TABLE 2.
Genes Within 100-Kb Genomic Windows Surrounding MSCVneo-TLX1 Integration Sites
| Cell line | Genea | Product | Distance to TSSb |
|---|---|---|---|
| HX1 | Abcb9* | ATP-binding cassette, sub-family B (MDR/TAP), member 9 | 10 kb |
| Vps37b* | vacuolar protein sorting 37B | −47 kb | |
| Ogfod2 | 2-oxoglutarate and iron-dependent oxygenase domain containing 2 | 60 kb | |
| Arl6ip4 | ADP-ribosylation factor-like 6 interacting protein 4 | 64 kb | |
| Pitpnm2* | phosphatidylinositol transfer protein, membrane-associated 2 | 67 kb, 80 kb | |
| HIP1R | huntingtin interacting protein 1 related | −78 kb | |
| HX2 | Foxl1* | forkhead box L1 | −56 kb |
| Foxc2* | forkhead box C2 | −67 kb | |
| Mthfsd | methenyltetrahydrofolate synthetase domain containing | −85 kb, −86kb | |
| Foxf1a | forkhead box F1a | −99 kb | |
| HX3 / HX3 c32 | Bex6* | brain expressed gene 6 | 16 kb |
| Lrrc33* | leucine rich repeat containing 33 | −21 kb | |
| 1500031L02Rik | hypothetical protein LOC66994 | −64 kb | |
| Fbxo45 | F-box protein 45 | 66 kb | |
| Pigx | phosphatidylinositol glycan anchor biosynthesis | −80 kb | |
| Wdr53 | WD repeat domain 53 | 83 kb | |
| HX4 | Gpr39† | G protein-coupled receptor 39 | <−1 kb |
| Akap13* | A kinase (PRKA) anchor protein 13 | 26 kb, 28kb, 118 kb −127 kb, −128 kb |
|
| Lyrm7 | LYR motif containing 7 | 19 kb | |
| Hint1* | histidine triad nucleotide binding protein 1 | 59 kb | |
| Cdc42se2 | CDC42 small effector 2 | −90 kb | |
| Gpx3 | glutathione peroxidase 3 | 95 kb | |
| Itm2a | integral membrane protein 2A | −89 kb | |
| HX4 c4 | Thtpa | thiamine triphosphatase | <−1 kb, −40 kb |
| Ap1g2 | adaptor protein complex AP-1, gamma 2 subunit | 3 kb | |
| Jph4 | junctophilin 4 | 11 kb, 15 kb | |
| Zfhx2 | zinc finger homeobox 2 | −32 kb, −34 kb | |
| Ngdn | neuroguidin, EIF4E binding protein | −80 kb | |
| HX4 c13 | Itsn1† | intersectin 1 (SH3 domain protein 1A) | −12 kb, −65 kb, 93 kb |
| Cryzl1 | crystallin zeta (quinone reductase)-like 1 | −99 kb, −105 kb | |
| HX5 | Lmo2* | LIM domain only 2 | 9 kb, 10 kb |
| Fbxo3* | F-box only protein 3 | 67 kb | |
TSS, transcription start site identified using UCSC table browser.
a
Four MSCVneo-TLX1 integration sites were recovered for the HX4 cell line; genes previously reported as hits in the Mouse Retrovirus Tagged Cancer Gene Database (RTCGD) are indicated by asterisks; genes previously reported as hits in other studies reported in the literature are indicated by daggers.
b
Pitpnm2, Mthfsd, Akap13, Thtpa, Jph4, Zfhx2, Itsn1, Cryzl1 and Lmo2 have multiple transcription start sites.