Table 1 Chimeric TE insertions supported by EST evidence in the D. melanogaster Release 3 genome sequence. The leftmost column gives the gene(s) that generate(s) the chimeric transcript. FlyBase ID refers to the TE accession number in the Release 3.2 annotation. Rec. rate refers to the estimated recombination rate in the vicinity of the gene. Rightmost column gives the number of wild strain pools (out of six) where the TE insertion is present. An asterisk in the last column indicates that independent population frequency estimates are available for these TE insertions in [12, 17, 27-29].
From: Paucity of chimeric gene-transposable element transcripts in the Drosophila melanogaster genome
Gene | TE class | TE family | Chimera# | FlyBase ID | TE length (bp) | Chrom. Arm | Rec. rate | Pool frequency |
|---|---|---|---|---|---|---|---|---|
CG1098(Madm) | TIR | pogo | 1 | FBti0019306 | 185 | 3R | 0 | 0 |
CG9766 | LTR | Burdock | 2 | FBti0019283 | 6412 | 3R | 0 | 0 |
CG32306 | LTR | roo | 3 | FBti0020022 | 9097 | 3L | 3.25 | 0 |
CG7110 | LINE | Doc | 4 | FBti0019166 | 4725 | 2L | 2.83 | 0 |
CG3318(Dat) | LTR | 412 | 5 | FBti0018872 | 7520 | 2R | 3.16 | 0 |
CG4821(Tequila) | LTR | 412 | 6 | FBti0020072 | 7502 | 3L | 3.17 | 0 |
CG8166(unc-5) | LTR | Tirant | 7 | FBti0018948 | 8532 | 2R | 3.44 | 0 |
CG6214 | TIR | pogo | 8 | FBti0019155 | 185 | 2L | 3.07 | 0 |
CG1915(sls) | LTR | copia | 9 | FBti0020021 | 5145 | 3L | 3.21 | 0 |
CG17632(bw) | LTR | 412 | 10 | FBti0018870 | 7518 | 2R | 3.31 | 0 |
CG2162 | TIR | S-element | 11 | FBti0020026 | 1733 | 3L | 3.3 | 0 |
CG9181(Ptp61F) | LINE | Rt1a | 12 | FBti0020016 | 5192 | 3L | 3.13 | 0 |
CG17274 | LINE | Doc | 13 | FBti0019412 | 4719 | 3R | 3.09 | 0 |
CG32850 | LTR | Stalker2 | 14 | FBti0020416 | 8118 | 4 | 0 | 0 |
CG7231 | LTR | 297 | 15 | FBti0019135 | 6916 | 2L | 4.02 | 0 |
CG7356 | LTR | copia | 16 | FBti0019136 | 5145 | 2L | 4.01 | 0 |
CG7314(Bmcp) | LINE | Doc | 17 | FBti0020095 | 4709 | 3L | 2.73 | 0* |
CG11406 | LTR | 412 | 18 | FBti0018873 | 7427 | 2R | 3.15 | 0 |
CG3894 | LINE | G2 | 19 | FBti0018918 | 1917 | 2R | 2.99 | 0 |
CG5055(baz) | LTR | blastopia | 20 | FBti0019073 | 5031 | X | 2.88 | 0* |
CG31692(fbp) | TIR | pogo | 21 | FBti0019206 | 186 | 2L | 0 | 0 |
CG31177 | LTR | mdg1 | 22 | FBti0019414 | 7338 | 3R | 3.16 | 0 |
CG8776 | LTR | roo | 23 | FBti0019021 | 8313 | 2R | 2.75 | 0 |
CG12885 | LTR | roo | 24 | FBti0020389 | 1051 | 3R | 3.21 | 0* |
CG32030 | LINE | I-element | 25 | FBti0020071 | 5348 | 3L | 3.21 | 0 |
CG32594 | LTR | rover | 26 | FBti0019061 | 7469 | X | 3.61 | 0 |
CG17642(mRpL48) | LTR | mdg3 | 27a | FBti0019107 | 267 | 2L | 3.11 | 0* |
