Gene hits in healthy animals
No. of the leukemic clone: locus hit, nearest gene* . | Gene ID . | Chromosome . | Distance to transcriptional start . | Forward (F) or reverse (R) orientation . | (Predicted) gene function . | Class (localization) . | RTCGD . | CGD . |
|---|---|---|---|---|---|---|---|---|
| HaMDR1 26 | ||||||||
| Siat4c | 20443 | 9A4 | -1848 | R | sialyltransferase, hemostasis | 3 | - | - |
| Evil | 14013 | 3A3 | -16655 | R | transcription factor | 1(B) | 20 hits | + |
| Nif311 | 65102 | 1C1.3 | 944 | F | transcriptional corepressor | 2(B) | - | - |
| Plcg2 | 234779 | 8E1 | -2770 | R | survival signaling | 2(A) | - | - |
| Gng12 | 14701 | 6C1 | 59426 | F | G protein | 2(B) | - | - |
| Arrb1 | 109689 | 7E1 | -3800 | F | arrestin, IGF-1 pathway, antiapoptotic | 2(A) | - | - |
| HaMDR1 27 | ||||||||
| AW558560 | 106821 | 17C | 8584 | F | (unknown function) | 3 | - | - |
| LOC381313 | 381313 | 1H5 | 610 | F | (similar to Rab3 GTPase activating protein) | 2(A) | - | - |
| LOC381410 | 381410 | 2E1 | -1108 | R | (similar to Zn finger protein) | 2(B) | - | - |
| Neil1 | 72774 | 9B | -854 | F | DNA repair | 3 | - | - |
| RP24-179M18 | NA | 19 | NA | NA | unknown | 3 | - | - |
| LOC381079 | 381079 | 17A3.3 | -27788 | R | (similar to Bcl2/E1B interacting protein) | 2(A) | - | - |
| Dsc2 | 13506 | 18A2 | 39460 | F | cadherin-like, cell adhesion | 2(A) | - | - |
| D630010B17 Rik | 328594 | 15E3 | 7228 | R | (unknown function) | 3 | - | - |
| Xylt1 | 233781 | 7F1 | -93391 | F | xylosyltransferase | 3 | - | - |
| LOC215999 (Gm64) | 215999 | 10B4 | 37233 | R | acetylglucosaminyltransferase | 3 | - | - |
| Mgat4a | 269181 | 1(B) | 48026 | F | metabolic enzyme | 3 | - | - |
| HaMDR1 28 | ||||||||
| Impa1 | 55980 | 3A1 | 43360 | R | inositolmonophosphatase | 3 | - | - |
| RP23-57M16 | NA | 4 | NA | NA | unknown | 3 | - | - |
| Cdk5r | 12569 | 11B5 | 84319 | R | cyclin-dependent kinase regulatory subunit | 2(B) | - | - |
| P140 | 56013 | 11D | 41772 | F | negative regulator of cell adhesion | 2(A) | - | - |
| Kctd12 | 239217 | 14E2 | 171438 | NA | potassium channel | 2(A) | - | - |
| Uck2-pending | 80914 | 1H2.3 | 40000 | F | uridine monophosphatase kinase | 3 | - | - |
| Akt1 | 11651 | 12F1-F2 | 46480 | R | thymoma viral proto-oncogene | 1(A) | 3 hits | (AKT2) |
| Ly86 | 17084 | 13A3.3 | 104966 | F | B-cell response to LPS | 2(A) | - | - |
| Lims1 | 110829 | 10B4 | 83293 | F | cell matrix adhesion | 2(A) | - | - |
| Rab3il1 | 74760 | 19A1 | 6329 | R | Rab3a interacting protein | 2(B) | - | - |
| Usp39 | 28035 | 6C1 | -1014 | F | ubiquitin specific protease | 3 | - | - |
| 0610039P13 Rik | 74096 | 5F | 12077 | F | (unknown function) | 3 | - | - |
| HaMDR1 30 | ||||||||
| Rad18 | 58186 | 6F | 9701 | F | DNA replication and recombination | 3 | - | - |
| 1500009M05 Rik | 67006 | 3G3 | 4325 | F | (unknown function) | 3 | - | - |
| HaMDR1 expanded 41 | ||||||||
| LOC384948 | 384948 | 9D | 4668 | R | (similar to mitotic checkpoint protein MAD1a) | 2(B) | - | - |
| A630038D02 | 330305 | 6B2.3 | -544 | R | (unknown function) | 3 | - | - |
| BAC clone RP21-59414 | NA | 10 | NA | NA | unknown | 3 | - | - |
| Lsm4 | 50783 | 8B3.3 | 1396 | F | U6 small nuclear RNA associated | 3 | - | - |
