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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173860 | KEH17920.1 | 94.393 | 107 | 6 | 0 | 1 | 107 | 141 | 247 | 4.44e-67 | 217 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173860 | sp|Q8LPS6|PPR3_ARATH | 68.224 | 107 | 34 | 0 | 1 | 107 | 265 | 371 | 4.20e-48 | 163 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173860 | A0A072TWM7 | 94.393 | 107 | 6 | 0 | 1 | 107 | 141 | 247 | 2.12e-67 | 217 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0050430 | Msa1173860 | 0.801488 | 8.794325e-49 | -8.615850e-47 |
| Msa0094100 | Msa1173860 | 0.804556 | 2.041011e-49 | -8.615850e-47 |
| Msa0105420 | Msa1173860 | 0.801336 | 9.447350e-49 | -8.615850e-47 |
| Msa0621890 | Msa1173860 | 0.810278 | 1.248062e-50 | -8.615850e-47 |
| Msa0638280 | Msa1173860 | 0.802995 | 4.305002e-49 | -8.615850e-47 |
| Msa0669850 | Msa1173860 | 0.801853 | 7.402757e-49 | -8.615850e-47 |
| Msa0677270 | Msa1173860 | 0.801362 | 9.331768e-49 | -8.615850e-47 |
| Msa0707780 | Msa1173860 | 0.802038 | 6.780289e-49 | -8.615850e-47 |
| Msa0717260 | Msa1173860 | 0.801548 | 8.549056e-49 | -8.615850e-47 |
| Msa0149620 | Msa1173860 | 0.805695 | 1.179097e-49 | -8.615850e-47 |
| Msa0168100 | Msa1173860 | 0.812626 | 3.855992e-51 | -8.615850e-47 |
| Msa0172350 | Msa1173860 | 0.811116 | 8.222623e-51 | -8.615850e-47 |
| Msa0207000 | Msa1173860 | 0.802418 | 5.662515e-49 | -8.615850e-47 |
| Msa0369570 | Msa1173860 | 0.823920 | 1.067899e-53 | -8.615850e-47 |
| Msa0437710 | Msa1173860 | 0.816882 | 4.396404e-52 | -8.615850e-47 |
| Msa1033560 | Msa1173860 | 0.807864 | 4.105042e-50 | -8.615850e-47 |
| Msa1069300 | Msa1173860 | 0.802982 | 4.332599e-49 | -8.615850e-47 |
| Msa0267760 | Msa1173860 | 0.812744 | 3.634369e-51 | -8.615850e-47 |
| Msa1159100 | Msa1173860 | 0.800859 | 1.182811e-48 | -8.615850e-47 |
| Msa1160400 | Msa1173860 | 0.817237 | 3.660314e-52 | -8.615850e-47 |
| Msa1173860 | Msa1220230 | 0.802216 | 6.233508e-49 | -8.615850e-47 |
| Msa1173860 | Msa1323190 | 0.802166 | 6.380834e-49 | -8.615850e-47 |
| Msa1173860 | Msa1362510 | 0.808771 | 2.629811e-50 | -8.615850e-47 |
| Msa1173860 | Msa1382310 | 0.806423 | 8.284907e-50 | -8.615850e-47 |
| Msa1173860 | Msa1385620 | 0.804726 | 1.881386e-49 | -8.615850e-47 |
| Msa1173860 | Msa1390310 | 0.815459 | 9.145558e-52 | -8.615850e-47 |
| Msa1173860 | Msa1427760 | 0.802947 | 4.404756e-49 | -8.615850e-47 |
| Msa0490300 | Msa1173860 | 0.826620 | 2.454752e-54 | -8.615850e-47 |
| Msa0509970 | Msa1173860 | 0.820293 | 7.405873e-53 | -8.615850e-47 |
| Msa0526710 | Msa1173860 | 0.810183 | 1.308494e-50 | -8.615850e-47 |
| Msa0535030 | Msa1173860 | 0.818686 | 1.721969e-52 | -8.615850e-47 |
