Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1409230 | XP_003625510.1 | 99.275 | 138 | 1 | 0 | 1 | 138 | 1 | 138 | 1.59e-90 | 268 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1409230 | sp|Q1SU99|H2B3_MEDTR | 99.275 | 138 | 1 | 0 | 1 | 138 | 1 | 138 | 1.98e-93 | 268 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1409230 | B7FH68 | 99.275 | 138 | 1 | 0 | 1 | 138 | 1 | 138 | 7.58e-91 | 268 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1385760 | Msa1409230 | 0.999766 | 0.000000e+00 | -8.615850e-47 |
| Msa1409230 | Msa1434130 | 0.998196 | 1.589884e-258 | -8.615850e-47 |
| Msa0603410 | Msa1409230 | 0.816467 | 5.448230e-52 | -8.615850e-47 |
| Msa1339240 | Msa1409230 | 0.805040 | 1.617409e-49 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1409230 | MtrunA17_Chr7g0263031 | 99.275 | 138 | 1 | 0 | 1 | 138 | 1 | 138 | 1.46e-94 | 268 |
| Msa1409230 | MtrunA17_Chr4g0030981 | 85.811 | 148 | 10 | 3 | 1 | 138 | 1 | 147 | 2.15e-81 | 236 |
| Msa1409230 | MtrunA17_Chr1g0197451 | 93.525 | 139 | 6 | 3 | 1 | 138 | 1 | 137 | 4.94e-79 | 229 |
| Msa1409230 | MtrunA17_Chr1g0198251 | 93.525 | 139 | 6 | 3 | 1 | 138 | 1 | 137 | 5.39e-79 | 229 |
| Msa1409230 | MtrunA17_Chr4g0031671 | 86.577 | 149 | 8 | 3 | 1 | 138 | 1 | 148 | 1.19e-77 | 226 |
| Msa1409230 | MtrunA17_Chr4g0031631 | 86.577 | 149 | 8 | 3 | 1 | 138 | 1 | 148 | 1.19e-77 | 226 |
| Msa1409230 | MtrunA17_Chr4g0030941 | 86.577 | 149 | 8 | 3 | 1 | 138 | 1 | 148 | 1.19e-77 | 226 |
| Msa1409230 | MtrunA17_Chr4g0031061 | 85.906 | 149 | 9 | 3 | 1 | 138 | 1 | 148 | 6.60e-77 | 224 |
| Msa1409230 | MtrunA17_Chr4g0032321 | 85.906 | 149 | 9 | 3 | 1 | 138 | 1 | 148 | 6.60e-77 | 224 |
| Msa1409230 | MtrunA17_Chr4g0035061 | 86.577 | 149 | 8 | 3 | 1 | 138 | 1 | 148 | 1.12e-76 | 224 |
| Msa1409230 | MtrunA17_Chr4g0035631 | 86.577 | 149 | 8 | 3 | 1 | 138 | 1 | 148 | 1.12e-76 | 224 |
| Msa1409230 | MtrunA17_Chr4g0030951 | 86.806 | 144 | 8 | 2 | 6 | 138 | 4 | 147 | 1.89e-76 | 223 |
| Msa1409230 | MtrunA17_Chr4g0046191 | 87.500 | 144 | 11 | 3 | 1 | 138 | 1 | 143 | 3.57e-75 | 220 |
| Msa1409230 | MtrunA17_Chr4g0035071 | 85.235 | 149 | 10 | 3 | 1 | 138 | 1 | 148 | 4.49e-75 | 220 |
| Msa1409230 | MtrunA17_Chr1g0182361 | 95.370 | 108 | 4 | 1 | 31 | 138 | 30 | 136 | 4.42e-65 | 194 |
| Msa1409230 | MtrunA17_Chr2g0320511 | 60.674 | 89 | 35 | 0 | 49 | 137 | 136 | 224 | 2.19e-37 | 127 |
| Msa1409230 | MtrunA17_Chr8g0368781 | 71.910 | 89 | 22 | 2 | 9 | 97 | 3 | 88 | 8.39e-36 | 119 |
