Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56050.t1 | XP_024632130.1 | 94.4 | 198 | 11 | 0 | 1 | 198 | 76 | 273 | 3.20E-103 | 384.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56050.t1 | Q08298 | 57.4 | 188 | 77 | 3 | 13 | 197 | 204 | 391 | 6.1e-55 | 215.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56050.t1 | G7I4D1 | 94.4 | 198 | 11 | 0 | 1 | 198 | 116 | 313 | 2.3e-103 | 384.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene059439 | MS.gene56050 | 0.802118 | 6.53E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56050.t1 | MTR_1g008450 | 94.444 | 198 | 11 | 0 | 1 | 198 | 116 | 313 | 8.51e-140 | 392 |
| MS.gene56050.t1 | MTR_1g008470 | 79.798 | 198 | 40 | 0 | 1 | 198 | 103 | 300 | 1.17e-116 | 333 |
| MS.gene56050.t1 | MTR_1g008500 | 78.109 | 201 | 41 | 3 | 1 | 198 | 185 | 385 | 1.54e-107 | 313 |
| MS.gene56050.t1 | MTR_0312s0030 | 75.377 | 199 | 48 | 1 | 1 | 198 | 127 | 325 | 4.22e-107 | 310 |
| MS.gene56050.t1 | MTR_1g007520 | 75.377 | 199 | 48 | 1 | 1 | 198 | 127 | 325 | 4.22e-107 | 310 |
| MS.gene56050.t1 | MTR_1g008590 | 74.874 | 199 | 49 | 1 | 1 | 198 | 127 | 325 | 5.43e-107 | 310 |
| MS.gene56050.t1 | MTR_1g008530 | 73.500 | 200 | 51 | 2 | 1 | 198 | 25 | 224 | 1.10e-106 | 305 |
| MS.gene56050.t1 | MTR_1g008460 | 75.253 | 198 | 46 | 1 | 1 | 198 | 103 | 297 | 5.70e-106 | 306 |
| MS.gene56050.t1 | MTR_1g008560 | 74.752 | 202 | 47 | 3 | 1 | 198 | 129 | 330 | 1.29e-105 | 306 |
| MS.gene56050.t1 | MTR_1g008510 | 75.000 | 200 | 46 | 3 | 1 | 198 | 129 | 326 | 3.57e-105 | 305 |
| MS.gene56050.t1 | MTR_1g008580 | 75.439 | 171 | 40 | 2 | 29 | 197 | 1 | 171 | 7.37e-92 | 266 |
| MS.gene56050.t1 | MTR_3g109490 | 54.500 | 200 | 85 | 4 | 1 | 195 | 121 | 319 | 1.73e-74 | 227 |
| MS.gene56050.t1 | MTR_3g107830 | 41.753 | 194 | 108 | 2 | 10 | 198 | 63 | 256 | 2.49e-51 | 166 |
| MS.gene56050.t1 | MTR_4g069680 | 41.753 | 194 | 108 | 3 | 10 | 198 | 94 | 287 | 3.07e-51 | 167 |
| MS.gene56050.t1 | MTR_3g116410 | 39.896 | 193 | 111 | 2 | 11 | 198 | 84 | 276 | 2.02e-49 | 162 |
| MS.gene56050.t1 | MTR_3g116380 | 40.816 | 196 | 110 | 3 | 5 | 195 | 106 | 300 | 3.56e-48 | 159 |
| MS.gene56050.t1 | MTR_3g116270 | 39.362 | 188 | 109 | 2 | 13 | 195 | 316 | 503 | 1.93e-42 | 149 |
| MS.gene56050.t1 | MTR_3g116320 | 40.426 | 188 | 107 | 2 | 13 | 195 | 498 | 685 | 3.24e-42 | 150 |
| MS.gene56050.t1 | MTR_8g064500 | 38.725 | 204 | 112 | 6 | 1 | 195 | 171 | 370 | 3.33e-39 | 138 |
| MS.gene56050.t1 | MTR_4g069040 | 35.263 | 190 | 116 | 4 | 13 | 195 | 318 | 507 | 3.71e-38 | 137 |
| MS.gene56050.t1 | MTR_4g069570 | 34.737 | 190 | 117 | 4 | 13 | 195 | 144 | 333 | 2.48e-37 | 132 |
| MS.gene56050.t1 | MTR_8g064560 | 37.696 | 191 | 108 | 5 | 12 | 195 | 437 | 623 | 5.28e-36 | 132 |
