp4 | WW domain binding protein 4 | 15 | 61517401 | 61543453 | Rat |
| 1592159 | LOC692013 | hypothetical protein LOC692013 | 15 | 61928291 | 61928861 | Rat |
| 1592158 | LOC692014 | similar to Heat shock protein HSP 90-beta (HSP 84) | 15 | 62764795 | 62766538 | Rat |
| 1592157 | LOC692015 | similar to cytochrome P450, family 2, subfamily c, polypeptide 66 | 15 | 62895549 | 62896630 | Rat |
| 1592156 | LOC692016 | similar to sorbitol dehydrogenase 1 | 15 | 63157286 | 63158339 | Rat |
| 2320681 | LOC100361180 | 40S ribosomal protein S17-like | 15 | 63206557 | 63208603 | Rat |
| 2320538 | LOC100361225 | ATP synthase, H+ transporting, mitochondrial Fo complex, subunit d-like | 15 | 63240155 | 63324385 | Rat |
| 1592155 | LOC692017 | similar to ubiquinol-cytochrome c reductase binding protein | 15 | 64854138 | 64854461 | Rat |
| 2320484 | LOC100361279 | hypothetical LOC100361279 | 15 | 65044030 | 65044334 | Rat |
| 1561197 | RGD1561197 | similar to hypothetical protein 4930474N05 | 15 | 65846965 | 65847690 | Rat |
| 1304753 | Pcdh17 | protocadherin 17 | 15 | 66391901 | 66482530 | Rat |
| 2320304 | LOC100361361 | hypothetical LOC100361361 | 15 | 67632575 | 67774338 | Rat |
| 1593287 | Diaph3 | diaphanous homolog 3 (Drosophila) | 15 | 68905784 | 69267707 | Rat |
| 2320163 | LOC100361402 | hypothetical LOC100361402 | 15 | 69577382 | 69578233 | Rat |
| 1310126 | Tdrd3 | tudor domain containing 3 | 15 | 69605244 | 69739566 | Rat |
| 2320119 | LOC100361446 | hypothetical LOC100361446 | 15 | 70089626 | 70137241 | Rat |
| 1592154 | LOC692018 | similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) | 15 | 70125146 | 70134531 | Rat |
| 1592153 | LOC692019 | similar to Tubulin alpha-3 chain (Alpha-tubulin 3) | 15 | 70393481 | 70394642 | Rat |
| 1592113 | LOC290412 | similar to Pyruvate kinase isozymes M1/M2 (Pyruvate kinase muscle isozyme) | 15 | 70653314 | 70654907 | Rat |
| 1306297 | Pcdh20 | protocadherin 20 | 15 | 70760564 | 70766820 | Rat |
| 1592151 | LOC692021 | similar to 3-phosphoglycerate dehydrogenase | 15 | 72167237 | 72168769 | Rat |
| 1592152 | LOC692020 | similar to 3-phosphoglycerate dehydrogenase | 15 | 72167368 | 72167745 | Rat |
| 1592112 | LOC290415 | similar to 3-phosphoglycerate dehydrogenase | 15 | 72167929 | 72168534 | Rat |
| 1592150 | LOC692022 | similar to 60S ribosomal protein L29 (P23) | 15 | 72647768 | 72648043 | Rat |
| 1592149 | LOC692023 | hypothetical protein LOC692023 | 15 | 73283511 | 73285520 | Rat |
| 2319690 | LOC100361683 | cyclin-dependent kinase 4 | 15 | 73799076 | 73803899 | Rat |
| 1595677 | LOC502026 | similar to non-POU domain containing, octamer-binding | 15 | 73845590 | 73864955 | Rat |
| 1592148 | LOC692024 | hypothetical protein LOC692024 | 15 | 73997719 | 73998069 | Rat |
| 1590791 | LOC498555 | similar to 60S acidic ribosomal protein P2 | 15 | 74072039 | 74072476 | Rat |
| 1306348 | Pcdh9 | protocadherin 9 | 15 | 75827180 | 76739147 | Rat |
| 1595676 | LOC502027 | similar to Voltage-dependent anion-selective channel protein 1 (VDAC-1) (mVDAC1) (mVDAC5) (Outer mitochondrial membrane protein porin 1) (Plasmalemmal porin) | 15 | 76976176 | 77003404 | Rat |
| 1592147 | LOC692025 | similar to SNF related kinase | 15 | 77299415 | 77300560 | Rat |
| 2319311 | LOC100361867 | sex-determining region Y-box 2 | 15 | 77300771 | 77301128 | Rat |
| 1592146 | LOC692026 | similar to mesenchymal stem cell protein DSC92 | 15 | 77999900 | 78003326 | Rat |
