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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029040.01.T01 | XP_024640745.2 | 73.154 | 298 | 16 | 3 | 7 | 240 | 162 | 459 | 2.06E-131 | 389 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029040.01.T01 | Q9LXJ6 | 26.199 | 271 | 131 | 10 | 7 | 215 | 153 | 416 | 3.71E-11 | 65.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029040.01.T01 | G7KGV2 | 73.154 | 298 | 16 | 3 | 7 | 240 | 162 | 459 | 9.84e-132 | 389 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029040.01.T01 | MTR_5g080710 | 73.154 | 298 | 16 | 3 | 7 | 240 | 162 | 459 | 2.50e-135 | 389 |
| MsG0580029040.01.T01 | MTR_5g084070 | 59.441 | 286 | 56 | 3 | 7 | 232 | 139 | 424 | 5.88e-100 | 298 |
| MsG0580029040.01.T01 | MTR_5g007410 | 31.489 | 235 | 132 | 7 | 19 | 228 | 171 | 401 | 1.27e-16 | 78.6 |
| MsG0580029040.01.T01 | MTR_6g045333 | 29.032 | 248 | 131 | 10 | 21 | 235 | 211 | 446 | 2.47e-15 | 75.1 |
| MsG0580029040.01.T01 | MTR_8g062080 | 33.099 | 142 | 91 | 3 | 95 | 234 | 305 | 444 | 2.84e-14 | 72.0 |
| MsG0580029040.01.T01 | MTR_8g014260 | 31.401 | 207 | 113 | 6 | 49 | 228 | 240 | 444 | 3.17e-14 | 71.6 |
| MsG0580029040.01.T01 | MTR_2g007450 | 30.496 | 141 | 84 | 3 | 98 | 233 | 287 | 418 | 4.95e-14 | 71.2 |
| MsG0580029040.01.T01 | MTR_7g075820 | 37.121 | 132 | 70 | 5 | 100 | 227 | 264 | 386 | 8.69e-14 | 70.5 |
| MsG0580029040.01.T01 | MTR_2g036470 | 28.632 | 234 | 148 | 6 | 21 | 235 | 163 | 396 | 1.65e-13 | 69.3 |
| MsG0580029040.01.T01 | MTR_7g007080 | 32.794 | 247 | 118 | 11 | 15 | 232 | 149 | 376 | 1.75e-12 | 66.6 |
| MsG0580029040.01.T01 | MTR_8g077460 | 34.091 | 132 | 84 | 3 | 103 | 234 | 246 | 374 | 4.84e-12 | 65.1 |
| MsG0580029040.01.T01 | MTR_8g058965 | 31.690 | 142 | 95 | 2 | 94 | 234 | 315 | 455 | 5.60e-12 | 65.1 |
| MsG0580029040.01.T01 | MTR_8g467800 | 29.680 | 219 | 112 | 9 | 53 | 234 | 239 | 452 | 7.25e-12 | 64.7 |
| MsG0580029040.01.T01 | MTR_4g024710 | 35.606 | 132 | 82 | 3 | 103 | 234 | 218 | 346 | 9.52e-12 | 64.3 |
| MsG0580029040.01.T01 | MTR_8g014210 | 39.796 | 98 | 57 | 2 | 130 | 227 | 128 | 223 | 2.00e-11 | 62.4 |
| MsG0580029040.01.T01 | MTR_3g071850 | 33.071 | 127 | 81 | 3 | 105 | 227 | 275 | 401 | 3.08e-11 | 63.2 |
| MsG0580029040.01.T01 | MTR_8g062010 | 32.168 | 143 | 93 | 3 | 94 | 234 | 289 | 429 | 3.76e-11 | 62.8 |
| MsG0580029040.01.T01 | MTR_5g045170 | 32.258 | 124 | 83 | 1 | 105 | 227 | 260 | 383 | 3.96e-11 | 62.4 |
| MsG0580029040.01.T01 | MTR_5g039490 | 28.870 | 239 | 128 | 8 | 12 | 233 | 161 | 374 | 5.80e-11 | 62.0 |
| MsG0580029040.01.T01 | MTR_3g109982 | 29.958 | 237 | 134 | 8 | 15 | 227 | 240 | 468 | 6.00e-11 | 62.4 |
| MsG0580029040.01.T01 | MTR_5g008950 | 33.036 | 112 | 68 | 3 | 98 | 203 | 225 | 335 | 8.93e-11 | 61.2 |