CG17657 | LTR | mdg3 | 27b | FBti0019107 | 267 | 2L | 3.11 | 0* |
CG7213 | LINE | Rt1a | 28 | FBti0020068 | 5177 | 3L | 3.27 | 1 |
CG32684(alpha-Man-I) | LTR | roo | 29 | FBti0019615 | 9091 | X | 4.24 | 1 |
CG12094 | LTR | 412 | 30 | FBti0019614 | 7441 | X | 4.23 | 1 |
CG18316 | LTR | 297 | 31 | FBti0019977 | 6522 | 2R | 0.68 | 1* |
CG17697(fz) | LINE | X-element | 32 | FBti0020107 | 4728 | 3L | 2.06 | 1* |
CG18754 | LTR | roo | 33 | FBti0019420 | 427 | 3R | 3.26 | 2 |
CG5130 | LTR | springer | 34a | FBti0020178 | 7542 | 3L | 0 | 2 |
CG5976 | LTR | springer | 34b | FBti0020178 | 7542 | 3L | 0 | 2 |
CG5656 | TIR | Tc1 | 35 | FBti0020191 | 462 | 3L | 0 | 4 |
CG31146 | LTR | invader3 | 36 | FBti0020315 | 717 | 3R | 0 | 4 |
CG14693 | LTR | 17.6 | 37 | FBti0019354 | 7474 | 3R | 1.03 | 4 |
CG11081(plexA) | TIR | Tc1 | 38 | FBti0019510 | 530 | 4 | 0 | 5 |
CG32021 | LTR | invader4 | 39 | FBti0019504 | 3082 | 4 | 0 | 5 |
CG18026(Caps) | LINE | F-element | 40 | FBti0020453 | 346 | 4 | 0 | 5 |
CG3812 | TIR | 1360 | 41 | FBti0019634 | 376 | X | 4.07 | 5 |
CG32021 | TIR | 1360 | 42 | FBti0019502 | 1075 | 4 | 0 | 6 |
CG18446 | LTR | roo | 43 | FBti0019985 | 427 | 2R | 1.6 | 6* |
CG10618 | LINE | Doc | 44 | FBti0019430 | 4512 | 3R | 3.28 | 6 |
CG3136 | LINE | X-element | 45 | FBti0018950 | 1399 | 2R | 0 | 6 |
CG32021 | TIR | transib3 | 46 | FBti0019501 | 935 | 4 | 0 | 6 |
CG15347 | TIR | HB | 47 | FBti0019605 | 358 | X | 4.13 | 6 |
CG5541 | TIR | HB | 48 | FBti0019636 | 413 | X | 3.61 | 6 |
CG6191 | LINE | jockey | 49 | FBti0018988 | 265 | 2R | 3.02 | N.D. |
CG10987 | LTR | roo | 50 | FBti0019665 | 427 | X | 0.94 | N.D. |
CG9527 | LTR | roo | 51 | FBti0019753 | 9098 | 2L | 4.02 | N.D.* |
CG17521(Qm) | TIR | S2 | 52 | FBti0020228 | 988 | 3L | 0 | N.D. |
CR32865 | LTR | DM88 | 53 | FBti0020348 | 168 | 3R | 1.53 | N.D. |
CR32865 | LTR | invader1 | 54 | FBti0020349 | 419 | 3R | 1.53 | N.D. |
CG1090 | LTR | roo | 55 | FBti0019285 | 8325 | 3R | 0 | N.D. |
CG1558(l(1)G0237) | TIR | pogo | 56 | FBti0019627 | 186 | X | 4.2 | N.D. |
CG1710 (Hcf) | TIR | 1360 | 57 | FBti0020419 | 499 | 4 | 0 | N.D. |
CG1548(cathD) | LTR | Burdock | 58 | FBti0018882 | 6412 | 2R | 0.52 | N.D.* |
CG3857 | LTR | opus | 59 | FBti0019540 | 7515 | X | 2.14 | N.D. |
CG32000 | TIR | 1360 | 60 | N.A. | 963 | 4 | - | N.D. |
CG4494 (smt3) | LTR | mdg1 | 61 | N.A. | 51 | 2L | - | N.D. |
CG6998 (ctp) | LTR | HMS-Beagle | 62 | N.A. | 261 | X | - | N.D. |
CG3164 | LTR | McClintock | 63 | N.A. | 80 | 2L | - | N.D. |
CG7187(Ssdp) | LTR | HMS-Beagle | 64 | N.A. | 212 | 3R | - | N.D. |
CG9075(eIF-4a) | LTR | blood | 65 | N.A. | 47 | 2L | - | N.D. |