Table 1.
Description of the 46 HERV-E elements explored (see Experimental Section).
| Locus | HERV Name | Subgroup | 5’LTR Genomic Location | 3’LTR Genomic Location | Size (bp) | Structure | 5’ and 3’LTR Divergences | Molecular Clock Dating | EPO Alignment Dating | Genomic Amplification |
|---|---|---|---|---|---|---|---|---|---|---|
| 19q13.32 | HERV-E.ApoC1 | LTR2 | 19:44913964-44914947 | - | 987 | solo LTR | - | - | >15 My | >15 My [ 65] |
| 3q22.2 | - | LTR2 | 3:134027135-134027667 | 3:134019829-134020359 | 7839 | gag, pol truncated | 9.5% | 32 My | >15 My | |
| 8q12.1 | - | LTR2 | 8:58690826-58691341 | 8:58698386-58698895 | 8069 | gag, pol truncated | 7.0% | 23 My | >15 My | |
| 13q22.3 | HERV-E.EDNRB | LTR2 | 13:77975613-77976074 | 13:77975589-77976108 | 5777 | gag, pol, env truncated | 49.7% | >50 My | >25 My | >25 My [ 65] |
| 17q21.31 | HERV-E.BRCA1 | LTR2 | 17:43160221-43160752 | 17:43167223-43167735 | 7514 | gag, pol truncated | 9.4% | 31 My | >15 My | |
| 7p22.1 | - | LTR2 | 7:100919594-100920108 | - | 514 | solo LTR | - | - | >15 My | |
| 3p21.33 | LTR2 | 3:43678285-34678772 | - | 487 | solo LTR | - | - | >15 My | ||
| 6q22.31 | HERV-E.FABP7 | LTR2 | 6:122748781-122749289 | 6:122741492-122741993 | 7752 | pol truncated | 9.0% | 30 My | >25 My | |
| 11q12.2 | HERV-E.CD5 | LTR2 | 11:61093564-61094073 | 11:61098368-61098863 | 5254 | pol, env truncated | 7.8% | 26 My | >25 My | > 25 My [ 11] |
| 4q35.1 | - | LTR2 | 4:183377788-183378289 | - | 501 | solo LTR | - | - | >25 My | |
| 2q11.2 | - | LTR2 | 2:101186575-101186124 | - | 451 | solo LTR | - | - | - | |
| 17q24.3 | - | LTR2 | 17:71020856-71021358 | - | 502 | solo LTR | - | - | >15 My | |
| 4q28.2 | - | LTR2 | 4:128703926-128704424 | - | 498 | solo LTR | - | - | >25 My | |
| 1q44 | - | LTR2 | 1:247127397-247127939 | - | 542 | Solo LTR | 12.3% | 41 My | >15 My | |
| 19q13.43 | - | LTR2 | 19:57815303-57815707 | - | 1163 | solo LTR | - | - | >25 My | |
| 12p12.2 | - | LTR2 | 12:20944374-20944873 | - | 499 | solo LTR | - | - | >15 My | |
| 10q23.1 | - | LTR2B | 10:84172465-84171987 | - | 997 | solo LTR | - | - | >15 My | |
| 6q21.33 | LTR2B | 6:31186291-31186769 | - | 478 | solo LTR | - | - | >8 My | ||
| 5q31.2 | HERV-E.UBE2D2 | LTR2B | 5:139525866-139526346 | 5:139531087-139531583 | 5644 | gag, pol truncated | 5.2% | 17 My | >15 My | |
| 1p21 | HERV-E-AMY1B | LTR2B | 1:103696448-103696893 | 1:103703817-103704285 | 7837 | full length | 11.9% | 40 My | >6 My | |
| 2p22.3 | - | LTR2B | 2:34677243-34677662 | - | 888 | solo LTR | - | - | >15 My | |