| Msa0535060 | Msa1173860 | 0.823329 | 1.468638e-53 | -8.615850e-47 |
| Msa0574170 | Msa1173860 | 0.802363 | 5.813676e-49 | -8.615850e-47 |
| Msa0583940 | Msa1173860 | 0.808554 | 2.925629e-50 | -8.615850e-47 |
| Msa0872310 | Msa1173860 | 0.800791 | 1.221211e-48 | -8.615850e-47 |
| Msa0890250 | Msa1173860 | 0.810598 | 1.064458e-50 | -8.615850e-47 |
| Msa0925160 | Msa1173860 | 0.801971 | 6.998854e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173860 | MtrunA17_Chr8g0335951 | 94.393 | 107 | 6 | 0 | 1 | 107 | 190 | 296 | 3.39e-70 | 216 |
| Msa1173860 | MtrunA17_Chr8g0349421 | 97.619 | 84 | 2 | 0 | 24 | 107 | 1 | 84 | 1.52e-56 | 175 |
| Msa1173860 | MtrunA17_Chr1g0194521 | 44.898 | 98 | 53 | 1 | 10 | 107 | 294 | 390 | 2.30e-22 | 90.1 |
| Msa1173860 | MtrunA17_Chr8g0368151 | 37.383 | 107 | 67 | 0 | 1 | 107 | 219 | 325 | 4.49e-22 | 89.4 |
| Msa1173860 | MtrunA17_Chr2g0324251 | 37.391 | 115 | 63 | 2 | 1 | 107 | 228 | 341 | 1.21e-19 | 82.4 |
| Msa1173860 | MtrunA17_Chr2g0282091 | 35.780 | 109 | 70 | 0 | 1 | 109 | 225 | 333 | 2.34e-19 | 81.6 |
| Msa1173860 | MtrunA17_Chr1g0185601 | 37.615 | 109 | 64 | 1 | 3 | 107 | 234 | 342 | 8.45e-19 | 80.1 |
| Msa1173860 | MtrunA17_Chr2g0303221 | 41.905 | 105 | 59 | 2 | 4 | 107 | 230 | 333 | 4.55e-18 | 78.2 |
| Msa1173860 | MtrunA17_Chr4g0021331 | 41.667 | 108 | 61 | 2 | 1 | 107 | 226 | 332 | 5.47e-18 | 77.8 |
| Msa1173860 | MtrunA17_Chr8g0359961 | 38.776 | 98 | 60 | 0 | 10 | 107 | 238 | 335 | 3.55e-16 | 72.8 |
| Msa1173860 | MtrunA17_Chr3g0132571 | 31.776 | 107 | 73 | 0 | 1 | 107 | 236 | 342 | 1.22e-14 | 68.2 |
| Msa1173860 | MtrunA17_Chr2g0289531 | 69.444 | 36 | 11 | 0 | 75 | 110 | 1 | 36 | 2.05e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1173860 | AT1G02150.1 | 68.224 | 107 | 34 | 0 | 1 | 107 | 265 | 371 | 4.27e-49 | 163 |
| Msa1173860 | AT1G60770.1 | 35.514 | 107 | 69 | 0 | 1 | 107 | 219 | 325 | 1.43e-22 | 91.3 |
| Msa1173860 | AT4G01990.1 | 37.000 | 100 | 63 | 0 | 8 | 107 | 243 | 342 | 3.40e-20 | 84.3 |
| Msa1173860 | AT1G02370.1 | 34.579 | 107 | 70 | 0 | 1 | 107 | 268 | 374 | 1.09e-19 | 83.2 |
| Msa1173860 | AT2G20710.2 | 42.857 | 105 | 58 | 2 | 4 | 107 | 143 | 246 | 2.28e-19 | 81.6 |
| Msa1173860 | AT2G20710.1 | 42.857 | 105 | 58 | 2 | 4 | 107 | 238 | 341 | 3.98e-19 | 81.3 |
| Msa1173860 | AT5G27460.1 | 36.449 | 107 | 68 | 0 | 1 | 107 | 239 | 345 | 6.91e-18 | 77.8 |
| Msa1173860 | AT4G02820.1 | 32.075 | 106 | 72 | 0 | 2 | 107 | 257 | 362 | 9.79e-16 | 72.0 |
| Msa1173860 | AT1G28020.1 | 37.500 | 96 | 59 | 1 | 11 | 105 | 244 | 339 | 1.56e-14 | 68.6 |
| Msa1173860 | AT4G21705.1 | 31.776 | 107 | 73 | 0 | 1 | 107 | 222 | 328 | 4.78e-13 | 64.3 |