| Msa1409230 | MtrunA17_Chr4g0031051 | 90.196 | 51 | 5 | 0 | 76 | 126 | 1 | 51 | 3.46e-27 | 95.9 |
| Msa1409230 | MtrunA17_Chr7g0228831 | 90.000 | 40 | 4 | 0 | 47 | 86 | 42 | 81 | 9.62e-23 | 85.9 |
| Msa1409230 | MtrunA17_Chr4g0014401 | 39.744 | 78 | 47 | 0 | 45 | 122 | 33 | 110 | 5.91e-13 | 61.6 |
| Msa1409230 | MtrunA17_Chr4g0075141 | 35.714 | 84 | 53 | 1 | 54 | 136 | 34 | 117 | 6.81e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1409230 | AT2G37470.1 | 89.855 | 138 | 13 | 1 | 1 | 137 | 1 | 138 | 8.78e-79 | 229 |
| Msa1409230 | AT3G53650.1 | 89.855 | 138 | 14 | 0 | 1 | 138 | 1 | 138 | 1.28e-77 | 226 |
| Msa1409230 | AT3G45980.1 | 82.781 | 151 | 12 | 3 | 1 | 138 | 1 | 150 | 9.51e-75 | 219 |
| Msa1409230 | AT1G07790.1 | 82.550 | 149 | 14 | 2 | 1 | 138 | 1 | 148 | 8.62e-74 | 217 |
| Msa1409230 | AT2G28720.1 | 82.237 | 152 | 12 | 3 | 1 | 138 | 1 | 151 | 1.94e-73 | 216 |
| Msa1409230 | AT5G59910.1 | 85.926 | 135 | 17 | 1 | 6 | 138 | 16 | 150 | 1.59e-71 | 211 |
| Msa1409230 | AT3G46030.1 | 88.372 | 129 | 13 | 1 | 12 | 138 | 17 | 145 | 6.12e-71 | 209 |
| Msa1409230 | AT5G02570.1 | 88.550 | 131 | 9 | 2 | 11 | 138 | 5 | 132 | 2.12e-67 | 200 |
| Msa1409230 | AT5G22880.1 | 81.119 | 143 | 18 | 2 | 5 | 138 | 3 | 145 | 5.90e-66 | 197 |
| Msa1409230 | AT3G09480.1 | 82.114 | 123 | 21 | 1 | 16 | 138 | 5 | 126 | 8.62e-64 | 191 |
| Msa1409230 | AT1G08170.1 | 60.000 | 85 | 34 | 0 | 51 | 135 | 151 | 235 | 3.18e-37 | 127 |
Find 34 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCAAGAGCTGGTGAATT+TGG | 0.235894 | tig0023498:-12499 | None:intergenic |
| CTCCGCCTTTGGTTTCTTCT+CGG | 0.278156 | tig0023498:-12163 | None:intergenic |
| GCTGTTAGATTGGTTCTTCC+TGG | 0.314946 | tig0023498:+12432 | Msa1409230:CDS |
| GAGATCTTCTTCTCCGCCTT+TGG | 0.325858 | tig0023498:-12174 | None:intergenic |
| ATTGGTTCTTCCTGGAGAAT+TGG | 0.353160 | tig0023498:+12440 | Msa1409230:CDS |
| GCCTTTGGTTTCTTCTCGGC+TGG | 0.357848 | tig0023498:-12159 | None:intergenic |
| CATCTTCAAGGTTCTGAAAC+AGG | 0.359264 | tig0023498:+12263 | Msa1409230:CDS |
| AAACAGGTTCATCCTGATAT+TGG | 0.374570 | tig0023498:+12279 | Msa1409230:CDS |
| GATTCAAACTGCTGTTAGAT+TGG | 0.401031 | tig0023498:+12422 | Msa1409230:CDS |
| TGCTCAGGAATCGTCTCGTT+TGG | 0.412474 | tig0023498:+12362 | Msa1409230:CDS |
| TTGCTTGAAACACCAATATC+AGG | 0.417581 | tig0023498:-12291 | None:intergenic |
| TGGTGTTTCAAGCAAGGCTA+TGG | 0.418611 | tig0023498:+12299 | Msa1409230:CDS |
| TCGGCTGGAGCTTTCTCTGC+GGG | 0.433183 | tig0023498:-12144 | None:intergenic |
