Table 1 Results of mrSNP on 16 experimentally validated disease-associated SNPs described in [[20]]
From: mrSNP: Software to detect SNP effects on microRNA binding
SNP | miRNA | Chr | Position | Alleles | Success | Explanation | |
|---|---|---|---|---|---|---|---|
rs1063320 | hsa-miR-152 | 6 | 29798749 | C | G | ✓ | Binds one of the sequences with 7 consecutive matches. SNP breaks the match on the 7th position, min. match critera is not satisfied. |
rs1063320 | hsa-miR-148a | 6 | 29798749 | C | G | ✓ | Binds one of the sequences with 8 consecutive matches. SNP breaks the match on the 7th position, min. match critera is not satisfied. |
rs1063320 | hsa-miR-148b | 6 | 29798749 | C | G | ✓ | Binds one of the sequences with 7 consecutive matches. SNP breaks the match on the 7th position, min. match critera is not satisfied. |
rs3134615 | hsa-miR-1827 | 1 | 40362066 | A | C | ✓ | Binds one of the sequences with 8 consecutive matches. SNP breaks the match on the 6th position, min. match critera is not satisfied. |
rs4245739 | hsa-miR-191 | 1 | 204518842 | A | C | ✓ | Binds one of the sequences with 8 consecutive matches. SNP breaks the match on the 5th position, min. match critera is not satisfied. |
rs56109847 | hsa-miR-510 | 3 | 183824557 | A | G | ✓ | Binds one of the sequences with 8 consecutive matches. SNP breaks the match on 5th position, min. match critera is not satisfied. |
rs5186 | has-miR-155 | 3 | 148459988 | A | C | ✓ | Binds one of the sequences with 7 consecutive matches. SNP breaks the match on 4th position, min. match critera is not satisfied. |
rs1434536 | hsa-miR-125b | 4 | 96075965 | T | C | ✓ | Binds one of the sequences with 8 consecutive matches. SNP introduces a GU wobble on 8th position (7th of seed), the binding energy is below the cut off. |
rs193302862 | hsa-miR-24 | 13 | 84452863 | C | T | ✓ | Binds one of the sequences with 9 consecutive matches. SNP introduces a GU wobble on 8th position (7th of the seed), the binding energy is lower than cut off. |
rs8126 | hsa-miR-184 | 14 | 103603569 | C | T | ✓ | Binds one of the sequences with 7 consecutive matches. SNP introduces a GU wobble on 6th position (7mer with a GU wobble), the binding energy is below the cut off. |
rs12720208 | has-miR-433 | 8 | 16850399 | G | A | ✓ | Binds one of the sequences with 7 consecutive matches. SNP introduces a GU wobble on 6th position, the binding energy is lower than cut off. |
rs13212041 | hsa-miR-96 | 6 | 78171124 | C | T | × | SNP is not in 3’UTR |
rs2735383 | hsa-miR-629 | 8 | 90947269 | C | G | × | miRNA is predicted not to bind either of the sequences. There exists a mistmatch on the 4th position regardless of the SNP. SNP further breaks the match on 3rd position. |
rs34764978 | has-miR-24 | 5 | 79924683 | A | G | × | miRNA is predicted not to bind either of the sequences. Both have only 6 matches with GU wobble. |
rs9341070 | has-miR-206 | 6 | 152420197 | C | T | × | miRNA is predicted not to bind either of the sequences. min. match criteria cannot be satisfied in both |
rs67384697 | hsa-miR-148a | 6 | 31236683 | C | - | × | miRNA is predicted to bind both of the sequences. SNP reduces 11 consecutive match to 9. |