| MsG0580029040.01.T01 | MTR_5g031970 | 28.821 | 229 | 135 | 11 | 7 | 227 | 140 | 348 | 9.28e-11 | 61.2 |
| MsG0580029040.01.T01 | MTR_0492s0020 | 29.469 | 207 | 117 | 7 | 16 | 202 | 220 | 417 | 9.68e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580029040.01.T01 | AT5G44850 | 30.172 | 232 | 137 | 6 | 19 | 232 | 104 | 328 | 3.95e-17 | 79.3 |
| MsG0580029040.01.T01 | AT5G56452 | 29.381 | 194 | 121 | 3 | 55 | 232 | 31 | 224 | 1.14e-14 | 71.2 |
| MsG0580029040.01.T01 | AT5G56452 | 29.534 | 193 | 121 | 3 | 55 | 232 | 31 | 223 | 3.61e-14 | 69.7 |
| MsG0580029040.01.T01 | AT3G52680 | 26.199 | 271 | 131 | 10 | 7 | 215 | 153 | 416 | 3.79e-12 | 65.9 |
| MsG0580029040.01.T01 | AT3G53550 | 26.695 | 236 | 144 | 7 | 7 | 237 | 32 | 243 | 6.61e-12 | 63.9 |
| MsG0580029040.01.T01 | AT5G38590 | 30.723 | 166 | 97 | 3 | 55 | 202 | 218 | 383 | 8.78e-12 | 64.7 |
| MsG0580029040.01.T01 | AT5G56325 | 29.515 | 227 | 132 | 6 | 21 | 227 | 38 | 256 | 2.95e-11 | 62.0 |
| MsG0580029040.01.T01 | AT1G51055 | 31.707 | 123 | 76 | 2 | 110 | 228 | 36 | 154 | 3.21e-11 | 60.5 |
Find 33 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTTCAAAGTTGTTCTTGA+TGG | 0.281680 | 5:+90805416 | MsG0580029040.01.T01:CDS |
| TATGTGATAATGAAATTAAA+TGG | 0.320057 | 5:+90805155 | MsG0580029040.01.T01:CDS |
| TTAACTATGTGGTTGAGAAT+TGG | 0.340238 | 5:+90804539 | MsG0580029040.01.T01:CDS |
| ATCTCTAGAAATTCTAGATT+GGG | 0.356709 | 5:-90805014 | None:intergenic |
| TAACTATGTGGTTGAGAATT+GGG | 0.360178 | 5:+90804540 | MsG0580029040.01.T01:CDS |
| AGTAAGGTGTGATGAAAGAC+AGG | 0.391940 | 5:-90805200 | None:intergenic |
| AATCTCTAGAAATTCTAGAT+TGG | 0.400341 | 5:-90805015 | None:intergenic |
| CAAGAGCCTCAAAAGATAAC+AGG | 0.418723 | 5:+90805383 | MsG0580029040.01.T01:CDS |
| TGCAAAACACTCACCGTTTG+AGG | 0.420473 | 5:+90804218 | MsG0580029040.01.T01:CDS |
| CTCACCGTTTGAGGTTGGTT+GGG | 0.429474 | 5:+90804227 | MsG0580029040.01.T01:CDS |
| AATTTGAAAGAAGCACATAT+TGG | 0.438612 | 5:+90804565 | MsG0580029040.01.T01:CDS |
| ACAGCATCACTTGTCTCGCT+TGG | 0.458909 | 5:-90805340 | None:intergenic |
| TTTATATTCAAAGATTATGA+AGG | 0.479730 | 5:+90805226 | MsG0580029040.01.T01:CDS |
| CAACTAGAAAATATGAATCA+AGG | 0.499732 | 5:-90804971 | None:intergenic |
| CGAGACAAGTGATGCTGTGT+TGG | 0.503877 | 5:+90805345 | MsG0580029040.01.T01:CDS |
| CCTTGTGATGAAAGAAACTA+AGG | 0.507927 | 5:+90804513 | MsG0580029040.01.T01:CDS |
| ATGTCCCAACCAACCTCAAA+CGG | 0.509209 | 5:-90804231 | None:intergenic |
| CTTTGAATATAAAAGTAGTA+AGG | 0.509367 | 5:-90805216 | None:intergenic |
| AGAATTTCTAGAGATTATCA+AGG | 0.510852 | 5:+90805022 | MsG0580029040.01.T01:CDS |
| AGATGCAAAATCTTCAACAT+AGG | 0.516127 | 5:-90804286 | None:intergenic |
| ATGATGATGATGCTGTTATG+AGG | 0.516884 | 5:+90804335 | MsG0580029040.01.T01:CDS |
| ACTCACCGTTTGAGGTTGGT+TGG | 0.518126 | 5:+90804226 | MsG0580029040.01.T01:CDS |