Find 29 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAAAGCTTTACGAGGAATA+TGG | 0.227678 | 8_1:-4505054 | Msa1173860:CDS |
| ATCCTACCATTATTCCTAAT+TGG | 0.237984 | 8_1:-4505344 | Msa1173860:CDS |
| GTACTAAATGTACTCCAATT+AGG | 0.322076 | 8_1:+4505330 | None:intergenic |
| TGTACTCCAATTAGGAATAA+TGG | 0.340858 | 8_1:+4505338 | None:intergenic |
| CATTATCTCCTGAGTTTGTA+TGG | 0.359485 | 8_1:-4505207 | Msa1173860:CDS |
| AAGGCCGAGGGTAGAATATT+AGG | 0.374501 | 8_1:-4505249 | Msa1173860:CDS |
| TATTTCTTCTCTCGTAAGAA+TGG | 0.377223 | 8_1:-4505094 | Msa1173860:CDS |
| GTTTCCAAGTATACCTAACT+TGG | 0.418407 | 8_1:-4505130 | Msa1173860:CDS |
| AAAAGCTTTACGAGGAATAT+GGG | 0.418718 | 8_1:-4505053 | Msa1173860:CDS |
| ATAGCATGGTATCCCAAGTT+AGG | 0.432336 | 8_1:+4505117 | None:intergenic |
| GAGGAATATGGGTTTCTGTA+AGG | 0.459430 | 8_1:-4505042 | None:intergenic |
| CGTAAGAATGGACGATATTG+AGG | 0.465330 | 8_1:-4505082 | Msa1173860:CDS |
| TATCCCAAGTTAGGTATACT+TGG | 0.477102 | 8_1:+4505126 | None:intergenic |
| GGCTGCAATGTATATTAAGA+TGG | 0.477129 | 8_1:-4505304 | Msa1173860:CDS |
| TTGATTTATAGTTATTCCAC+AGG | 0.522855 | 8_1:+4505154 | None:intergenic |
| CAACACTTCCATACAAACTC+AGG | 0.539796 | 8_1:+4505199 | None:intergenic |
| CTGAGTTTGTATGGAAGTGT+TGG | 0.541520 | 8_1:-4505198 | Msa1173860:CDS |
| GTAAGAATGGACGATATTGA+GGG | 0.554710 | 8_1:-4505081 | Msa1173860:CDS |
| GTATGGAAGTGTTGGAAACA+AGG | 0.554809 | 8_1:-4505190 | Msa1173860:CDS |
| AAACTCAGGAGATAATGAAA+AGG | 0.565979 | 8_1:+4505213 | None:intergenic |
| TCGACCTAATATTCTACCCT+CGG | 0.566861 | 8_1:+4505245 | None:intergenic |
| AGGACGAAGTTTACCGCCTG+TGG | 0.571432 | 8_1:-4505170 | Msa1173860:CDS |
| TTGGAGTACATTTAGTACAA+TGG | 0.583230 | 8_1:-4505325 | Msa1173860:CDS |
| TTTCCAAGTATACCTAACTT+GGG | 0.589423 | 8_1:-4505129 | Msa1173860:CDS |
| CGAGAGAAGAAATAATAGCA+TGG | 0.622616 | 8_1:+4505103 | None:intergenic |
| ATTTATAGTTATTCCACAGG+CGG | 0.629230 | 8_1:+4505157 | None:intergenic |
| CTCCAATTAGGAATAATGGT+AGG | 0.679561 | 8_1:+4505342 | None:intergenic |
| TAAGAATGGACGATATTGAG+GGG | 0.688947 | 8_1:-4505080 | Msa1173860:CDS |
| AAGAATGGACGATATTGAGG+GGG | 0.691386 | 8_1:-4505079 | Msa1173860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTGATTTATAGTTATTCCAC+AGG | + | chr8_1:4505247-4505266 | None:intergenic | 25.0% |
| ATCCTACCATTATTCCTAAT+TGG | - | chr8_1:4505054-4505073 | Msa1173860:CDS | 30.0% | |
| TGTACTCCAATTAGGAATAA+TGG | + | chr8_1:4505063-4505082 | None:intergenic | 30.0% | |
| GTACTAAATGTACTCCAATT+AGG | + | chr8_1:4505071-4505090 | None:intergenic | 30.0% | |
| TTGGAGTACATTTAGTACAA+TGG | - | chr8_1:4505073-4505092 | Msa1173860:CDS | 30.0% | |
| AAACTCAGGAGATAATGAAA+AGG | + | chr8_1:4505188-4505207 | None:intergenic | 30.0% | |
| ATTTATAGTTATTCCACAGG+CGG | + | chr8_1:4505244-4505263 | None:intergenic | 30.0% | |