| MS.gene56050.t1 | MTR_4g069550 | 34.737 | 190 | 117 | 4 | 13 | 195 | 271 | 460 | 1.32e-35 | 130 |
| MS.gene56050.t1 | MTR_4g069520 | 34.737 | 190 | 117 | 4 | 13 | 195 | 531 | 720 | 2.09e-34 | 129 |
| MS.gene56050.t1 | MTR_4g069520 | 34.737 | 190 | 117 | 4 | 13 | 195 | 517 | 706 | 2.12e-34 | 129 |
| MS.gene56050.t1 | MTR_5g034320 | 34.737 | 190 | 115 | 5 | 12 | 195 | 440 | 626 | 5.52e-34 | 127 |
| MS.gene56050.t1 | MTR_8g445170 | 40.816 | 147 | 82 | 4 | 49 | 195 | 240 | 381 | 1.90e-32 | 120 |
| MS.gene56050.t1 | MTR_8g064530 | 35.938 | 192 | 114 | 5 | 12 | 197 | 454 | 642 | 2.39e-32 | 122 |
| MS.gene56050.t1 | MTR_6g086530 | 32.143 | 196 | 125 | 5 | 11 | 198 | 11 | 206 | 2.82e-32 | 115 |
| MS.gene56050.t1 | MTR_3g078090 | 36.316 | 190 | 112 | 5 | 12 | 195 | 438 | 624 | 6.63e-32 | 121 |
| MS.gene56050.t1 | MTR_8g045890 | 45.522 | 134 | 68 | 4 | 62 | 195 | 301 | 429 | 6.94e-32 | 119 |
| MS.gene56050.t1 | MTR_8g045890 | 45.522 | 134 | 68 | 4 | 62 | 195 | 342 | 470 | 1.18e-31 | 119 |
| MS.gene56050.t1 | MTR_8g045890 | 45.522 | 134 | 68 | 4 | 62 | 195 | 379 | 507 | 1.67e-31 | 119 |
| MS.gene56050.t1 | MTR_8g445140 | 41.791 | 134 | 73 | 4 | 62 | 195 | 172 | 300 | 4.21e-30 | 112 |
| MS.gene56050.t1 | MTR_8g046000 | 42.222 | 135 | 73 | 4 | 62 | 196 | 92 | 221 | 1.36e-29 | 109 |
| MS.gene56050.t1 | MTR_8g045880 | 44.030 | 134 | 70 | 4 | 62 | 195 | 184 | 312 | 2.02e-29 | 111 |
| MS.gene56050.t1 | MTR_8g045880 | 44.030 | 134 | 70 | 4 | 62 | 195 | 219 | 347 | 3.83e-29 | 111 |
| MS.gene56050.t1 | MTR_8g045880 | 44.030 | 134 | 70 | 4 | 62 | 195 | 221 | 349 | 4.24e-29 | 111 |
| MS.gene56050.t1 | MTR_4g133840 | 32.461 | 191 | 104 | 5 | 12 | 195 | 14 | 186 | 2.35e-27 | 102 |
| MS.gene56050.t1 | MTR_2g081610 | 36.709 | 158 | 87 | 6 | 39 | 195 | 112 | 257 | 6.21e-27 | 103 |
| MS.gene56050.t1 | MTR_2g081770 | 34.375 | 160 | 86 | 7 | 48 | 195 | 116 | 268 | 1.83e-25 | 100 |
| MS.gene56050.t1 | MTR_1g045860 | 34.270 | 178 | 105 | 7 | 25 | 195 | 85 | 257 | 2.70e-25 | 99.4 |
| MS.gene56050.t1 | MTR_8g044290 | 44.444 | 108 | 56 | 3 | 55 | 162 | 229 | 332 | 6.88e-24 | 98.2 |
| MS.gene56050.t1 | MTR_5g033350 | 29.500 | 200 | 134 | 4 | 1 | 195 | 1 | 198 | 1.10e-23 | 93.6 |
| MS.gene56050.t1 | MTR_5g033340 | 30.198 | 202 | 132 | 5 | 1 | 195 | 178 | 377 | 1.95e-23 | 96.3 |
| MS.gene56050.t1 | MTR_5g033340 | 29.114 | 158 | 101 | 5 | 31 | 183 | 2 | 153 | 2.17e-15 | 73.6 |
| MS.gene56050.t1 | MTR_2g081590 | 35.556 | 135 | 82 | 4 | 61 | 195 | 128 | 257 | 2.17e-23 | 94.4 |
| MS.gene56050.t1 | MTR_1g008420 | 80.769 | 52 | 10 | 0 | 1 | 52 | 148 | 199 | 1.41e-20 | 85.9 |
| MS.gene56050.t1 | MTR_5g033330 | 29.208 | 202 | 134 | 5 | 1 | 195 | 417 | 616 | 2.23e-20 | 88.6 |