| 1q24.2 | HERV-E.IQWD1 (DCAF6, PC326) | LTR2B | 1:167863096-167863572 | 1:167869427-167869928 | 6832 | gag, pol truncated | 6.9% | 23 My | >15 My | |
| 11q13.4 | - | LTR2B | 11:73271302-73271710 | - | 408 | solo LTR | - | - | >15 My | |
| 15q14 | - | LTR2B | 15:34812862-34813351 | - | 489 | solo LTR | - | - | >15 My | |
| 6q23.1 | - | LTR2B | 6:130260127-130260610 | 6:130267508-130267970 | 7843 | gag, pol truncated | 9.7% | 32 My | >15 My | |
| 7p12.3 | - | LTR2B | 7:46031148-46031644 | - | 496 | solo LTR | - | - | >15 My | |
| 6p21.31 | - | LTR2B | 6:35004307-35003824 | - | 483 | solo LTR | - | - | >15 My | |
| Xp22.22 | HERV-E.MID1 | LTR2B | X:10585282-10584793 | X:10590339-10589853 | 5,546 | gag, pol, env truncated | 6.4% | 20 My | >15 My | > 25 My [ 55] |
| 16q24.3 | - | LTR2B | 16:90056524-90057012 | - | 488 | solo LTR | - | - | >15 My | |
| 21q22.3 | - | LTR2B | 21:42807398-42807919 | - | 521 | solo LTR | - | - | >15 My | |
| 3q11.2 | - | LTR2B | 3:97856881-97857316 | - | 435 | solo LTR | - | - | - | |
| 7q33 | HERV-E.PTN | LTR2B | 7:136947291-136947711 | 7:137262486-137263044 | 6,360 | gag, pol, env truncated | 7.9% | 26 My | >15 My | >15 My [ 11,20,40] |
| 18q21.33 | - | LTR2B | 18:61617742-61618212 | - | 470 | solo LTR | - | - | - | |
| 1q24.2 | LTR2B | 1:167869414-167869892 | - | 478 | solo LTR | - | - | >15 My | ||
| 5p13.1 | - | LTR2B | 5:40872315-40872812 | - | 497 | solo LTR | - | - | > 15 My | |
| Yq11.21 | - | LTR2B | Y:12245468-12245973 | Y:12251519-12252038 | 6571 | gag truncated | 14.4% | 48 My | - | |
| 3p25.3 | - | LTR2B | 3:9590155-9590642 | - | 487 | solo LTR | - | - | > 25 My | |
| 6q15 | CT-RCC HERV-E | LTR2C | 6:88662137-88662613 | 6:88670478-88670972 | 8792 | full length | 5.8% | 19 My | > 15 My | |
| 2q37.1 | - | LTR2C | 2:231400694-231401230 | 2:231408328-231408867 | 8173 | full length | 2.9% | 10 My | > 15 My | |
| 2q23.1 | - | LTR2C | 2:149035320-149035863 | - | 543 | solo LTR | - | - | > 8 My | |
| 12p13.31 | - | LTR2C | 12:7703612-7704158 | - | 546 | solo LTR | - | - | > 8 My | |
| 11q13.31 | - | LTR2C | 11:66000626-66001172 | - | 546 | solo LTR | - | - | > 8 My | |
| 2q14.3 | - | LTR2C | 2:127683400-127683948 | - | 548 | solo LTR | - | - | > 8 My | |
| 19p12 | HERV-E clone 4-1 | LTR2C | 19:20755113-20755654 | 19:20746795-20747340 | 8,806 | full length | 4.5% | 15 My | > 8 My | |
| 8p12 | - | LTR2C | 8:30728558-30729101 | - | 5,121 | env, 3’LTR truncated | - | - | > 8 My | |
| 7p14.3 | - | LTR2C | 7:32762447-32762988 | - | 541 | solo LTR | - | - | > 6 My |
EPO: Enredo-Pecan-Ortheus whole genome primate alignment tool from ensembl.