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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587050 | XP_039688797.1 | 89.175 | 194 | 5 | 3 | 1 | 192 | 1 | 180 | 2.23e-113 | 330 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587050 | sp|Q9M8L3|VQ11_ARATH | 41.500 | 200 | 56 | 7 | 11 | 191 | 10 | 167 | 1.55e-29 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0042210 | Msa0587050 | -0.816426 | 5.563038e-52 | -8.615850e-47 |
| Msa0047660 | Msa0587050 | -0.801659 | 8.111077e-49 | -8.615850e-47 |
| Msa0064490 | Msa0587050 | -0.810564 | 1.082427e-50 | -8.615850e-47 |
| Msa0065520 | Msa0587050 | -0.809367 | 1.959551e-50 | -8.615850e-47 |
| Msa0089700 | Msa0587050 | -0.811993 | 5.302363e-51 | -8.615850e-47 |
| Msa0122930 | Msa0587050 | -0.805856 | 1.090615e-49 | -8.615850e-47 |
| Msa0142390 | Msa0587050 | -0.818884 | 1.552755e-52 | -8.615850e-47 |
| Msa0167570 | Msa0587050 | -0.815913 | 7.243992e-52 | -8.615850e-47 |
| Msa0224180 | Msa0587050 | -0.804218 | 2.400940e-49 | -8.615850e-47 |
| Msa0390760 | Msa0587050 | -0.801744 | 7.793112e-49 | -8.615850e-47 |
| Msa0269370 | Msa0587050 | -0.803336 | 3.659451e-49 | -8.615850e-47 |
| Msa0519100 | Msa0587050 | -0.810807 | 9.593408e-51 | -8.615850e-47 |
| Msa0520550 | Msa0587050 | -0.804199 | 2.423076e-49 | -8.615850e-47 |
| Msa0587050 | Msa0626880 | 0.836131 | 1.120142e-56 | -8.615850e-47 |
| Msa0587050 | Msa0665000 | 0.878361 | 2.988079e-69 | -8.615850e-47 |
| Msa0587050 | Msa0684030 | -0.801600 | 8.341045e-49 | -8.615850e-47 |
| Msa0587050 | Msa0753590 | -0.828853 | 7.137108e-55 | -8.615850e-47 |
| Msa0587050 | Msa0792180 | -0.805125 | 1.552365e-49 | -8.615850e-47 |
| Msa0587050 | Msa1131300 | -0.807640 | 4.580194e-50 | -8.615850e-47 |
| Msa0587050 | Msa1154060 | 0.813296 | 2.749981e-51 | -8.615850e-47 |
| Msa0587050 | Msa1164720 | -0.800659 | 1.299506e-48 | -8.615850e-47 |
| Msa0587050 | Msa1215540 | -0.823410 | 1.406035e-53 | -8.615850e-47 |
| Msa0587050 | Msa1267340 | -0.827082 | 1.904133e-54 | -8.615850e-47 |
| Msa0587050 | Msa1287100 | -0.812473 | 4.164845e-51 | -8.615850e-47 |
| Msa0587050 | Msa1301280 | -0.809658 | 1.696999e-50 | -8.615850e-47 |
| Msa0587050 | Msa1404810 | -0.814954 | 1.184157e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587050 | MtrunA17_Chr4g0003091 | 89.175 | 194 | 5 | 3 | 1 | 192 | 1 | 180 | 2.05e-117 | 330 |
| Msa0587050 | MtrunA17_Chr2g0282361 | 35.079 | 191 | 81 | 10 | 16 | 186 | 83 | 250 | 2.82e-13 | 66.2 |
