TABLE 2.
Murine and human chromosomal regions syntenic to Iddm loci
| Rat |
Mouse |
Human |
Candidate genes | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Chromosome | Marker (1-LOD interval) | Position (Mb) | Trait | Iddm locus | Chromosome | Position (Mb) | Idd locus (Mb) | Chromosome | Position (Mb) | IDDM locus/GWA (Mb) | |
| 1 | D1Mit13 | 186.5 | Type 1 diabetes/islet integrity | Iddm25 | 7 | 114.7–132.6 | Idd27 (86.5–127.0) | 16 | 30.3–31.4 | ||
| D1Rat76 | 230.4 | ||||||||||
| 10 | 124.2–135.2 | ||||||||||
| 19 | 3.0–24.8 | 11 | 6.1–2.4 | GWA SNP: rs689 | INS/IGF2 | ||||||
| IDDM2 (2.0–2.3) | |||||||||||
| 11 | 58.2–70.8 | IDDM4 (59.2–68.5) | LRP5/GAL/FADD | ||||||||
| 9 | 69.3–79.4 | ||||||||||
| 2 | D2Rat75 | 79.8 | AOO/islet integrity | Iddm32 | 15 | 31.3–32.2 | 5 | 9.7–10.7 | |||
| D2Mit8 | 148.8 | 3 | 5.6–14.9 | 8 | 67.3–86.6 | ||||||
| 3 | 150.0–181.0 | IDDM9 (138.8–170.6) | CP | ||||||||
| 3 | 19.4–59.4 | Idd3 (36.6–37.3) | 4 | 123.0–130.2 | GWA SNP: rs3136534 | ADAD1, IL2, IL21, KIAA1109 | |||||
| 13 | 35.2–37.1 | ||||||||||
| 3 | 148.5–150.7 | IDDM9 (138.8–170.6) | |||||||||
| 2 | D2Rat44 | 181.7 | Type 1 diabetes/islet integrity | Iddm26 | 3 | 90.2–147.2 | Idd10 (100.1–101.0) | 1 | 143.9–151.4 | ||
| D2Rat88 | 222.3 | ||||||||||
| Idd18.2 (101.0–108.2) | 1 | 94.1–120.2 | GWA SNP: rs6679677 | PTPN22 | |||||||
| 2 | D2Rat82 | 214.6 | AOO | Iddm33 | Idd18.1 (109.9–109.6) | 4 | 100.2–120.6 | NFKB1/FABP2 | |||
| D2Rat69 | 247.3 | 1 | 82.0–89.0 | ||||||||
| 3 | D3Rat24 | 96.5 | Type 1 diabetes | Iddm27 | 2 | 112.4–158.2 | Idd13 (114.1–158.3) | 15 | 30.7–47.2 | B2m | |
| D3Rat114 | 149.5 | 2 | 95.4–113.3 | IL1A/IL1B | |||||||
| 20 | 0.3–36.2 | ||||||||||
| 6 | D6Rat23 | 74.4 | Type 1 diabetes/islet integrity | Iddm28 | 12 | 50.6–93.3 | 14 | 34.8–88.1 | IDDM11 (85.0–92.4) | PYGL/SEL1 | |
| D6Got169 | 123.6 | ||||||||||
| 6 | D6Mgh3 | 127.7 | Type 1 diabetes/ cellular infiltration/ islet integrity | Iddm29 | 12 | 98.3–111.5 | 14 | 93.8–105.0 | RAGE | ||
| D6Got167 | 146.7 | ||||||||||
| 7 | 126.8–158.3 | ||||||||||
| 7 | D7Rat21 | 96.5 | AOO | Iddm34 | 15 | 62.2–99.3 | 8 | 128.8–146.0 | |||
| D7Rat2 | 137.7 | 22 | 35.0–49.5 | GWA SNP: rs229541 | C1QTNF6, SSTR3 | ||||||
| 12 | 38.2–47.7 | VDR | |||||||||
| 12 | D12Got11 | 8.9 | Type 1 diabetes/ cellular infiltration/ islet integrity | Iddm30 | 5 | 126.5–143.9 | 7 | 0.7–59.8 | NUDT1 | ||
| D12Rat15 | 29.4 | ||||||||||
| 7 | 55.9–101.5 | PON2 | |||||||||
| 12 | 129.9–130.8 | GWA SNP: rs3184504 | C12orf30, PTPN11 | ||||||||
| 14 | D14Rat1 | 4.9 | Type 1 diabetes/ cellular infiltration/ islet integrity | Iddm31 | 5 | 89.3–101.8 | 4 | 74.6–89.3 | 19.8 | ||
| D14Mit6 | 19.8 | ||||||||||
| 17 | D17Rat6 | 16.1 | Type 1 diabetes/islet integrity | Iddm36 | 13 | 26.4–53.7 | Idd14 (25.4–120.3) | 5 | 174.1–175.2 | ||
| D17Rat78 | 47.6 | ||||||||||
| 9 | 89.2–93.0 | ||||||||||
| 6 | 2.7–16.3 | ||||||||||
| 6 | 22.4–24.5 | ||||||||||
| 18 | D18Rat109 | 4.3 | AOO | Iddm35 | 18 | 15.8–66.5 | Idd21.2 (64.6–74.6) | 18 | 22.7–39.1 | ||
| D18Arb6 | 62.7 | 5 | 110.6–127.6 | ||||||||
| 5 | 137.8–150.1 | ||||||||||
| 18 | 52.4–55.2 | IDDM6 (34.1–61.2) | SLC14A1 | ||||||||
In the rat, the chromosome number, the markers flanking the 1-LOD interval, their physical position in Mb, and the trait(s) to which linkage was found are given for each Iddm locus. For murine regions syntenic to each Iddm locus, the chromosome number, the limits of each chromosomal interval (in Mb), and, when present, the Idd loci situated within the syntenic intervals are indicated together with their physical location. For human regions syntenic to each Iddm locus, the chromosome number, the limits of each chromosomal interval (in Mb), and, when present, the IDDM loci situated within the syntenic intervals are indicated together with their physical location. The SNPs recently found to reach significant, genome-wide association (GWA) with type 1 diabetes are also indicated. The last column indicates genes in close linkage disequilibrium with GWA SNPs, as well as the positional candidate genes within the Idd and IDDM loci as listed in www.t1dbase.org.