Vector insertion sites recovered from leukemic clones
No. of the leukemic clone (recovered loci): locus hit, nearest gene* . | Gene ID . | Chromosome . | Distance to transcriptional start . | Forward (F) or reverse (R) orientation . | (Predicted) gene function . | Class (localization) . | RTCGD . | CGD . |
|---|---|---|---|---|---|---|---|---|
| 5.1 (6/8) | ||||||||
| Hivep1 | 110521 | 13A4 | 40111 | R | transcription factor | 1(B) | 2 hits | - |
| LOC236667 | 236667 | XA1 + 1 | 337984 | F | (unknown) | 3 | - | - |
| Csfr3 | 12986 | 4D2 + 2 | -625 | R | GPR for G-CSF | 1(A) | - | - |
| Mllt3 | 70122 | 4C4 | -1243 | R | transcription factor | 1(B) | - | + |
| Slcl2a3 | 20497 | 8C5 | 33950 | R | solute carrier | 3 | - | - |
| Klrb1c | 17059 | 6F3 | -9039 | R | NK cell receptor | 2(A) | - | - |
| 31 (5/6) | ||||||||
| Sos1 | 20662 | 17E3 | -4055 | R | Ras activating | 2(A) | - | - |
| Gpr43 | 233079 | 7A3 | -6455 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Hrh2 | 15466 | 13B1 | 43483 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Fli1 | 14247 | 9A4 | -14094 | F | transcription factor | 1(B) | 7 hits | + |
| Foxo3 | 56484 | 10B2 | 3990 | F | transcription factor | 1(B) | + | |
| 29 (4/7) | ||||||||
| Plcg2 | 234779 | 8E1 | 36215 | R | survival signaling | 2(A) | - | - |
| F2r | 14062 | 13D1 | -38130 | R | GPR for thrombin | 2(A) | - | - |
| Rab11a | 53869 | 9C | -49969 | R | Ras binding protein | 2(A) | - | (RAB5EP) |
| Arkadia | 93836 | 9D | -413 | R | transcription modulator | 2(B) | - | - |
| 46 (10/12) | ||||||||
| HoxA7 | 15404 | 6B2 + 3 | -138 | F | transcription factor | 1(B) | 19 hits | (HoxA9) |
| Brd2 | 14312 | 17B1 | -2135 | F | transcription factor | 1(B) | - | (BRD4) |
| Rab31-like | 383272 | 17E1 + 1 | 48640 | F | (GTP binding protein) | 2(A) | - | (RAB5EP) |
| Myo18a | 360013 | 11B2 | 7940 | F | myosin | 3 | - | - |
| Lsm10pending | 116748 | 4D2 + 2 | 12041 | F | RNA protein | 3 | - | - |
| Itm2b | 16432 | 14D1 | -14564 | F | (apoptosis regulation) | 2(A) | - | - |
| 1700060C2 | 73399 | 2H2 | -14847 | F | unknown | 3 | - | - |
| 0Rik | ||||||||
| Asb5 | 76294 | 8D1+1 | -94219 | F | SOCS box signaling | 2(A) | - | - |
| Bcl11a | 14025 | 11A3+2 | 149048 | F | transcription factor | 1(B) | 6 hits | + |
| Tpst2 | 22022 | 5F | 9467 | F | sulfotransferase | 3 | - | - |
| 40 (10/10) | ||||||||
| Sema4b | 20352 | 7D1 | -41046 | R | receptor activity | 1(A) | 4 hits | - |
| Ski | 20481 | 4E2 | -12065 | F | transcription factor | 1(B) | - | - |
| Rab31-like | 383272 | 17E1+1 | 48640 | F | (GTP binding protein) | 2(A) | - | (RAB5EP) |
| Evil | 14013 | 3A3 | -119998 | R | transcription factor | 1(B) | 20 hits | + |
| Gpr43 | 233079 | 7A3 | 13904 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Tpk1 | 29807 | 6B2.1 | -27024 | F | thiamin pyrophosphokinase | 3 | - | - |
| LOC383539 | 383539 | 1C5 | -571 | F | (ribosomal protein) | 3 | - | - |
| Sip1 | 66603 | 12C2 | 10227 | F | spliceosome | 3 | - | - |
| Zfp3612 | 12193 | 17 E4 | 72206 | R | Zinc finger protein | 2(B) | - | - |
| Znrf1 | 170737 | 8E1 | 58558 | R | Zinc and ring finger protein | 2(B) | - | - |
No. of the leukemic clone (recovered loci): locus hit, nearest gene* . | Gene ID . | Chromosome . | Distance to transcriptional start . | Forward (F) or reverse (R) orientation . | (Predicted) gene function . | Class (localization) . | RTCGD . | CGD . |
|---|---|---|---|---|---|---|---|---|
| 5.1 (6/8) | ||||||||
| Hivep1 | 110521 | 13A4 | 40111 | R | transcription factor | 1(B) | 2 hits | - |