| CCTTAGTTTCTTTCATCACA+AGG | 0.539193 | 5:-90804513 | None:intergenic |
| AGACAGGTAGGTACTATTGT+TGG | 0.545321 | 5:-90805184 | None:intergenic |
| GAGACAAGTGATGCTGTGTT+GGG | 0.556083 | 5:+90805346 | MsG0580029040.01.T01:CDS |
| AAACACTCACCGTTTGAGGT+TGG | 0.580291 | 5:+90804222 | MsG0580029040.01.T01:CDS |
| GCTACTCTCAAAATAAATTG+TGG | 0.580902 | 5:-90805311 | None:intergenic |
| ATTCAAAGATTATGAAGGCA+CGG | 0.583985 | 5:+90805231 | MsG0580029040.01.T01:CDS |
| AACTAAGGCGATTAACTATG+TGG | 0.593474 | 5:+90804528 | MsG0580029040.01.T01:CDS |
| ATAGGAAGATGAACATGAGA+AGG | 0.594517 | 5:-90804268 | None:intergenic |
| ATCACAAGGTACTCAAGAAG+AGG | 0.610197 | 5:-90804499 | None:intergenic |
| TCTCTAGAAATTCTAGATTG+GGG | 0.630618 | 5:-90805013 | None:intergenic |
| AGGTGTGATGAAAGACAGGT+AGG | 0.635837 | 5:-90805196 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAAAAAGTAAAAGAAAATA+TGG | + | Chr5:90804609-90804628 | MsG0580029040.01.T01:intron | 10.0% |
| !!! | AGAAAAGTATATTATATATA+AGG | + | Chr5:90804793-90804812 | MsG0580029040.01.T01:intron | 10.0% |
| !!! | TTTTATTTTCATAATCAAAA+TGG | - | Chr5:90804594-90804613 | None:intergenic | 10.0% |
| !! | TTTATATTCAAAGATTATGA+AGG | + | Chr5:90805226-90805245 | MsG0580029040.01.T01:CDS | 15.0% |
| !!! | ATAAGTTACATTTTAAATAG+TGG | + | Chr5:90805271-90805290 | MsG0580029040.01.T01:CDS | 15.0% |
| !!! | TATGTGATAATGAAATTAAA+TGG | + | Chr5:90805155-90805174 | MsG0580029040.01.T01:CDS | 15.0% |
| !!! | TTATTTTTACTTTGTTTCAT+TGG | + | Chr5:90805086-90805105 | MsG0580029040.01.T01:intron | 15.0% |
| !! | CTTTGAATATAAAAGTAGTA+AGG | - | Chr5:90805219-90805238 | None:intergenic | 20.0% |
| !!! | ATTTTCAACATTTGATCATT+TGG | + | Chr5:90804923-90804942 | MsG0580029040.01.T01:CDS | 20.0% |
| !!! | TTTTCAACATTTGATCATTT+GGG | + | Chr5:90804924-90804943 | MsG0580029040.01.T01:CDS | 20.0% |
| ! | ACATTCCTATACTAAAAACA+TGG | - | Chr5:90804837-90804856 | None:intergenic | 25.0% |
| ! | CAACTAGAAAATATGAATCA+AGG | - | Chr5:90804974-90804993 | None:intergenic | 25.0% |
| ! | CATTCCTATACTAAAAACAT+GGG | - | Chr5:90804836-90804855 | None:intergenic | 25.0% |
| ! | TACAAATAAGCAAAGAAATC+TGG | - | Chr5:90804662-90804681 | None:intergenic | 25.0% |
| !! | AATATGGCAAATCTTTTCAA+TGG | + | Chr5:90804625-90804644 | MsG0580029040.01.T01:intron | 25.0% |
| !! | AATCTCTAGAAATTCTAGAT+TGG | - | Chr5:90805018-90805037 | None:intergenic | 25.0% |
| !! | AATTTGAAAGAAGCACATAT+TGG | + | Chr5:90804565-90804584 | MsG0580029040.01.T01:CDS | 25.0% |
| !! | AGAATTTCTAGAGATTATCA+AGG | + | Chr5:90805022-90805041 | MsG0580029040.01.T01:CDS | 25.0% |
| !! | ATATGGCAAATCTTTTCAAT+GGG | + | Chr5:90804626-90804645 | MsG0580029040.01.T01:intron | 25.0% |
| !! | ATCTCTAGAAATTCTAGATT+GGG | - | Chr5:90805017-90805036 | None:intergenic | 25.0% |