| MS.gene56050.t1 | MTR_5g033330 | 29.474 | 190 | 121 | 6 | 1 | 183 | 209 | 392 | 5.71e-19 | 84.3 |
| MS.gene56050.t1 | MTR_5g033330 | 29.474 | 190 | 121 | 6 | 1 | 183 | 1 | 184 | 1.01e-18 | 83.6 |
| MS.gene56050.t1 | MTR_4g068420 | 32.331 | 133 | 72 | 5 | 66 | 195 | 1 | 118 | 2.19e-18 | 77.8 |
| MS.gene56050.t1 | MTR_5g033360 | 28.079 | 203 | 117 | 7 | 1 | 195 | 39 | 220 | 2.62e-16 | 74.7 |
| MS.gene56050.t1 | MTR_8g075930 | 39.726 | 73 | 40 | 2 | 117 | 186 | 16 | 87 | 1.14e-14 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56050.t1 | AT5G25610 | 57.143 | 189 | 78 | 3 | 12 | 197 | 203 | 391 | 3.66e-71 | 221 |
| MS.gene56050.t1 | AT1G49320 | 36.364 | 198 | 116 | 3 | 11 | 198 | 83 | 280 | 7.11e-43 | 145 |
| MS.gene56050.t1 | AT1G60390 | 36.275 | 204 | 117 | 5 | 1 | 195 | 421 | 620 | 2.16e-34 | 128 |
| MS.gene56050.t1 | AT1G70370 | 35.450 | 189 | 115 | 3 | 12 | 195 | 436 | 622 | 2.34e-32 | 122 |
| MS.gene56050.t1 | AT1G70370 | 35.450 | 189 | 115 | 3 | 12 | 195 | 436 | 622 | 2.34e-32 | 122 |
| MS.gene56050.t1 | AT1G23760 | 34.392 | 189 | 117 | 4 | 12 | 195 | 432 | 618 | 1.54e-30 | 117 |
Find 39 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCACTTTGTTTGATGAAAA+TGG | 0.206491 | 1.3:+11432312 | None:intergenic |
| AGCAAACAGAGTGAAGAAAA+TGG | 0.310868 | 1.3:-11432067 | MS.gene56050:CDS |
| TTCCGTCGATCCTTGCTTGA+TGG | 0.311634 | 1.3:+11432269 | None:intergenic |
| CAAGTGCTCAAAGTTCAAAA+AGG | 0.316009 | 1.3:-11431862 | MS.gene56050:CDS |
| TGTGACATCATTGGAATCTA+TGG | 0.323363 | 1.3:-11432178 | MS.gene56050:CDS |
| ACTTGAAAAGCCAAATGTTT+AGG | 0.337232 | 1.3:+11431880 | None:intergenic |
| ACTGTTTCAACAGAAGTAAA+TGG | 0.374289 | 1.3:-11432117 | MS.gene56050:CDS |
| GAAAATGGGAGAGAACAATT+TGG | 0.374965 | 1.3:-11432052 | MS.gene56050:CDS |
| TACAACAGGGTCAAGTTGTT+TGG | 0.384712 | 1.3:-11431816 | MS.gene56050:CDS |
| ACAATGGAGTCCTAAACATT+TGG | 0.392896 | 1.3:-11431890 | MS.gene56050:CDS |
| TGACAGTAAAACACTGCATA+AGG | 0.401155 | 1.3:+11432006 | None:intergenic |
| AAAGCTTTGTGTGACATCAT+TGG | 0.404983 | 1.3:-11432187 | MS.gene56050:CDS |
| AAACAACTTGACCCTGTTGT+AGG | 0.414196 | 1.3:+11431818 | None:intergenic |
| AGTTTGCCACATCCTACAAC+AGG | 0.427433 | 1.3:-11431830 | MS.gene56050:CDS |
| TTGCCTCTGGAAGGTGCTGA+TGG | 0.457330 | 1.3:-11431955 | MS.gene56050:CDS |
| TGTTGTAGGATGTGGCAAAC+TGG | 0.462952 | 1.3:+11431832 | None:intergenic |
| CATAAGGGTAATTCCGTTTG+TGG | 0.469316 | 1.3:+11432022 | None:intergenic |
| GCAAACAGAGTGAAGAAAAT+GGG | 0.469711 | 1.3:-11432066 | MS.gene56050:CDS |
| ATTTGGTTGTGTGCCACAAA+CGG | 0.476684 | 1.3:-11432035 | MS.gene56050:CDS |
| GATTTCACTACTTCGAAGCT+TGG | 0.477610 | 1.3:-11432153 | MS.gene56050:CDS |