| 1592145 | LOC692027 | similar to family with sequence similarity 60, member A | 15 | 78902470 | 78906730 | Rat |
| 1306441 | RGD1306441 | similar to RIKEN cDNA 4921530L21 | 15 | 79057753 | 79059248 | Rat |
| 2318963 | LOC100362017 | mannose-binding protein C-like | 15 | 79099251 | 79102860 | Rat |
| 2321672 | LOC100360685 | breast cancer associated 3 | 15 | 79183313 | 79183953 | Rat |
| 2318917 | LOC100362064 | hypothetical protein LOC100362064 | 15 | 79279651 | 79284168 | Rat |
| 1307452 | Klhl1 | kelch-like 1 (Drosophila) | 15 | 79306914 | 79772396 | Rat |
| 2321527 | LOC100360731 | SNRPN upstream reading frame protein-like | 15 | 79823033 | 79823236 | Rat |
| 1592111 | LOC290428 | similar to small nuclear ribonucleoparticle-associated protein | 15 | 79823368 | 79824121 | Rat |
| 1592144 | LOC692028 | similar to matrin 3 | 15 | 80541598 | 80544134 | Rat |
| 1559682 | RGD1559682 | similar to peptidylprolyl isomerase A (cyclophilin A)) | 15 | 80674328 | 80674915 | Rat |
| 1559579 | RGD1559579 | similar to Ski protein | 15 | 80824187 | 80828270 | Rat |
| 727855 | Setl1 | SET translocation-like 1 | 15 | 81175616 | 81176474 | Rat |
| 1592073 | LOC306096 | similar to Dachshund homolog 1 (Dach1) | 15 | 81193149 | 81573098 | Rat |
| 1593341 | LOC691942 | similar to Nonhistone chromosomal protein HMG-17 (High-mobility group nucleosome binding domain 2) | 15 | 81281272 | 81284435 | Rat |
| 1592143 | LOC692029 | hypothetical protein LOC692029 | 15 | 81623786 | 81635482 | Rat |
| 1560069 | RGD1560069 | similar to ribosomal protein L27 | 15 | 81680519 | 81684431 | Rat |
| 1593229 | LOC364451 | similar to Elongation factor 1-gamma (EF-1-gamma) (eEF-1B gamma) | 15 | 81765683 | 81766976 | Rat |
| 1592142 | LOC692030 | similar to pescadillo homolog 1, containing BRCT domain | 15 | 81975738 | 82001636 | Rat |
| 1592141 | LOC692031 | similar to Apoptosis inhibitor 5 (API-5) (AAC-11) | 15 | 82697517 | 82698833 | Rat |
| 1592140 | Mzt1 | mitotic spindle organizing protein 1 | 15 | 82820060 | 82828971 | Rat |
| 1309522 | Bora | bora, aurora kinase A activator | 15 | 82829209 | 82852061 | Rat |
| 1304646 | Dis3 | DIS3 mitotic control homolog (S. cerevisiae) | 15 | 82855389 | 82881767 | Rat |
| 2320932 | LOC100361028 | Spi-C transcription factor (Spi-1/PU.1 related)-like | 15 | 82861665 | 82862526 | Rat |
| 1305077 | Pibf1 | progesterone immunomodulatory binding factor 1 | 15 | 82881953 | 83056944 | Rat |
| 1564064 | RGD1564064 | similar to glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) (EC 1.2.1.12) | 15 | 83077143 | 83088950 | Rat |
| 621446 | Klf5 | Kruppel-like factor 5 | 15 | 83103177 | 83118363 | Rat |
| 1593228 | LOC364454 | similar to androgen receptor N-terminal-interacting protein | 15 | 83336622 | 83337412 | Rat |
| 1309204 | Klf12 | Kruppel-like factor 12 | 15 | 83686143 | 84046291 | Rat |
| 1592139 | LOC692033 | similar to ribosomal protein L10a | 15 | 84379787 | 84384974 | Rat |
| 1560797 | RGD1560797 | similar to glyceraldehyde-3-phosphate dehydrogenase | 15 | 84510642 | 84531047 | Rat |
| 2324281 | LOC100362677 | selenoprotein K-like | 15 | 84678470 | 84678815 | Rat |
| 2324135 | LOC100362723 | hypothetical protein LOC100362723 | 15 | 85302433 | 85308286 | Rat |
| 1561609 | RGD1561609 | similar to TBC1 domain family member 4 | 15 | 85359159 | 85561229 | Rat |
| 2320734 | Uqcr10 | ubiquinol-cytochrome c reductase, complex III subunit X | 15 | 85592150 | 85592344 | Rat |