| Msa0587050 | MtrunA17_Chr2g0317321 | 36.224 | 196 | 92 | 8 | 16 | 192 | 65 | 246 | 2.91e-13 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587050 | AT1G80450.1 | 41.500 | 200 | 56 | 7 | 11 | 191 | 10 | 167 | 1.57e-30 | 110 |
| Msa0587050 | AT1G28280.2 | 35.263 | 190 | 94 | 9 | 16 | 186 | 57 | 236 | 1.08e-14 | 70.5 |
| Msa0587050 | AT1G28280.1 | 35.263 | 190 | 94 | 9 | 16 | 186 | 57 | 236 | 1.08e-14 | 70.5 |
| Msa0587050 | AT5G08480.2 | 34.225 | 187 | 85 | 6 | 11 | 188 | 12 | 169 | 4.41e-13 | 64.7 |
| Msa0587050 | AT5G08480.3 | 34.225 | 187 | 85 | 6 | 11 | 188 | 12 | 169 | 4.41e-13 | 64.7 |
| Msa0587050 | AT3G15300.1 | 32.663 | 199 | 84 | 8 | 16 | 186 | 37 | 213 | 1.36e-12 | 64.3 |
| Msa0587050 | AT2G33780.1 | 31.720 | 186 | 98 | 8 | 16 | 191 | 36 | 202 | 1.01e-11 | 61.6 |
| Msa0587050 | AT5G53830.1 | 34.146 | 205 | 95 | 11 | 16 | 190 | 49 | 243 | 2.54e-11 | 61.2 |
Find 43 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGTGGAGGACGGTGGGCT+TGG | 0.256659 | 4_2:-8533231 | None:intergenic |
| GAGGACGGTGGGCTTGGGCT+TGG | 0.257828 | 4_2:-8533225 | None:intergenic |
| CAACATGCGAAGTGTTATTA+TGG | 0.268568 | 4_2:+8533423 | Msa0587050:CDS |
| AGGACGGTGGGCTTGGGCTT+GGG | 0.306796 | 4_2:-8533224 | None:intergenic |
| TAATATTCCAATGGTGAAAC+TGG | 0.334222 | 4_2:-8533451 | None:intergenic |
| TGGTGGAGGACGGTGGGCTT+GGG | 0.338898 | 4_2:-8533230 | None:intergenic |
| TTGTGTTTGGTTGTGTTGTT+AGG | 0.343814 | 4_2:-8533087 | None:intergenic |
| GCTTGTACAAAGGTTGTGTT+TGG | 0.409951 | 4_2:-8533100 | None:intergenic |
| ACAACTTGTCGGAAATTTGA+TGG | 0.417823 | 4_2:-8533127 | None:intergenic |
| TAAGAATGAGATTGAGAGGA+AGG | 0.425929 | 4_2:-8533616 | None:intergenic |
| TCCACGGTGGTTGTTGTTGG+TGG | 0.432900 | 4_2:-8533247 | None:intergenic |
| GGTTCCACGGTGGTTGTTGT+TGG | 0.434592 | 4_2:-8533250 | None:intergenic |
| GCGTTCGTGGAGTTTGAAGT+TGG | 0.435488 | 4_2:-8533293 | None:intergenic |
| CGTTCGTGGAGTTTGAAGTT+GGG | 0.446220 | 4_2:-8533292 | None:intergenic |
| ACCATGCATTCACCAACATA+TGG | 0.465787 | 4_2:+8533058 | None:intergenic |
| GGCTTCACCAGTTTCACCAT+TGG | 0.477870 | 4_2:+8533444 | Msa0587050:CDS |
| TGTTGTTGGTGGAGGACGGT+GGG | 0.481918 | 4_2:-8533236 | None:intergenic |
| AAAACTCCAACTCAACGTTT+CGG | 0.499017 | 4_2:+8533324 | Msa0587050:CDS |
| AGACGAGAAGGGAGTGTGAG+TGG | 0.503781 | 4_2:-8533196 | None:intergenic |
| TGATGGGTCTTGTGATGCTC+CGG | 0.504118 | 4_2:-8533161 | None:intergenic |
| TGGTTGTTGTTGGTGGAGGA+CGG | 0.504487 | 4_2:-8533240 | None:intergenic |