| TAAAGTGTACTCTTTGCCTC+TGG | 0.484430 | 1.3:-11431968 | MS.gene56050:CDS |
| GCTTGATGGAGAAGTAGTTA+AGG | 0.487051 | 1.3:+11432283 | None:intergenic |
| TTTGTTTGATGAAAATGGTA+TGG | 0.490197 | 1.3:+11432317 | None:intergenic |
| ATAAGTGAGTGTGAAGCATA+TGG | 0.510314 | 1.3:-11432225 | MS.gene56050:CDS |
| GACAGTAAAACACTGCATAA+GGG | 0.527238 | 1.3:+11432007 | None:intergenic |
| ACAGAAGTAAATGGAGAAAG+TGG | 0.530769 | 1.3:-11432108 | MS.gene56050:CDS |
| TGTGAAGCATATGGTATCAA+AGG | 0.543560 | 1.3:-11432216 | MS.gene56050:CDS |
| CTCCATCAAGCAAGGATCGA+CGG | 0.567679 | 1.3:-11432271 | MS.gene56050:CDS |
| GTGTACTCTTTGCCTCTGGA+AGG | 0.594455 | 1.3:-11431964 | MS.gene56050:CDS |
| AACTACTTCTCCATCAAGCA+AGG | 0.596765 | 1.3:-11432279 | MS.gene56050:CDS |
| CTTGACCCTGTTGTAGGATG+TGG | 0.602810 | 1.3:+11431824 | None:intergenic |
| GAGGCAAGAATGTTGGTCCA+TGG | 0.603479 | 1.3:+11432355 | None:intergenic |
| ATGGAATTAGCAACGTCGCG+AGG | 0.606572 | 1.3:+11432336 | None:intergenic |
| ACGTCGCGAGGCAAGAATGT+TGG | 0.624134 | 1.3:+11432348 | None:intergenic |
| AGCATATGGTATCAAAGGAG+AGG | 0.627493 | 1.3:-11432211 | MS.gene56050:CDS |
| CTTCCATCAGCACCTTCCAG+AGG | 0.659408 | 1.3:+11431952 | None:intergenic |
| TTCACAAAGACATCAGACCA+TGG | 0.689219 | 1.3:-11432372 | MS.gene56050:CDS |
| GTCACACTGATACTTCACAA+TGG | 0.703281 | 1.3:-11431906 | MS.gene56050:CDS |
| GTTTGCCACATCCTACAACA+GGG | 0.745484 | 1.3:-11431829 | MS.gene56050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTTGTTTGATGAAAATGGTA+TGG | + | chr1.3:11431868-11431887 | None:intergenic | 25.0% |
| ACTGTTTCAACAGAAGTAAA+TGG | - | chr1.3:11432065-11432084 | MS.gene56050:CDS | 30.0% | |
| ACTTGAAAAGCCAAATGTTT+AGG | + | chr1.3:11432305-11432324 | None:intergenic | 30.0% | |
| ! | ACCATTTTCATCAAACAAAG+TGG | - | chr1.3:11431869-11431888 | MS.gene56050:CDS | 30.0% |
| ! | TCCACTTTGTTTGATGAAAA+TGG | + | chr1.3:11431873-11431892 | None:intergenic | 30.0% |
| ACAATGGAGTCCTAAACATT+TGG | - | chr1.3:11432292-11432311 | MS.gene56050:CDS | 35.0% | |
| ACAGAAGTAAATGGAGAAAG+TGG | - | chr1.3:11432074-11432093 | MS.gene56050:CDS | 35.0% | |
| AGCAAACAGAGTGAAGAAAA+TGG | - | chr1.3:11432115-11432134 | MS.gene56050:CDS | 35.0% | |
| ATAAGTGAGTGTGAAGCATA+TGG | - | chr1.3:11431957-11431976 | MS.gene56050:CDS | 35.0% | |
| CAAGTGCTCAAAGTTCAAAA+AGG | - | chr1.3:11432320-11432339 | MS.gene56050:CDS | 35.0% | |
| GAAAATGGGAGAGAACAATT+TGG | - | chr1.3:11432130-11432149 | MS.gene56050:CDS | 35.0% | |
| GACAGTAAAACACTGCATAA+GGG | + | chr1.3:11432178-11432197 | None:intergenic | 35.0% | |
| GCAAACAGAGTGAAGAAAAT+GGG | - | chr1.3:11432116-11432135 | MS.gene56050:CDS | 35.0% | |
| TGACAGTAAAACACTGCATA+AGG | + | chr1.3:11432179-11432198 | None:intergenic | 35.0% | |