| 1560745 | Commd6 | COMM domain containing 6 | 15 | 85610757 | 85617333 | Rat |
| 1561196 | Uchl3 | ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase) | 15 | 85628490 | 85670420 | Rat |
| 2323955 | LOC100362823 | hypothetical LOC100362823 | 15 | 85677337 | 85678161 | Rat |
| 1302984 | Lmo7 | LIM domain 7 | 15 | 85710975 | 85928469 | Rat |
| 1592138 | LOC692034 | similar to Aspartate aminotransferase, mitochondrial precursor (Transaminase A) (Glutamate oxaloacetate transaminase 2) | 15 | 85969607 | 85970860 | Rat |
| 1592110 | LOC290444 | similar to eukaryotic translation initiation factor 3, subunit 12 | 15 | 86132335 | 86141243 | Rat |
| 1562819 | RGD1562819 | similar to Nucleoside diphosphate kinase B (NDK B) (NDP kinase B) (P18) | 15 | 86148645 | 86150265 | Rat |
| 2323730 | LOC100362963 | hypothetical LOC100362963 | 15 | 86463894 | 86464329 | Rat |
| 1309421 | Kctd12 | potassium channel tetramerisation domain containing 12 | 15 | 86986827 | 86987810 | Rat |
| 1563454 | Irg1 | immunoresponsive gene 1 | 15 | 87056688 | 87066471 | Rat |
| 1306965 | Cln5 | ceroid-lipofuscinosis, neuronal 5 | 15 | 87080071 | 87089784 | Rat |
| 1305660 | Fbxl3 | F-box and leucine-rich repeat protein 3 | 15 | 87093141 | 87113003 | Rat |
| 1312048 | Mycbp2 | MYC binding protein 2, E3 ubiquitin protein ligase | 15 | 87124558 | 87364839 | Rat |
| 1305102 | Scel | sciellin | 15 | 87547770 | 87678387 | Rat |
| 1592137 | LOC692035 | similar to 60S ribosomal protein L29 (P23) | 15 | 87695521 | 87695991 | Rat |
| 1308626 | Slain1 | SLAIN motif family, member 1 | 15 | 87720662 | 87770016 | Rat |
| 2536 | Ednrb | endothelin receptor type B | 15 | 87893141 | 87898700 | Rat |
| 620074 | Pou4f1 | POU class 4 homeobox 1 | 15 | 88535625 | 88539256 | Rat |
| 1592136 | LOC692036 | hypothetical protein LOC692036 | 15 | 88543892 | 88544802 | Rat |
| 1564706 | Rnf219 | ring finger protein 219 | 15 | 88548933 | 88588816 | Rat |
| 1592135 | LOC692037 | similar to ribosomal protein S18 | 15 | 88610481 | 88610954 | Rat |
| 1592109 | LOC290453 | hypothetical LOC290453 | 15 | 89025684 | 89027549 | Rat |
| 1308297 | RGD1308297 | similar to CG10084-PA | 15 | 89173025 | 89246959 | Rat |
| 1592134 | LOC692038 | similar to ribosomal protein S11 | 15 | 89250735 | 89251229 | Rat |
| 1565438 | RGD1565438 | similar to ATP synthase, H+ transporting, mitochondrial Fo complex, subunit g | 15 | 89253563 | 89253874 | Rat |
| 1309716 | Ndfip2 | Nedd4 family interacting protein 2 | 15 | 89316553 | 89376267 | Rat |
| 1592133 | LOC692039 | similar to ribosomal protein L9 | 15 | 89501502 | 89502106 | Rat |
| 1592132 | LOC692040 | similar to ribosomal protein S13 | 15 | 89533985 | 89595333 | Rat |
| 1592131 | LOC692041 | hypothetical protein LOC692041 | 15 | 89637961 | 89638315 | Rat |
| 2323417 | LOC100363223 | hypothetical LOC100363223 | 15 | 89809964 | 89810959 | Rat |
| 1311472 | Spry2 | sprouty homolog 2 (Drosophila) | 15 | 90009109 | 90011940 | Rat |
| 1565615 | Trim52 | tripartite motif-containing 52 | 15 | 90214463 | 90216142 | Rat |
| 1593227 | LOC364462 | similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) | 15 | 90528410 | 90534815 | Rat |
| 2323174 | LOC100363369 | hypothetical LOC100363369 | 15 | 91812674 | 91814300 | Rat |
| 1592130 | LOC692042 | hypothetical protein LOC692042 | 15 | 91994172 | 91999787 | Rat |
