Gene Expression Changes that Were Consistent with Being a Direct Result of cis Acting Polymorphisms
| Gene | UniGene ID | Strain | Idd locus | Idd (up/down) | Tissues observed | B10 level | Maps to interval |
| Chemokine (C–X–C) receptor 4 | Mm.1401 | Idd3+5 | — | ↑ | S, T | Idd3+5 | yes |
| Serine/threonine kinase 25 | Mm.28761 | Idd3+5 | — | ↑ | S, T | Idd3+5 | yes |
| ESTs, moderately similar to ladinin [Homo sapiens] | Mm.36726 | Idd3+5 | — | ↑ | T | Idd3+5 | unknown |
| cDNA clone IMAGE:1277236 | — | Idd3+5 | — | ↑ | T | Idd3+5 | unknown |
| Rhesus blood group-like | Mm.18140 | Idd9 | Idd9.1 | ↓ | S | Idd9 | yes |
| High mobility group nucleosomal binding domain 2 | Mm.911 | Idd9 | Idd9.1 | ↓ | S, T | Idd9 | yes |
| RIKEN cDNA 9030402K04 gene | Mm.43213 | Idd9 | Idd9.1 | ↓ | S | Idd9 | yes |
| RIKEN cDNA 3200001F09 gene | Mm.88349 | Idd9 | Idd9.1 | ↓ | S, T | Idd9 | yes |
| Lysosomal-associated protein transmembrane 5 | Mm.4554 | Idd9 | Idd9.1 | ↓ | S, T | NOD | yes |
| Eph receptor A2 | Mm.2581 | Idd9 | Idd9.1 | ↓ | T | Idd9 | yes |
| Transcription elongation factor B (SIII) | Mm.27663 | Idd9 | Idd9.1 | ↑ | T | Idd9 | yes |
| RIKEN cDNA 4930506L07 gene | Mm.22176 | Idd9 | Idd9.1 | ↑ | T | Idd9 | yes |