| Evil | 14013 | 3A3 | -155209 | R | transcription factor | 1(B) | 20 hits | + |
| BC042513 | 215113 | 11B5 | 9218 | R | (unknown function) | 3 | - | - |
| Rbbp7 | 245688 | XF4 | -4190 | F | Retinoblastoma binding protein | 2(B) | - | - |
| Abcc3 | 76408 | 11D | -20439 | F | ATP binding cassette, bile transport | 3 | - | - |
| Rnpep | 215615 | 1E4 | 1218 | F | aminopeptidase | 3 | - | - |
| Sox13 | 20668 | 1E4 | -3992 | R | SRY-box transcription factor | 2(B) | - | - |
| BAC clone RP23-373O10 | NA | 17 | NA | NA | unknown | 3 | - | - |
| LOC270174 | 270174 | 9D | -4485 | R | (Gm640 gene model) | 3 | - | - |
| HaMDR1 expanded 42 | ||||||||
| Sema4b† | 20352 | 7D1 | -41046 | R | receptor activity | 1(A) | 4 hits | - |
| Rab31-like‡ | 383272 | 17E1.1 | 48640 | F | GTP binding protein | 2(A) | - | (RAB5EP) |
| Sip1† | 66603 | 12C2 | 10227 | F | splicosome | 3 | - | - |
| Slamf1 | 27218 | 1H3 | 19532 | R | receptor activity, T cell proliferation | 2(A) | - | - |
| HaMDR1 expanded 47 | ||||||||
| RP24-333C3 | NA | 17 | NA | NA | unknown | 3 | - | - |
| RP23-129K10 | NA | 17 | NA | NA | unknown | 3 | - | - |
| no gene around | NA | 12 | NA | NA | unknown | 3 | - | - |
| Tpk1† | 29807 | 6B2.1 | -27024 | F | thiamin pyrophosphokinase | 3 | - | - |
| Gpr43† | 233079 | 7A3 | 13904 | R | GPR; myeloid differentiation | 2(A) | - | - |
| Rab31-like‡ | 383272 | 17E1 + 1 | 48640 | F | (GTP-binding protein) | 2(A) | - | - |
| Evil† | 14013 | 3A3 | -119998 | R | transcription factor | 1(B) | 20 hits | - |
| Lsm10-pending§ | 116748 | 4D2+2 | 12041 | F | mRNA splicing | 3 | - | - |
| LOC383539† | 383539 | 1C5 | -571 | F | (similar to ribosomal protein L30) | 3 | - | - |
| Nfic | 18029 | 10C1 | -11913 | R | p53 regulating nuclear factor | 1(B) | 3 hits | - |
| HaMDR1 67 | ||||||||
| Lak-pending | 71481 | 3G2 | -15 | R | (lymphocyte alfa kinase) | 2(A) | - | - |
| RP23-92G13 | NA | 13 | NA | NA | unknown | 3 | - | - |
| Ccnd2 | 12444 | 6F3 | -14615 | R | CyclinD2 | 1(B) | 18 hits | (CCND1) |
| dsRED 3 | ||||||||
| Bcl11a | 14025 | 11A32 | 167714 | F | zinc finger protein | 1(B) | 6 hits | + |
| Cacnb2 | 12296 | 2(A)2 | 28471 | R | calcium channel | 2(A) | - | - |
| Pdcd1lg1 | 60533 | 19C2 | 34046 | R | programmed cell death ligand | 1(A) | 2 hits | - |
| Phemx (Tssc6) | 27027 | 7F5 | 2431 | F | tetraspanin superfamily member | 2(A) | - | - |
| LOC384063 | 384063 | 4D2+3 | 13364 | R | (sim. to ribosomal protein) | 3 | - | - |
| Runx2 | 12393 | 17B3 | 141712 | R | runt related transcription factor | 1(B) | 6 hits | (RUNX1) |
| Ubb | 22187 | 11B2 | 8464 | F | ubiquitinB | 3 | - | - |
| Cdk6 | 12571 | 5A1 | 157035 | F | Cyclin-dependent kinase | 2(B) | - | (CDK4) |
| dsRED4 | ||||||||
| Mybbp1a | 18432 | 11B4 | 46577 | R | MYB binding protein | 2(B) | - | - |
| Btd | 26363 | 14A3 | 27328 | F | biotinidase | 2(A) | - | - |
| Crsp6 | 234959 | 9A3 | -25697 | R | cofactor of Sp1 transcription factor | 2(B) | - | - |
| Slfn2 | 20556 | 11C | 13391 | R | negative regulation of prolif. | 2(A) | - | - |
No. of the leukemic clone: locus hit, nearest gene* . | Gene ID . | Chromosome . | Distance to transcriptional start . | Forward (F) or reverse (R) orientation . | (Predicted) gene function . | Class (localization) . | RTCGD . | CGD . |
|---|---|---|---|---|---|---|---|---|