| AACCACCGTGGAACCACCAA+TGG | 0.516664 | 4_2:+8533258 | Msa0587050:CDS |
| AATTTAAGAATGAGATTGAG+AGG | 0.526049 | 4_2:-8533620 | None:intergenic |
| ACGGTGGTTGTTGTTGGTGG+AGG | 0.531946 | 4_2:-8533244 | None:intergenic |
| GTTTGGTTGTGTTGTTAGGT+CGG | 0.535973 | 4_2:-8533083 | None:intergenic |
| GCTTGGGCTGTTAGACGAGA+AGG | 0.539771 | 4_2:-8533208 | None:intergenic |
| TTGTTGTTGGTGGAGGACGG+TGG | 0.540140 | 4_2:-8533237 | None:intergenic |
| TAAGCCCATTGGTGGTTCCA+CGG | 0.548092 | 4_2:-8533263 | None:intergenic |
| TGATGGGTCTGCTTGTACAA+AGG | 0.550070 | 4_2:-8533110 | None:intergenic |
| GGACTATAGTAATATTCCAA+TGG | 0.550459 | 4_2:-8533460 | None:intergenic |
| ACCACCGTGGAACCACCAAT+GGG | 0.551424 | 4_2:+8533259 | Msa0587050:CDS |
| CAACTTGTCGGAAATTTGAT+GGG | 0.562610 | 4_2:-8533126 | None:intergenic |
| TGTTGAGAAGCTCTAGGAGA+GGG | 0.563092 | 4_2:-8533553 | None:intergenic |
| TGAGAGGAAGGAGAATGCAA+AGG | 0.574115 | 4_2:-8533604 | None:intergenic |
| GGTTGTTGTTGAGAAGCTCT+AGG | 0.576546 | 4_2:-8533559 | None:intergenic |
| GTTAGGTCGGATCCATATGT+TGG | 0.606638 | 4_2:-8533070 | None:intergenic |
| AAAAGAGGTAAAAGTTCAGG+TGG | 0.608567 | 4_2:-8533580 | None:intergenic |
| TCCATATGTTGGTGAATGCA+TGG | 0.614670 | 4_2:-8533059 | None:intergenic |
| CTTGGGCTGTTAGACGAGAA+GGG | 0.624849 | 4_2:-8533207 | None:intergenic |
| TTGTTGAGAAGCTCTAGGAG+AGG | 0.644100 | 4_2:-8533554 | None:intergenic |
| GTTGAGAAGCTCTAGGAGAG+GGG | 0.657383 | 4_2:-8533552 | None:intergenic |
| GCCCATTGGTGGTTCCACGG+TGG | 0.677343 | 4_2:-8533260 | None:intergenic |
| TCCACCAACAACAACCACCG+TGG | 0.715505 | 4_2:+8533246 | Msa0587050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCTTTTTCTTCATTTTCATT+TGG | - | chr4_2:8533493-8533512 | None:intergenic | 20.0% |
| !!! | TTGTTGTTTTGAAACATCAT+GGG | - | chr4_2:8533355-8533374 | None:intergenic | 25.0% |
| !!! | TCATTTTCATTTGGTGATTT+TGG | - | chr4_2:8533484-8533503 | None:intergenic | 25.0% |
| !! | TTAGTTTTTGGACAACTTGT+CGG | - | chr4_2:8533141-8533160 | None:intergenic | 30.0% |
| !!! | GTTGTTGTTTTGAAACATCA+TGG | - | chr4_2:8533356-8533375 | None:intergenic | 30.0% |
| TAATATTCCAATGGTGAAAC+TGG | - | chr4_2:8533454-8533473 | None:intergenic | 30.0% | |
| GGACTATAGTAATATTCCAA+TGG | - | chr4_2:8533463-8533482 | None:intergenic | 30.0% | |
| GAAAAAGTGATAGCTGAAAA+AGG | + | chr4_2:8533517-8533536 | Msa0587050:CDS | 30.0% | |
| ! | TTGTGTTTGGTTGTGTTGTT+AGG | - | chr4_2:8533090-8533109 | None:intergenic | 35.0% |