| 2323017 | LOC100363428 | PCNA-associated factor-like | 15 | 92034262 | 92035213 | Rat |
| 1592108 | LOC290463 | similar to Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) | 15 | 92035240 | 92036021 | Rat |
| 1592129 | LOC692043 | similar to Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) (38 kDa BFA-dependent ADP-ribosylation substrate) (BARS-38) | 15 | 92546077 | 92548521 | Rat |
| 1308858 | Slitrk1 | SLIT and NTRK-like family, member 1 | 15 | 93205850 | 93209888 | Rat |
| 2323849 | LOC100359444 | heterogeneous nuclear ribonucleoprotein D-like | 15 | 93873415 | 93876696 | Rat |
| 2319521 | LOC100361753 | apolipoprotein O-like | 15 | 94109287 | 94110291 | Rat |
| 2323641 | LOC100359553 | heterogeneous nuclear ribonucleoprotein A1-like | 15 | 94916082 | 94937645 | Rat |
| 1306550 | Slitrk6 | SLIT and NTRK-like family, member 6 | 15 | 95106364 | 95112983 | Rat |
| 1592128 | LOC692044 | similar to T25C8.2 | 15 | 95160090 | 95161230 | Rat |
| 2319369 | LOC100361805 | WD repeat domain 12 | 15 | 95240516 | 95242210 | Rat |
| 1592127 | LOC692045 | similar to eukaryotic translation initiation factor 4A2 | 15 | 95501372 | 95631289 | Rat |
| 2325076 | LOC100359652 | heat shock 70kD protein binding protein-like | 15 | 95631798 | 95758161 | Rat |
| 1559833 | RGD1559833 | similar to 60S ribosomal protein L5 | 15 | 96251569 | 96252250 | Rat |
| 1310957 | Slitrk5 | SLIT and NTRK-like family, member 5 | 15 | 96407553 | 96412374 | Rat |
| 1592126 | LOC692046 | similar to 60S ribosomal protein L21 | 15 | 96781156 | 96781637 | Rat |
| 1592125 | LOC692047 | hypothetical protein LOC692047 | 15 | 97320153 | 97363078 | Rat |
| 1593226 | LOC364467 | similar to Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) | 15 | 97554889 | 97555843 | Rat |
| 2319284 | LOC100361894 | Sec61 gamma subunit-like | 15 | 97780890 | 97781096 | Rat |
| 1592124 | LOC692048 | similar to CDK105 protein | 15 | 98581578 | 98582374 | Rat |
| 2323075 | LOC100359970 | poly(rC) binding protein 1-like | 15 | 98851075 | 98851848 | Rat |
| 631273 | Cati2 | Cataract Ihara QTL 2 | | .001 | Cataract susceptibility | time of onset | 15 | 16458810 | 61458810 | Rat |
| 61477 | Aia4 | Adjuvant induced arthritis QTL 4 | 3 | | Joint/bone inflammation | adjuvant induced | 15 | 61458810 | 99039586 | Rat |
| 70155 | Gcs1 | Gastric cancer susceptibility QTL1 | 3.8 | | Gastric tumor susceptibility | tumor size | 15 | 83349477 | 108387242 | Rat |
| 70182 | BpQTLcluster12 | Blood pressure QTL cluster 12 | 3.53 | | Blood pressure | systolic | 15 | 80362100 | 102741229 | Rat |
| 61424 | Scl1 | Serum cholesterol level QTL 1 | 7.7 | .001 | Lipid level | cholesterol | 15 | 18710622 | 87898700 | Rat |
| 631655 | Bp126 | Blood pressure QTL 126 | 4 | | Blood pressure | systolic | 15 | 65395920 | 109758846 | Rat |
| 631516 | Gluco31 | Glucose level QTL 31 | 7 | | Glucose level | fasting | 15 | 61458810 | 102741229 | Rat |
| 731177 | Uae26 | Urinary albumin excretion QTL 26 | 2.4 | .025 | Renal function | urine albumin level | 15 | 75200650 | 109758846 | Rat |
| 724548 | Niddm55 | Non-insulin dependent diabetes mellitus QTL 55 | | .02 | Glucose level | | 15 | 74779895 | 80370512 | Rat |
| 724545 | Niddm54 | Non-insulin dependent diabetes mellitus QTL 54 | | .02 | Glucose level | | 15 | 56346569 | 80370658 | Rat |
| 1300144 | Rf23 | Renal function QTL 23 | 3.61 | | Renal function | salt-loaded renal vascular resistance | 15 | 45870097 | 106177917 | Rat |