| TTTCCAAGTATACCTAACTT+GGG | - | chr8_1:4505269-4505288 | Msa1173860:CDS | 30.0% | |
| TATTTCTTCTCTCGTAAGAA+TGG | - | chr8_1:4505304-4505323 | Msa1173860:CDS | 30.0% | |
| AAAAGCTTTACGAGGAATAT+GGG | - | chr8_1:4505345-4505364 | Msa1173860:CDS | 30.0% | |
| CTCCAATTAGGAATAATGGT+AGG | + | chr8_1:4505059-4505078 | None:intergenic | 35.0% | |
| GGCTGCAATGTATATTAAGA+TGG | - | chr8_1:4505094-4505113 | Msa1173860:CDS | 35.0% | |
| !! | AGCACAAGAGTGCTTAAAAA+AGG | - | chr8_1:4505130-4505149 | Msa1173860:CDS | 35.0% |
| CATTATCTCCTGAGTTTGTA+TGG | - | chr8_1:4505191-4505210 | Msa1173860:CDS | 35.0% | |
| GTTTCCAAGTATACCTAACT+TGG | - | chr8_1:4505268-4505287 | Msa1173860:CDS | 35.0% | |
| TATCCCAAGTTAGGTATACT+TGG | + | chr8_1:4505275-4505294 | None:intergenic | 35.0% | |
| CGAGAGAAGAAATAATAGCA+TGG | + | chr8_1:4505298-4505317 | None:intergenic | 35.0% | |
| GTAAGAATGGACGATATTGA+GGG | - | chr8_1:4505317-4505336 | Msa1173860:CDS | 35.0% | |
| TAAGAATGGACGATATTGAG+GGG | - | chr8_1:4505318-4505337 | Msa1173860:CDS | 35.0% | |
| GAAAAGCTTTACGAGGAATA+TGG | - | chr8_1:4505344-4505363 | Msa1173860:CDS | 35.0% | |
| TCGACCTAATATTCTACCCT+CGG | + | chr8_1:4505156-4505175 | None:intergenic | 40.0% | |
| CAACACTTCCATACAAACTC+AGG | + | chr8_1:4505202-4505221 | None:intergenic | 40.0% | |
| ! | CTGAGTTTGTATGGAAGTGT+TGG | - | chr8_1:4505200-4505219 | Msa1173860:CDS | 40.0% |
| !! | GTATGGAAGTGTTGGAAACA+AGG | - | chr8_1:4505208-4505227 | Msa1173860:CDS | 40.0% |
| ATAGCATGGTATCCCAAGTT+AGG | + | chr8_1:4505284-4505303 | None:intergenic | 40.0% | |
| CGTAAGAATGGACGATATTG+AGG | - | chr8_1:4505316-4505335 | Msa1173860:CDS | 40.0% | |
| AAGAATGGACGATATTGAGG+GGG | - | chr8_1:4505319-4505338 | Msa1173860:CDS | 40.0% | |
| ! | AGAGTGCTTAAAAAAGGCCG+AGG | - | chr8_1:4505136-4505155 | Msa1173860:CDS | 45.0% |
| GAGTGCTTAAAAAAGGCCGA+GGG | - | chr8_1:4505137-4505156 | Msa1173860:CDS | 45.0% | |
| AAGGCCGAGGGTAGAATATT+AGG | - | chr8_1:4505149-4505168 | Msa1173860:CDS | 45.0% | |
| AGGACGAAGTTTACCGCCTG+TGG | - | chr8_1:4505228-4505247 | Msa1173860:CDS | 55.0% | |
| GGGGGCAGAAAAGCTTTACG+AGG | - | chr8_1:4505337-4505356 | Msa1173860:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 4505044 | 4505376 | 4505044 | ID=Msa1173860;Name=Msa1173860 |
| chr8_1 | mRNA | 4505044 | 4505376 | 4505044 | ID=Msa1173860-mRNA-1;Parent=Msa1173860;Name=Msa1173860-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|110 |
| chr8_1 | exon | 4505044 | 4505376 | 4505044 | ID=Msa1173860-mRNA-1:exon:1612;Parent=Msa1173860-mRNA-1 |
| chr8_1 | CDS | 4505044 | 4505376 | 4505044 | ID=Msa1173860-mRNA-1:cds;Parent=Msa1173860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