| CAACTTGTCGGAAATTTGAT+GGG | - | chr4_2:8533129-8533148 | None:intergenic | 35.0% | |
| ACAACTTGTCGGAAATTTGA+TGG | - | chr4_2:8533130-8533149 | None:intergenic | 35.0% | |
| CAAGTTGTCCAAAAACTAAC+CGG | + | chr4_2:8533142-8533161 | Msa0587050:CDS | 35.0% | |
| !!! | TTGGGTTTTTTTAAGCCCAT+TGG | - | chr4_2:8533277-8533296 | None:intergenic | 35.0% |
| !!! | TGAGTTGGAGTTTTTTAGAG+CGG | - | chr4_2:8533318-8533337 | None:intergenic | 35.0% |
| AAAACTCCAACTCAACGTTT+CGG | + | chr4_2:8533324-8533343 | Msa0587050:CDS | 35.0% | |
| ! | CAACATGCGAAGTGTTATTA+TGG | + | chr4_2:8533423-8533442 | Msa0587050:CDS | 35.0% |
| AAAAGAGGTAAAAGTTCAGG+TGG | - | chr4_2:8533583-8533602 | None:intergenic | 35.0% | |
| GGAAAAAGAGGTAAAAGTTC+AGG | - | chr4_2:8533586-8533605 | None:intergenic | 35.0% | |
| TAAGAATGAGATTGAGAGGA+AGG | - | chr4_2:8533619-8533638 | None:intergenic | 35.0% | |
| ! | GTTTGGTTGTGTTGTTAGGT+CGG | - | chr4_2:8533086-8533105 | None:intergenic | 40.0% |
| GCTTGTACAAAGGTTGTGTT+TGG | - | chr4_2:8533103-8533122 | None:intergenic | 40.0% | |
| ! | GAGTGTGAGTGGAAGTTTTT+GGG | - | chr4_2:8533188-8533207 | None:intergenic | 40.0% |
| !!! | GGTTTTTTTAAGCCCATTGG+TGG | - | chr4_2:8533274-8533293 | None:intergenic | 40.0% |
| ! | GATTTTCCGAAACGTTGAGT+TGG | - | chr4_2:8533333-8533352 | None:intergenic | 40.0% |
| GGAGAATGCAAAGGAAAAAG+AGG | - | chr4_2:8533598-8533617 | None:intergenic | 40.0% | |
| GTTAGGTCGGATCCATATGT+TGG | - | chr4_2:8533073-8533092 | None:intergenic | 45.0% | |
| ! | TGATGGGTCTGCTTGTACAA+AGG | - | chr4_2:8533113-8533132 | None:intergenic | 45.0% |
| !!! | GTGATGCTCCGGTTAGTTTT+TGG | - | chr4_2:8533153-8533172 | None:intergenic | 45.0% |
| !! | GTGGAAGTTTTTGGGCTGAT+GGG | - | chr4_2:8533180-8533199 | None:intergenic | 45.0% |
| !! | AGTGGAAGTTTTTGGGCTGA+TGG | - | chr4_2:8533181-8533200 | None:intergenic | 45.0% |
| ! | GGAGTGTGAGTGGAAGTTTT+TGG | - | chr4_2:8533189-8533208 | None:intergenic | 45.0% |
| ! | CGTTCGTGGAGTTTGAAGTT+GGG | - | chr4_2:8533295-8533314 | None:intergenic | 45.0% |
| !! | TGTTGAGAAGCTCTAGGAGA+GGG | - | chr4_2:8533556-8533575 | None:intergenic | 45.0% |
| !! | TTGTTGAGAAGCTCTAGGAG+AGG | - | chr4_2:8533557-8533576 | None:intergenic | 45.0% |
| ! | GGTTGTTGTTGAGAAGCTCT+AGG | - | chr4_2:8533562-8533581 | None:intergenic | 45.0% |
| TGAGAGGAAGGAGAATGCAA+AGG | - | chr4_2:8533607-8533626 | None:intergenic | 45.0% | |
| ! | TGATGGGTCTTGTGATGCTC+CGG | - | chr4_2:8533164-8533183 | None:intergenic | 50.0% |