| 1300118 | Bp190 | Blood pressure QTL 190 | 2.94 | | Blood pressure | salt-loaded diastolic | 15 | 89569706 | 106177917 | Rat |
| 1300120 | Kidm7 | Kidney mass QTL 7 | 3.55 | | Kidney mass | salt-loaded | 15 | 89569706 | 106177917 | Rat |
| 1331724 | Bp223 | Blood pressure QTL 223 | 3.53715 | | Blood pressure | systolic | 15 | 80361961 | 102741337 | Rat |
| 1331729 | Rf42 | Renal function QTL 42 | 3.071 | | Renal function | renal blood flow | 15 | 19348148 | 80362100 | Rat |
| 1582228 | Epfw3 | Epididymal fat weight QTL 3 | 4.1 | .0002 | Epididymal fat weight | | 15 | 32638412 | 89569864 | Rat |
| 1576315 | Schws6 | Schwannoma susceptibility QTL 6 | | .0069 | Neural tumor susceptibility | length of survival time | 15 | 60849424 | 105849424 | Rat |
| 1581555 | Eae19 | Experimental allergic encephalomyelitis QTL 19 | 4.7 | | Brain/spinal cord inflammation | severity of disease | 15 | 83349371 | 97700727 | Rat |
| 1582227 | Gluco30 | Glucose level QTL 30 | 3.6 | .0003 | Glucose level | uptake | 15 | 32638412 | 89569864 | Rat |
| 1582242 | Gluco28 | Glucose level QTL 28 | 3.3 | .0008 | Glucose level | uptake | 15 | 32638412 | 89569864 | Rat |
| 1582214 | Stl21 | Serum triglyceride level QTL 21 | 3.1 | .022 | Lipid level | triglyceride | 15 | 32638412 | 89569864 | Rat |
| 1578647 | Bmd17 | Bone mineral density QTL 17 | 4 | | Bone mineral density | femoral neck total vBMD | 15 | 25506124 | 106177917 | Rat |
| 1582244 | Bw79 | Body weight QTL 79 | 4 | .0002 | Body fat amount | adiposity index | 15 | 32638412 | 89569864 | Rat |
| 1578646 | Bmd18 | Bone mineral density QTL 18 | 5.2 | | Bone mineral density | femoral neck trabecular vBMD | 15 | 25506124 | 106177917 | Rat |
| 1578660 | Bss19 | Bone structure and strength QTL 19 | 4.3 | | Bone structure | femoral neck trabecular area | 15 | 25506124 | 106177917 | Rat |
| 1581519 | Cm59 | Cardiac mass QTL 59 | 2.8 | .05 | Cardiac mass | left ventricle | 15 | 96375862 | 103677388 | Rat |
| 1641889 | Colcr6 | Colorectal carcinoma resistance QTL 6 | 2.9 | .0126 | Colorectal carcinoma resistance | | 15 | 80361961 | 107849649 | Rat |
| 1598828 | Glom14 | Glomerulus QTL 14 | 2.5 | | Renal pathology | glomerular injury score | 15 | 40091127 | 85091127 | Rat |
| 2302780 | MAMTS3_H | Mammary tumor susceptibility QTL 3 (human) | 2.51 | | Mammary tumor susceptibility | | 8 | 47636303 | 92636303 | Human |
| 2300326 | Plaw1 | Placental weight QTL 1 | 15 | .005 | Placental weight | | 15 | 74779702 | 109758846 | Rat |
| 2293686 | Bmd36 | Bone mineral density QTL 36 | 7.4 | .0001 | Bone mineral density | | 15 | 38542355 | 78048493 | Rat |
| 2293691 | Bmd37 | Bone mineral density QTL 37 | 6.6 | .0001 | Bone mineral density | | 15 | 38542355 | 78048493 | Rat |
| 2313080 | Bss65 | Bone structure and strength QTL 65 | 3.9 | .0001 | Bone structure | | 15 | 67190176 | 80362100 | Rat |
| 2317055 | Aia10 | Adjuvant induced arthritis QTL 10 | 3.41 | | Joint/bone inflammation | adjuvant induced | 15 | 83677810 | 109758846 | Rat |
| 2317050 | Aia24 | Adjuvant induced arthritis QTL 24 | 2.06 | | Joint/bone inflammation | adjuvant induced | 15 | 58412001 | 80362100 | Rat |
| 2317750 | Glom26 | Glomerulus QTL 26 | 4.3 | | Renal pathology | urine protein level | 15 | 14072029 | 71533203 | Rat |
| 1549844 | Bss7 | Bone structure and strength QTL 7 | 6.4 | | Bone structure and strength | Femoral midshaft moment of inertia | 15 | 83677810 | 109758846 | Rat |