| TGCTGTTTCTGAAGGGACTA+AGG | 0.469671 | tig0023498:+12470 | Msa1409230:CDS |
| ATACAAGATATACATCTTCA+AGG | 0.488494 | tig0023498:+12251 | Msa1409230:CDS |
| GCTAAACATGCTGTTTCTGA+AGG | 0.504101 | tig0023498:+12462 | Msa1409230:CDS |
| TCTGCGGGCTTCTTCTCCGC+GGG | 0.504996 | tig0023498:-12129 | None:intergenic |
| GCATGTTTAGCCAATTCTCC+AGG | 0.514866 | tig0023498:-12450 | None:intergenic |
| TATCTTTGAGAAACTTGCTC+AGG | 0.528928 | tig0023498:+12347 | Msa1409230:CDS |
| ATCTCCCTTGAAGTGATCGT+CGG | 0.552358 | tig0023498:-12402 | None:intergenic |
| CTCTGCGGGCTTCTTCTCCG+CGG | 0.552987 | tig0023498:-12130 | None:intergenic |
| GGTGTTTCAAGCAAGGCTAT+GGG | 0.553844 | tig0023498:+12300 | Msa1409230:CDS |
| CTCGGCTGGAGCTTTCTCTG+CGG | 0.557332 | tig0023498:-12145 | None:intergenic |
| AGAAGCCGACGATCACTTCA+AGG | 0.560392 | tig0023498:+12397 | Msa1409230:CDS |
| GAGAAGAAGATCTCAAAAGA+AGG | 0.561490 | tig0023498:+12183 | Msa1409230:CDS |
| TGATATTGGTGTTTCAAGCA+AGG | 0.568075 | tig0023498:+12293 | Msa1409230:CDS |
| AGGAATCGTCTCGTTTGGCT+AGG | 0.569875 | tig0023498:+12367 | Msa1409230:CDS |
| AAAGCAACAAAATCAAGAGC+TGG | 0.570887 | tig0023498:-12508 | None:intergenic |
| CTAAACATGCTGTTTCTGAA+GGG | 0.585084 | tig0023498:+12463 | Msa1409230:CDS |
| ATCAAGAATGGCTCCCACAA+AGG | 0.630896 | tig0023498:+12095 | None:intergenic |
| TCCAGCCGAGAAGAAACCAA+AGG | 0.637685 | tig0023498:+12158 | Msa1409230:CDS |
| AAAGGCAGAAAAGAAACCCG+CGG | 0.639354 | tig0023498:+12113 | Msa1409230:CDS |
| GAAGCCGACGATCACTTCAA+GGG | 0.644853 | tig0023498:+12398 | Msa1409230:CDS |
| AGCCGAGAAGAAACCAAAGG+CGG | 0.671315 | tig0023498:+12161 | Msa1409230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATACAAGATATACATCTTCA+AGG | + | tig0023498:12251-12270 | Msa1409230:CDS | 25.0% |
| GAGAAGAAGATCTCAAAAGA+AGG | + | tig0023498:12183-12202 | Msa1409230:CDS | 35.0% | |
| AAACAGGTTCATCCTGATAT+TGG | + | tig0023498:12279-12298 | Msa1409230:CDS | 35.0% | |
| TTGCTTGAAACACCAATATC+AGG | - | tig0023498:12294-12313 | None:intergenic | 35.0% | |
| ! | TGATATTGGTGTTTCAAGCA+AGG | + | tig0023498:12293-12312 | Msa1409230:CDS | 35.0% |
| ! | TATCTTTGAGAAACTTGCTC+AGG | + | tig0023498:12347-12366 | Msa1409230:CDS | 35.0% |
| GATTCAAACTGCTGTTAGAT+TGG | + | tig0023498:12422-12441 | Msa1409230:CDS | 35.0% | |
| !! | CTAAACATGCTGTTTCTGAA+GGG | + | tig0023498:12463-12482 | Msa1409230:CDS | 35.0% |
| ! | GGTTTCTTTTCTGCCTTTGT+GGG | - | tig0023498:12111-12130 | None:intergenic | 40.0% |
| !! | CATCTTCAAGGTTCTGAAAC+AGG | + | tig0023498:12263-12282 | Msa1409230:CDS | 40.0% |