| HaMDR1 26 | ||||||||
| Siat4c | 20443 | 9A4 | -1848 | R | sialyltransferase, hemostasis | 3 | - | - |
| Evil | 14013 | 3A3 | -16655 | R | transcription factor | 1(B) | 20 hits | + |
| Nif311 | 65102 | 1C1.3 | 944 | F | transcriptional corepressor | 2(B) | - | - |
| Plcg2 | 234779 | 8E1 | -2770 | R | survival signaling | 2(A) | - | - |
| Gng12 | 14701 | 6C1 | 59426 | F | G protein | 2(B) | - | - |
| Arrb1 | 109689 | 7E1 | -3800 | F | arrestin, IGF-1 pathway, antiapoptotic | 2(A) | - | - |
| HaMDR1 27 | ||||||||
| AW558560 | 106821 | 17C | 8584 | F | (unknown function) | 3 | - | - |
| LOC381313 | 381313 | 1H5 | 610 | F | (similar to Rab3 GTPase activating protein) | 2(A) | - | - |
| LOC381410 | 381410 | 2E1 | -1108 | R | (similar to Zn finger protein) | 2(B) | - | - |
| Neil1 | 72774 | 9B | -854 | F | DNA repair | 3 | - | - |
| RP24-179M18 | NA | 19 | NA | NA | unknown | 3 | - | - |
| LOC381079 | 381079 | 17A3.3 | -27788 | R | (similar to Bcl2/E1B interacting protein) | 2(A) | - | - |
| Dsc2 | 13506 | 18A2 | 39460 | F | cadherin-like, cell adhesion | 2(A) | - | - |
| D630010B17 Rik | 328594 | 15E3 | 7228 | R | (unknown function) | 3 | - | - |
| Xylt1 | 233781 | 7F1 | -93391 | F | xylosyltransferase | 3 | - | - |
| LOC215999 (Gm64) | 215999 | 10B4 | 37233 | R | acetylglucosaminyltransferase | 3 | - | - |
| Mgat4a | 269181 | 1(B) | 48026 | F | metabolic enzyme | 3 | - | - |
| HaMDR1 28 | ||||||||
| Impa1 | 55980 | 3A1 | 43360 | R | inositolmonophosphatase | 3 | - | - |
| RP23-57M16 | NA | 4 | NA | NA | unknown | 3 | - | - |
| Cdk5r | 12569 | 11B5 | 84319 | R | cyclin-dependent kinase regulatory subunit | 2(B) | - | - |
| P140 | 56013 | 11D | 41772 | F | negative regulator of cell adhesion | 2(A) | - | - |
| Kctd12 | 239217 | 14E2 | 171438 | NA | potassium channel | 2(A) | - | - |
| Uck2-pending | 80914 | 1H2.3 | 40000 | F | uridine monophosphatase kinase | 3 | - | - |
| Akt1 | 11651 | 12F1-F2 | 46480 | R | thymoma viral proto-oncogene | 1(A) | 3 hits | (AKT2) |
| Ly86 | 17084 | 13A3.3 | 104966 | F | B-cell response to LPS | 2(A) | - | - |
| Lims1 | 110829 | 10B4 | 83293 | F | cell matrix adhesion | 2(A) | - | - |
| Rab3il1 | 74760 | 19A1 | 6329 | R | Rab3a interacting protein | 2(B) | - | - |
| Usp39 | 28035 | 6C1 | -1014 | F | ubiquitin specific protease | 3 | - | - |
| 0610039P13 Rik | 74096 | 5F | 12077 | F | (unknown function) | 3 | - | - |
| HaMDR1 30 | ||||||||
| Rad18 | 58186 | 6F | 9701 | F | DNA replication and recombination | 3 | - | - |
| 1500009M05 Rik | 67006 | 3G3 | 4325 | F | (unknown function) | 3 | - | - |
| HaMDR1 expanded 41 | ||||||||
| LOC384948 | 384948 | 9D | 4668 | R | (similar to mitotic checkpoint protein MAD1a) | 2(B) | - | - |
| A630038D02 | 330305 | 6B2.3 | -544 | R | (unknown function) | 3 | - | - |
| BAC clone RP21-59414 | NA | 10 | NA | NA | unknown | 3 | - | - |
| Lsm4 | 50783 | 8B3.3 | 1396 | F | U6 small nuclear RNA associated | 3 | - | - |
| Evil | 14013 | 3A3 | -155209 | R | transcription factor | 1(B) | 20 hits | + |
| BC042513 | 215113 | 11B5 | 9218 | R | (unknown function) | 3 | - | - |
| Rbbp7 | 245688 | XF4 | -4190 | F | Retinoblastoma binding protein | 2(B) | - | - |
| Abcc3 | 76408 | 11D | -20439 | F | ATP binding cassette, bile transport | 3 | - | - |
