TABLE 4.
Analysis of additional genomic SVA elements
| SVA name (nearest gene) |
Chromosomal locationa | Element size |
Target site duplication sequence (5′ to 3′) |
Polymorphic in Coriell panel? |
|---|---|---|---|---|
| EIF4G3-A | Chr1: 20,610,706–20,613,260 | 2,544 | TAAAAATTCAT | No |
| SPATA6 | Chr1: 48,217,230–48,220,014 | 2,773 | AAAAGAAAAACC | No |
| CASP8 | Chr2: 202,349,192–202,351,983 | 2,782 | AAGAATTTGA | Yes |
| PLOD2 | Chr3: 147,134,530–147,136,524 | 1,976 | AAAGAAAATGTGGCATATA | Yes |
| CD38 | Chr4: 15,542,595–15,544,984 | 2,374 | GAAAAGCAGCAAGCC | No |
| RAP1B | Chr5: 75,550,653–75,552,974 | 2,305 | AAAAATTAAAAAAACT | Yes |
| Neurestin | Chr5: 167,266,427–167,268,968 | 2,528 | GAAAACAACGTCAA | No |
| POLH | Chr6: 43,594,478–43,596,505 | 2,015 | AAGATTCTTTCAC | No |
| PCMT1 | Chr6: 150,137,472–150,139,466 | 1,930 | GAAAACAGCCA | No |
| LOC90693 | Chr7: 23,417,744–23,420,774 | 2,865 | AAGACTGTCCCCTGC | No |
| FLJ14117 | Chr7: 100,561,431–100,563,976 | 2,529 | AAAAATACAAAAATTGG | Yes |
| TNKS | Chr8: 9,551,502–9,553,345 | 1,829 | GAAAATTCTTTTCTT | Yes |
| FLJ10871 | Chr8: 28,759,637–28,761,987 | 2,260 | AGAAAAATGTAGACATA | No |
| MELK | Chr9: 36,604,406–36,606,089 | 1,669 | CAAAAATAATTTTTT | No |
| PBX3 | Chr9: 123,916,920–123,919,948 | 2,361 | GAAAAGATCA | No |
| HHEX | Chr10: 94,098,024–94,100,358 | 2,320 | GAGAGATGGGATGTG | No |
| ITPR2 | Chr12: 26,828,444–26,830,665 | 2,209 | AAAAATGGAGAAT | No |
| SNRPF | Chr12: 94,736,050–94,738,795 | 2,735 | AAAACTGTGGA | No |
| BRMS1 | Chr14: 34,435,361–34,437,930 | 2,553 | TAAATACCTACGAGTAG | No |
| SPTB | Chr14: 63,350,428–63,353,581 | 2,686 | GAAAATTCTT | Yes |
| PRPSAP2 | Chr17: 18,991,705–18,992,729 | 1,010 | AAGAAAGAACAAGTT | Yes |
| RNF135 | Chr17: 29,451,155–29,453,977 | 2,808 | GAAATAATTAAAAATC | Yes |
| CPX-1 | Chr20: 2,798,148–2,801,409 | 3,247 | AAAAGAACTTGATTT | Yes |
| REM | Chr20: 30,802,228–30,805,279 | 3,036 | AAGATTTGTTTCTTTT | No |
| SLC2A11 | Chr22: 22,520,488–22,523,059 | 2,556 | GAAAAAAAATTAACCT | Yes |
| GPR24 | Chr22: 39,383,157–39,385,673 | 2,503 | AAAACAAACAAACA | Yes |
| UTX | ChrX: 43,944,720–43,947,538 | 2,808 | TTATCAAATGA | No |
| OPHN1 | ChrX: 66,412,207–66,414,450 | 2,232 | TTTTAAACTTTT | No |
a
Chromosomal coordinates are given for the July 2003 build (build 34) of the human genome sequence (University of California, Santa Cruz; Kent et al. 2002). All of the elements shown have poly(A) tails at their 3′ ends. Additional data are provided in supplemental Table 1.