| TGTGAAGCATATGGTATCAA+AGG | - | chr1.3:11431966-11431985 | MS.gene56050:CDS | 35.0% | |
| TGTGACATCATTGGAATCTA+TGG | - | chr1.3:11432004-11432023 | MS.gene56050:CDS | 35.0% | |
| ! | AAAGCTTTGTGTGACATCAT+TGG | - | chr1.3:11431995-11432014 | MS.gene56050:CDS | 35.0% |
| AAACAACTTGACCCTGTTGT+AGG | + | chr1.3:11432367-11432386 | None:intergenic | 40.0% | |
| AACTACTTCTCCATCAAGCA+AGG | - | chr1.3:11431903-11431922 | MS.gene56050:CDS | 40.0% | |
| AGCATATGGTATCAAAGGAG+AGG | - | chr1.3:11431971-11431990 | MS.gene56050:CDS | 40.0% | |
| ATTTGGTTGTGTGCCACAAA+CGG | - | chr1.3:11432147-11432166 | MS.gene56050:CDS | 40.0% | |
| CATAAGGGTAATTCCGTTTG+TGG | + | chr1.3:11432163-11432182 | None:intergenic | 40.0% | |
| GATTTCACTACTTCGAAGCT+TGG | - | chr1.3:11432029-11432048 | MS.gene56050:CDS | 40.0% | |
| GCTTGATGGAGAAGTAGTTA+AGG | + | chr1.3:11431902-11431921 | None:intergenic | 40.0% | |
| GTCACACTGATACTTCACAA+TGG | - | chr1.3:11432276-11432295 | MS.gene56050:CDS | 40.0% | |
| TAAAGTGTACTCTTTGCCTC+TGG | - | chr1.3:11432214-11432233 | MS.gene56050:CDS | 40.0% | |
| TTCACAAAGACATCAGACCA+TGG | - | chr1.3:11431810-11431829 | MS.gene56050:CDS | 40.0% | |
| ! | TACAACAGGGTCAAGTTGTT+TGG | - | chr1.3:11432366-11432385 | MS.gene56050:CDS | 40.0% |
| AGTTTGCCACATCCTACAAC+AGG | - | chr1.3:11432352-11432371 | MS.gene56050:CDS | 45.0% | |
| GTTTGCCACATCCTACAACA+GGG | - | chr1.3:11432353-11432372 | MS.gene56050:CDS | 45.0% | |
| TGTTGTAGGATGTGGCAAAC+TGG | + | chr1.3:11432353-11432372 | None:intergenic | 45.0% | |
| ATGGAATTAGCAACGTCGCG+AGG | + | chr1.3:11431849-11431868 | None:intergenic | 50.0% | |
| CTCCATCAAGCAAGGATCGA+CGG | - | chr1.3:11431911-11431930 | MS.gene56050:CDS | 50.0% | |
| CTTGACCCTGTTGTAGGATG+TGG | + | chr1.3:11432361-11432380 | None:intergenic | 50.0% | |
| GAGGCAAGAATGTTGGTCCA+TGG | + | chr1.3:11431830-11431849 | None:intergenic | 50.0% | |
| GTGTACTCTTTGCCTCTGGA+AGG | - | chr1.3:11432218-11432237 | MS.gene56050:CDS | 50.0% | |
| TTCCGTCGATCCTTGCTTGA+TGG | + | chr1.3:11431916-11431935 | None:intergenic | 50.0% | |
| ACGTCGCGAGGCAAGAATGT+TGG | + | chr1.3:11431837-11431856 | None:intergenic | 55.0% | |
| CTTCCATCAGCACCTTCCAG+AGG | + | chr1.3:11432233-11432252 | None:intergenic | 55.0% | |
| !! | TTGCCTCTGGAAGGTGCTGA+TGG | - | chr1.3:11432227-11432246 | MS.gene56050:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 11431804 | 11432400 | 11431804 | ID=MS.gene56050 |
| chr1.3 | mRNA | 11431804 | 11432400 | 11431804 | ID=MS.gene56050.t1;Parent=MS.gene56050 |
| chr1.3 | exon | 11431804 | 11432400 | 11431804 | ID=MS.gene56050.t1.exon1;Parent=MS.gene56050.t1 |
| chr1.3 | CDS | 11431804 | 11432400 | 11431804 | ID=cds.MS.gene56050.t1;Parent=MS.gene56050.t1 |
| Gene Sequence |
| Protein sequence |
