TABLE 1.
Selected ERV3 env-like loci from the human genome version hg15
| Clone | PBS | Chromosomal band (position in chromosome) | Position in clone | RT scorea | Gene |
|---|---|---|---|---|---|
| AC073210b | R | 7q11 (63858202) | 63888-54276 | 1887 | LTR gag pro pol env LTR |
| AC013429c | P | 7q32 (137651301) | 90435-99714 | 1373 | LTR gag pro pol env LTR |
| AB019437_IgHCVrd | ? | 14q32 (105225894) | 35323-45272 | 1229 | LTR gag pro pol env LTR |
| AC005023 | P | Xq25 (117198092) | 141024-132534 | 1173 | LTR gag pro pol env LTR |
| AF290422 (HERV15Yq1)e | I | Yq11 (13743185) | 15-9731 | 1047 | LTR gag pro pol env LTR |
| AF290423 (HERV15Yq2)e | I | Yq11 (14533115) | 15-9953 | 1183 | LTR gag pro pol env LTR |
| M64936 (HUMRIRT, RRHERVI)e | I | Multiple locations | 1-3357 | 233 | LTR gag pro pol env LTR |
| AL356804f | 14q24 (68899917) | 183361-180474 | 485 | pol env | |
| AL133512 | Xq21 (86869080) | 119293-110957 | 711 | pro pol env | |
| AC006032-AC007379-AC022486g | Yp11 (3010257) | 169763-162558 | 712 | gag pro pol env | |
| AC008175g | Yq11 (23865959) | 123584-114042 | 752 | gag pro pol env LTR | |
| AF072711_lipaseh | 9q34.3 (129305366) | 24330-17768 | 480 | pro pol env LTR | |
| SY-3 ERV3-like HERVi | 13q321 (98255835) | NAj | 170 | pol env |
Score for the respective element identified by RetroTector (see Materials and Methods).
AC073210 (NT_030723) close to human plk, a Krüppel-like zinc finger gene. Mosaic ERV3-human plk transcripts are produced through alternative splicing. This is the ERV3 locus, which gave rise to the ERV3 pol-env clone of Cohen et al. (13).
AC013429 (NT_007680) close to the TIF1 gene (the gene for the transcriptional intermediary factor 1, a multi-zinc finger transcription factor, locus identifier 8805, positions 524084 to 397969; the ERV-like sequence is at positions 417766 to 427065, between exons 9 and 10 of TIF1, in the opposite direction from TIF1). The protein encoded by this gene mediates transcriptional control by interaction with the activation function 2 (AF2) region of several nuclear receptors, including the estrogen, retinoic acid, and vitamin D3 receptors. It contains three zinc-binding domains. ERV18Y colocalizes with this element.
This element resides in the immunoglobulin heavy-chain variable region on chromosome 14.
The two HERVI65 integrations on chromosome Yq11 occur close to each other and cause loss of a gene through homologous recombination. There is a striking concentration of RRHERVI integrations at Yq11. There are also five ERV3-like integrations in the same portion of chromosome Y. HUMRIRT (RRHERVI) integrations are split up. There is no exact match to HUMRIRT, which is RNA based. There are multiple hits on chromosomes 16p12, Xq24, Yq11(=HERVI5y), and others.
This element was detected after the search on which Fig. 2A was based.
Not only are AC008175 and AC006032 very similar, but there are other sequences in this portion of chromosome Y which have closely matching sequences on chromosome Y.
The ERV3-like element occurs in the 5′ UTR of a lipase gene on chromosome 9.
The SY-3 locus is between exons 5 and 6 of a hypothetical gene (locus 121919).
NA, not applicable. Clone information for Sy-3 is not available.