| LOC236667 | 236667 | XA1 + 1 | 337984 | F | (unknown) | 3 | - | - |
| Csfr3 | 12986 | 4D2 + 2 | -625 | R | GPR for G-CSF | 1(A) | - | - |
| Mllt3 | 70122 | 4C4 | -1243 | R | transcription factor | 1(B) | - | + |
| Slcl2a3 | 20497 | 8C5 | 33950 | R | solute carrier | 3 | - | - |
| Klrb1c | 17059 | 6F3 | -9039 | R | NK cell receptor | 2(A) | - | - |
| 31 (5/6) | ||||||||
| Sos1 | 20662 | 17E3 | -4055 | R | Ras activating | 2(A) | - | - |
| Gpr43 | 233079 | 7A3 | -6455 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Hrh2 | 15466 | 13B1 | 43483 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Fli1 | 14247 | 9A4 | -14094 | F | transcription factor | 1(B) | 7 hits | + |
| Foxo3 | 56484 | 10B2 | 3990 | F | transcription factor | 1(B) | + | |
| 29 (4/7) | ||||||||
| Plcg2 | 234779 | 8E1 | 36215 | R | survival signaling | 2(A) | - | - |
| F2r | 14062 | 13D1 | -38130 | R | GPR for thrombin | 2(A) | - | - |
| Rab11a | 53869 | 9C | -49969 | R | Ras binding protein | 2(A) | - | (RAB5EP) |
| Arkadia | 93836 | 9D | -413 | R | transcription modulator | 2(B) | - | - |
| 46 (10/12) | ||||||||
| HoxA7 | 15404 | 6B2 + 3 | -138 | F | transcription factor | 1(B) | 19 hits | (HoxA9) |
| Brd2 | 14312 | 17B1 | -2135 | F | transcription factor | 1(B) | - | (BRD4) |
| Rab31-like | 383272 | 17E1 + 1 | 48640 | F | (GTP binding protein) | 2(A) | - | (RAB5EP) |
| Myo18a | 360013 | 11B2 | 7940 | F | myosin | 3 | - | - |
| Lsm10pending | 116748 | 4D2 + 2 | 12041 | F | RNA protein | 3 | - | - |
| Itm2b | 16432 | 14D1 | -14564 | F | (apoptosis regulation) | 2(A) | - | - |
| 1700060C2 | 73399 | 2H2 | -14847 | F | unknown | 3 | - | - |
| 0Rik | ||||||||
| Asb5 | 76294 | 8D1+1 | -94219 | F | SOCS box signaling | 2(A) | - | - |
| Bcl11a | 14025 | 11A3+2 | 149048 | F | transcription factor | 1(B) | 6 hits | + |
| Tpst2 | 22022 | 5F | 9467 | F | sulfotransferase | 3 | - | - |
| 40 (10/10) | ||||||||
| Sema4b | 20352 | 7D1 | -41046 | R | receptor activity | 1(A) | 4 hits | - |
| Ski | 20481 | 4E2 | -12065 | F | transcription factor | 1(B) | - | - |
| Rab31-like | 383272 | 17E1+1 | 48640 | F | (GTP binding protein) | 2(A) | - | (RAB5EP) |
| Evil | 14013 | 3A3 | -119998 | R | transcription factor | 1(B) | 20 hits | + |
| Gpr43 | 233079 | 7A3 | 13904 | R | GPR, myeloid differentiation | 2(A) | - | - |
| Tpk1 | 29807 | 6B2.1 | -27024 | F | thiamin pyrophosphokinase | 3 | - | - |
| LOC383539 | 383539 | 1C5 | -571 | F | (ribosomal protein) | 3 | - | - |
| Sip1 | 66603 | 12C2 | 10227 | F | spliceosome | 3 | - | - |
| Zfp3612 | 12193 | 17 E4 | 72206 | R | Zinc finger protein | 2(B) | - | - |
| Znrf1 | 170737 | 8E1 | 58558 | R | Zinc and ring finger protein | 2(B) | - | - |
— indicates no hit in the given database.
Gene hits were determined according to the NCBI database of the mouse genome, January 2005. UCSC database results are given if NCBI showed unclear results. Genes listed in parentheses represent close relatives of hits found in leukemias. Class 1, protooncogene; class 2, signaling gene; class 3, other gene. Class 1 classification required entry as a common insertion site (CIS) in RTCGD, representation in CGD, or additional literature providing evidence for transforming potential.
RTCGD indicates retrovirally tagged cancer gene database35 ; CGD, cancer gene database of human cancer genes11 ; NA, not applicable; A, transmembrane receptor or cytoplasmic protein; B, nuclear protein; GPR, G-protein-coupled receptor.
The total number of locus hits was 35. There were 11 (31.4%) class 1 genes; 15 (42.9%) class 2 genes, and 9 (25.7%) class 3 genes