| ! | ATTGGTTCTTCCTGGAGAAT+TGG | + | tig0023498:12440-12459 | Msa1409230:CDS | 40.0% |
| !! | GCTAAACATGCTGTTTCTGA+AGG | + | tig0023498:12462-12481 | Msa1409230:CDS | 40.0% |
| ! | GGGTTTCTTTTCTGCCTTTG+TGG | - | tig0023498:12112-12131 | None:intergenic | 45.0% |
| AAAGGCAGAAAAGAAACCCG+CGG | + | tig0023498:12113-12132 | Msa1409230:CDS | 45.0% | |
| TGGTGTTTCAAGCAAGGCTA+TGG | + | tig0023498:12299-12318 | Msa1409230:CDS | 45.0% | |
| GGTGTTTCAAGCAAGGCTAT+GGG | + | tig0023498:12300-12319 | Msa1409230:CDS | 45.0% | |
| ATCTCCCTTGAAGTGATCGT+CGG | - | tig0023498:12405-12424 | None:intergenic | 45.0% | |
| ! | GCTGTTAGATTGGTTCTTCC+TGG | + | tig0023498:12432-12451 | Msa1409230:CDS | 45.0% |
| GCATGTTTAGCCAATTCTCC+AGG | - | tig0023498:12453-12472 | None:intergenic | 45.0% | |
| !! | TGCTGTTTCTGAAGGGACTA+AGG | + | tig0023498:12470-12489 | Msa1409230:CDS | 45.0% |
| TCCAGCCGAGAAGAAACCAA+AGG | + | tig0023498:12158-12177 | Msa1409230:CDS | 50.0% | |
| AGCCGAGAAGAAACCAAAGG+CGG | + | tig0023498:12161-12180 | Msa1409230:CDS | 50.0% | |
| ! | CTCCGCCTTTGGTTTCTTCT+CGG | - | tig0023498:12166-12185 | None:intergenic | 50.0% |
| GAGATCTTCTTCTCCGCCTT+TGG | - | tig0023498:12177-12196 | None:intergenic | 50.0% | |
| TGCTCAGGAATCGTCTCGTT+TGG | + | tig0023498:12362-12381 | Msa1409230:CDS | 50.0% | |
| AGGAATCGTCTCGTTTGGCT+AGG | + | tig0023498:12367-12386 | Msa1409230:CDS | 50.0% | |
| AGAAGCCGACGATCACTTCA+AGG | + | tig0023498:12397-12416 | Msa1409230:CDS | 50.0% | |
| GAAGCCGACGATCACTTCAA+GGG | + | tig0023498:12398-12417 | Msa1409230:CDS | 50.0% | |
| ! | GCCTTTGGTTTCTTCTCGGC+TGG | - | tig0023498:12162-12181 | None:intergenic | 55.0% |
| TCGGCTGGAGCTTTCTCTGC+GGG | - | tig0023498:12147-12166 | None:intergenic | 60.0% | |
| CTCGGCTGGAGCTTTCTCTG+CGG | - | tig0023498:12148-12167 | None:intergenic | 60.0% | |
| TCTGCGGGCTTCTTCTCCGC+GGG | - | tig0023498:12132-12151 | None:intergenic | 65.0% | |
| CTCTGCGGGCTTCTTCTCCG+CGG | - | tig0023498:12133-12152 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023498 | gene | 12102 | 12518 | 12102 | ID=Msa1409230;Name=Msa1409230 |
| tig0023498 | mRNA | 12102 | 12518 | 12102 | ID=Msa1409230-mRNA-1;Parent=Msa1409230;Name=Msa1409230-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|138 |
| tig0023498 | exon | 12102 | 12518 | 12102 | ID=Msa1409230-mRNA-1:exon:25891;Parent=Msa1409230-mRNA-1 |
| tig0023498 | CDS | 12102 | 12518 | 12102 | ID=Msa1409230-mRNA-1:cds;Parent=Msa1409230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