| Rnpep | 215615 | 1E4 | 1218 | F | aminopeptidase | 3 | - | - |
| Sox13 | 20668 | 1E4 | -3992 | R | SRY-box transcription factor | 2(B) | - | - |
| BAC clone RP23-373O10 | NA | 17 | NA | NA | unknown | 3 | - | - |
| LOC270174 | 270174 | 9D | -4485 | R | (Gm640 gene model) | 3 | - | - |
| HaMDR1 expanded 42 | ||||||||
| Sema4b† | 20352 | 7D1 | -41046 | R | receptor activity | 1(A) | 4 hits | - |
| Rab31-like‡ | 383272 | 17E1.1 | 48640 | F | GTP binding protein | 2(A) | - | (RAB5EP) |
| Sip1† | 66603 | 12C2 | 10227 | F | splicosome | 3 | - | - |
| Slamf1 | 27218 | 1H3 | 19532 | R | receptor activity, T cell proliferation | 2(A) | - | - |
| HaMDR1 expanded 47 | ||||||||
| RP24-333C3 | NA | 17 | NA | NA | unknown | 3 | - | - |
| RP23-129K10 | NA | 17 | NA | NA | unknown | 3 | - | - |
| no gene around | NA | 12 | NA | NA | unknown | 3 | - | - |
| Tpk1† | 29807 | 6B2.1 | -27024 | F | thiamin pyrophosphokinase | 3 | - | - |
| Gpr43† | 233079 | 7A3 | 13904 | R | GPR; myeloid differentiation | 2(A) | - | - |
| Rab31-like‡ | 383272 | 17E1 + 1 | 48640 | F | (GTP-binding protein) | 2(A) | - | - |
| Evil† | 14013 | 3A3 | -119998 | R | transcription factor | 1(B) | 20 hits | - |
| Lsm10-pending§ | 116748 | 4D2+2 | 12041 | F | mRNA splicing | 3 | - | - |
| LOC383539† | 383539 | 1C5 | -571 | F | (similar to ribosomal protein L30) | 3 | - | - |
| Nfic | 18029 | 10C1 | -11913 | R | p53 regulating nuclear factor | 1(B) | 3 hits | - |
| HaMDR1 67 | ||||||||
| Lak-pending | 71481 | 3G2 | -15 | R | (lymphocyte alfa kinase) | 2(A) | - | - |
| RP23-92G13 | NA | 13 | NA | NA | unknown | 3 | - | - |
| Ccnd2 | 12444 | 6F3 | -14615 | R | CyclinD2 | 1(B) | 18 hits | (CCND1) |
| dsRED 3 | ||||||||
| Bcl11a | 14025 | 11A32 | 167714 | F | zinc finger protein | 1(B) | 6 hits | + |
| Cacnb2 | 12296 | 2(A)2 | 28471 | R | calcium channel | 2(A) | - | - |
| Pdcd1lg1 | 60533 | 19C2 | 34046 | R | programmed cell death ligand | 1(A) | 2 hits | - |
| Phemx (Tssc6) | 27027 | 7F5 | 2431 | F | tetraspanin superfamily member | 2(A) | - | - |
| LOC384063 | 384063 | 4D2+3 | 13364 | R | (sim. to ribosomal protein) | 3 | - | - |
| Runx2 | 12393 | 17B3 | 141712 | R | runt related transcription factor | 1(B) | 6 hits | (RUNX1) |
| Ubb | 22187 | 11B2 | 8464 | F | ubiquitinB | 3 | - | - |
| Cdk6 | 12571 | 5A1 | 157035 | F | Cyclin-dependent kinase | 2(B) | - | (CDK4) |
| dsRED4 | ||||||||
| Mybbp1a | 18432 | 11B4 | 46577 | R | MYB binding protein | 2(B) | - | - |
| Btd | 26363 | 14A3 | 27328 | F | biotinidase | 2(A) | - | - |
| Crsp6 | 234959 | 9A3 | -25697 | R | cofactor of Sp1 transcription factor | 2(B) | - | - |
| Slfn2 | 20556 | 11C | 13391 | R | negative regulation of prolif. | 2(A) | - | - |
Insertion coordinates for HaMDR healthy mice are given based on the NCBI database, July 2004. There were 3 distinct insertions in Evil, as noted in footnotes †, ‡, and §.
NA indicates not applicable; GPR, G-protein-coupled receptor; A, transmembrane receptor or cytoplasmic protein; B, nuclear protein.
Total number of locus hits was 72. There were 10 (13.9%) class 1 genes, 29 (40.3%) class 2 genes, and 33 (45.8%) class 3 genes
Hits shared with leukemia case no. 40
Hits shared with leukemia cases no. 40 and no. 46
Hits shared with leukemia case no. 46