Table 2. List of candidate genes within the Sub-IV locus.
| Gene | Position | No. of missense variants | Renal expression CAST vs. FVB | HIV Interactions | Molecular class | ||
|---|---|---|---|---|---|---|---|
| start | end | CAST vs. FVB | Log2-fold | P-value | |||
| Pcdh18 | 49743291 | 49757382 | 1 | 0.13 | NS | - | Cadherin superfamily |
| Slc7a11 | 50364936 | 50499087 | - | -0.12 | NS | yes | Membrane transport protein |
| Noct (Ccrn4l) | 51224447 | 51251654 | - | -0.18 | NS | Deadenylase | |
| Elf2 | 51252720 | 51340644 | 2 | 0.03 | NS | Transcription factor | |
| Mgarp (4930583H14Rik) | 51388412 | 51396547 | 1 | -0.66 | NS | - | Membrane protein (mitochondria) |
| Ndufc1 | 51405479 | 51408955 | - | 0.23 | 1.9E-04 | - | Subunit of the NADH |
| Naa15 (Narg1) | 51416016 | 51475985 | - | 0.12 | 0.007 | - | Predicted N-acetyltransferase |
| Rab33b | 51483966 | 51496228 | - | 0.00 | NS | - | GTPase of the RAB family |
| Setd7* | 51515318 | 51560823 | 1 | -0.35 | 3.3E-05 | yes | Arginine Methyltransferase |
| Mgst2 | 51559757 | 51567117 | 1 | 0.21 | NS | - | Glutathione transferase |
| Maml3 | 51687320 | 52105085 | 1 | -0.12 | NS | - | DNA binding protein |
| Foxo1* | 52268337 | 52350109 | - | -0.11 | 0.02 | - | Transcription factor |
| Cog6 | 52982123 | 53017223 | 2 | 0.12 | 2.E-04 | - | Structural protein (Golgi complex) |
| Lhfp | 53041547 | 53261679 | - | -0.31 | 5.E-04 | - | Integral membrane protein |
| Nhlrc3 | 53451996 | 53463258 | - | -0.42 | 1.4E-11 | - | Integral membrane protein |
| Proser1(2810046L04Rik) | 53463817 | 53481755 | 2 | -0.23 | 2.2E-06 | - | Unknown |
| Stoml3 | 53488793 | 53507652 | - | -0.07 | NS | - | Integral membrane protein |
| Frem2* | 53513938 | 53657912 | 8 | -0.60 | 0.002 | - | Extracellular matrix membrane protein (mutated in Fraser syndrome) |
| Ufm1 | 53853376 | 53863807 | - | -0.18 | 2.2E-06 | Unclassified (ubiquitin-like protein) | |
| Trpc4 | 54156057 | 54318471 | - | 0.04 | 0.02 | yes | Calcium Ion channel |
| Postn | 54361096 | 54391041 | 1 | -0.61 | 0.02 | yes | Adhesion molecule |
| Supt20 (D3Ertd300e) | 54692761 | 54728763 | - | -0.20 | 1.1E-05 | - | Transcription regulatory protein |
| Exosc8 | 54728679 | 54735364 | 2 | -0.11 | NS | - | Ribonuclease |
| Alg5 | 54735539 | 54749795 | - | 0.11 | 0.001 | - | Glycosyltransferase |
| Smad9 | 54755457 | 54801741 | - | 0.05 | NS | yes | A member of the SMAD family |
| Rfxap | 54803115 | 54807791 | 3 | 0.04 | NS | - | DNA binding protein |
| Sertm1(6030405A18Rik) | 54897068 | 54915887 | - | 0.07 | NS | - | Unclassified |
| Ccna1 | 55045469 | 55055330 | - | -0.03 | NS | yes | Cell cycle control protein |
| Spg20 | 55112074 | 55137332 | 2 | 0.04 | NS | - | Unclassified |
| Ccdc169 (A730037C10Rik) | 55137339 | 55175250 | 1 | -0.01 | NS | - | Unknown |
| Sohlh2 | 55182044 | 55209957 | 1 | -0.04 | NS | - | Transcription factor |
Note: Only significant t-test p-values <0.05 are shown in the table. NS not significant.
*indicates genes implicated in nephropathy. The missense variants are listed in S1 Table.