| CTTGGGCTGTTAGACGAGAA+GGG | - | chr4_2:8533210-8533229 | None:intergenic | 50.0% | |
| ! | TGGTTGTTGTTGGTGGAGGA+CGG | - | chr4_2:8533243-8533262 | None:intergenic | 50.0% |
| ! | TAAGCCCATTGGTGGTTCCA+CGG | - | chr4_2:8533266-8533285 | None:intergenic | 50.0% |
| ! | GCGTTCGTGGAGTTTGAAGT+TGG | - | chr4_2:8533296-8533315 | None:intergenic | 50.0% |
| !!! | GTTTTTTAGAGCGGCGTTCG+TGG | - | chr4_2:8533309-8533328 | None:intergenic | 50.0% |
| GGCTTCACCAGTTTCACCAT+TGG | + | chr4_2:8533444-8533463 | Msa0587050:CDS | 50.0% | |
| !! | GTTGAGAAGCTCTAGGAGAG+GGG | - | chr4_2:8533555-8533574 | None:intergenic | 50.0% |
| ! | AGACGAGAAGGGAGTGTGAG+TGG | - | chr4_2:8533199-8533218 | None:intergenic | 55.0% |
| GCTTGGGCTGTTAGACGAGA+AGG | - | chr4_2:8533211-8533230 | None:intergenic | 55.0% | |
| ! | TGTTGTTGGTGGAGGACGGT+GGG | - | chr4_2:8533239-8533258 | None:intergenic | 55.0% |
| ! | TTGTTGTTGGTGGAGGACGG+TGG | - | chr4_2:8533240-8533259 | None:intergenic | 55.0% |
| ! | ACGGTGGTTGTTGTTGGTGG+AGG | - | chr4_2:8533247-8533266 | None:intergenic | 55.0% |
| TCCACCAACAACAACCACCG+TGG | + | chr4_2:8533246-8533265 | Msa0587050:CDS | 55.0% | |
| ! | TCCACGGTGGTTGTTGTTGG+TGG | - | chr4_2:8533250-8533269 | None:intergenic | 55.0% |
| GGTTCCACGGTGGTTGTTGT+TGG | - | chr4_2:8533253-8533272 | None:intergenic | 55.0% | |
| AACCACCGTGGAACCACCAA+TGG | + | chr4_2:8533258-8533277 | Msa0587050:CDS | 55.0% | |
| ACCACCGTGGAACCACCAAT+GGG | + | chr4_2:8533259-8533278 | Msa0587050:CDS | 55.0% | |
| ! | AGGACGGTGGGCTTGGGCTT+GGG | - | chr4_2:8533227-8533246 | None:intergenic | 65.0% |
| ! | TGGTGGAGGACGGTGGGCTT+GGG | - | chr4_2:8533233-8533252 | None:intergenic | 65.0% |
| ! | TTGGTGGAGGACGGTGGGCT+TGG | - | chr4_2:8533234-8533253 | None:intergenic | 65.0% |
| ! | GCCCATTGGTGGTTCCACGG+TGG | - | chr4_2:8533263-8533282 | None:intergenic | 65.0% |
| ! | GAGGACGGTGGGCTTGGGCT+TGG | - | chr4_2:8533228-8533247 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 8533061 | 8533639 | 8533061 | ID=Msa0587050;Name=Msa0587050 |
| chr4_2 | mRNA | 8533061 | 8533639 | 8533061 | ID=Msa0587050-mRNA-1;Parent=Msa0587050;Name=Msa0587050-mRNA-1;_AED=0.00;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|192 |
| chr4_2 | exon | 8533061 | 8533639 | 8533061 | ID=Msa0587050-mRNA-1:exon:2276;Parent=Msa0587050-mRNA-1 |
| chr4_2 | CDS | 8533061 | 8533639 | 8533061 | ID=Msa0587050-mRNA-1:cds;Parent=Msa0587050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
