Table 4 Genetic variations between B10.RIII and Eae39r2 sub-congenic mice
From: The oncoprotein TBX3 is controlling severity in experimental arthritis
Genetic variations related to the mouse Tbx3 gene | ||||
 SNP ID | Location in genomea | Allelesb | Functional class | Predicted consequencec |
 rs234834055 | 5:119669859 | C/− | Promoter variant | May affect gene expression level |
 rs48522093 | 5:119670996 | C/G | 5’ UTR variant | Introduction of new TFBS for f (alpha)-f (epsilon) (undocumented role) |
 rs221652067 | 5:119674641 | −/AATT | Intronic variant | No TF binding site in this region |
 rs48057748 | 5:119675826 | G/T | Intronic variant | No TF binding site in this region |
 rs260549092 | 5:119677177 | −/A | Intronic variant | No TF binding site in this region |
 rs260388829 | 5:119680214 | C/T | Intronic variant | Disruption of TFBS for c-Rel (member of NF-ĸB TF family, linked to CIA development, and lymphoid cell growth and development [86]) and Sp1 (involved in cellular processes including growth, differentiation and apoptosis) |
 rs223041783 | 5:119681737 | −/(GA)6 | Intronic variant | No TF binding site in this region |
 No SNP id | 5:119684553 | A/− | 3’ UTR variant | Lies very close to mmu-miR-511 binding site (miR-511negatively regulates growth and metastasis of tumor cells in humans [87]) |
 rs254153782 | 5:119684580 | A/C | 3’ UTR variant | No miRNA binding site in this region |
Genetic variations related to the mouse Tbx5 gene | ||||
 SNP ID | Location in genomea | Allelesb | Functional class | Predicted consequencec |
 rs247725267 | 5:119834384–119,834,391 | (TTCC)2/− | Promoter variant | May affect expression level of gene |
 rs46426184 | 5:119859957 | A/G | Intron variant | No TF binding site in this region |
 rs222502452 | 5:119860635 | C/T | Intron variant | No TF binding site in this region |
 rs32145767 | 5:119860705 | G/A | Intron variant | No TF binding site in this region |
 rs242983646 | 5:119860887 | A/C | Intron variant | Disruption of c-fos binding site (involved in cell proliferation, growth and survival pathways, including bone and immune cells [88]) |
 rs252594029 | 5:119861058 | T/C | Intron variant | No TF binding site in this region |
 rs246838998 | 5:119862700 | A/G | Intron variant | No TF binding site in this region |
 rs213393759 | 5:119862716 | G/A | Intron variant | No TF binding site in this region |
 rs32145773 | 5:119863349 | T/C | Intron variant | Disruption of Sox5 binding site (linked to Th17 cell differentiation [89]) |
 rs32146450 | 5:119867116 | C/T | Intron variant | No TF binding site in this region |
 rs50869445 | 5:119868930 | T/C | Intron variant | No TF binding site in this region |
 rs48190630 | 5:119868943 | T/C | Intron variant | Introduction of new TFBS for C/EBPbeta (regulating the expression of genes involved in immune and inflammatory responses [90]) |
 rs32147927 | 5:119868969 | C/T | Intron variant | No TF binding site in this region |
 rs228127170 | 5:119868977 | G/A | Intron variant | No TF binding site in this region |
 rs49608882 | 5:119869004 | C/T | Intron variant | No TF binding site in this region |
 rs45644322 | 5:119869140 | G/A | Intron variant | No TF binding site in this region |
 rs48943542 | 5:119869144 | G/A | Intron variant | No TF binding site in this region |
 rs6373056 | 5:119871760 | G/A | Intron variant | No TF binding site in this region |
 rs48054187 | 5:119878634 | C/T | Intron variant | No TF binding site in this region |
 rs265584798 | 5:119883860 | C/T | 3’ UTR variant | No miRNA binding site in this region |
 rs255866543 | 5:119884274 | A/G | 3’ UTR variant | Lies very close to mmu-miR-6918-5p binding site (undocumented role) |
 rs232783988 | 5:119885135 | −/G | 3’ UTR variant | No miRNA binding site in this region |
 rs237950985 | 5: 119885225 | C/T | Downstream variant | NA |
 rs237459586 | 5:119885320–119,885,324 | TCTTT/− | Downstream variant | NA |
 rs258422458 | 5:119885423 | C/T | Downstream variant | NA |