| !!! | TTTACCCATGTTTTTAGTAT+AGG | + | Chr5:90804829-90804848 | MsG0580029040.01.T01:intron | 25.0% |
| AAATAACCTCTTCAACGAAA+GGG | - | Chr5:90804443-90804462 | None:intergenic | 30.0% | |
| AGATGCAAAATCTTCAACAT+AGG | - | Chr5:90804289-90804308 | None:intergenic | 30.0% | |
| ATTCAAAGATTATGAAGGCA+CGG | + | Chr5:90805231-90805250 | MsG0580029040.01.T01:CDS | 30.0% | |
| CAACTGTTTACAAAAGTGAA+AGG | - | Chr5:90804770-90804789 | None:intergenic | 30.0% | |
| GCTACTCTCAAAATAAATTG+TGG | - | Chr5:90805314-90805333 | None:intergenic | 30.0% | |
| GTAGAAAATTGTTCAAGACT+AGG | - | Chr5:90804376-90804395 | None:intergenic | 30.0% | |
| TAACTATGTGGTTGAGAATT+GGG | + | Chr5:90804540-90804559 | MsG0580029040.01.T01:CDS | 30.0% | |
| TTAACTATGTGGTTGAGAAT+TGG | + | Chr5:90804539-90804558 | MsG0580029040.01.T01:CDS | 30.0% | |
| TTCAAACGTACTTCTTTGTT+TGG | + | Chr5:90804408-90804427 | MsG0580029040.01.T01:intron | 30.0% | |
| ! | CAAATCTTTTCAATGGGATT+CGG | + | Chr5:90804632-90804651 | MsG0580029040.01.T01:intron | 30.0% |
| ! | GTTAATCCTGTTATCTTTTG+AGG | - | Chr5:90805392-90805411 | None:intergenic | 30.0% |
| ! | TCTCTAGAAATTCTAGATTG+GGG | - | Chr5:90805016-90805035 | None:intergenic | 30.0% |
| !! | CTTTCACTTTTGTAAACAGT+TGG | + | Chr5:90804768-90804787 | MsG0580029040.01.T01:intron | 30.0% |
| !!! | CAATTTATTTTGAGAGTAGC+TGG | + | Chr5:90805314-90805333 | MsG0580029040.01.T01:CDS | 30.0% |
| !!! | TGTTATTTTTATCCACTTGC+AGG | + | Chr5:90804878-90804897 | MsG0580029040.01.T01:intron | 30.0% |
| AACTAAGGCGATTAACTATG+TGG | + | Chr5:90804528-90804547 | MsG0580029040.01.T01:CDS | 35.0% | |
| ATAGGAAGATGAACATGAGA+AGG | - | Chr5:90804271-90804290 | None:intergenic | 35.0% | |
| CAAATAACCTCTTCAACGAA+AGG | - | Chr5:90804444-90804463 | None:intergenic | 35.0% | |
| CCTTAGTTTCTTTCATCACA+AGG | - | Chr5:90804516-90804535 | None:intergenic | 35.0% | |
| CCTTGTGATGAAAGAAACTA+AGG | + | Chr5:90804513-90804532 | MsG0580029040.01.T01:CDS | 35.0% | |
| CGTTGAAGAGGTTATTTGTT+AGG | + | Chr5:90804446-90804465 | MsG0580029040.01.T01:intron | 35.0% | |
| TGCTTATTTGTATACCACAG+AGG | + | Chr5:90804670-90804689 | MsG0580029040.01.T01:intron | 35.0% | |
| ! | ATGATGATGATGCTGTTATG+AGG | + | Chr5:90804335-90804354 | MsG0580029040.01.T01:CDS | 35.0% |
| ! | GTCTTGAACAATTTTCTACG+AGG | + | Chr5:90804377-90804396 | MsG0580029040.01.T01:intron | 35.0% |
| AGACAGGTAGGTACTATTGT+TGG | - | Chr5:90805187-90805206 | None:intergenic | 40.0% | |
| AGCAAAGAATCATACCTCTG+TGG | - | Chr5:90804687-90804706 | None:intergenic | 40.0% | |
| AGTAAGGTGTGATGAAAGAC+AGG | - | Chr5:90805203-90805222 | None:intergenic | 40.0% | |
| CAAGAGCCTCAAAAGATAAC+AGG | + | Chr5:90805383-90805402 | MsG0580029040.01.T01:CDS | 40.0% | |
| ! | ATCACAAGGTACTCAAGAAG+AGG | - | Chr5:90804502-90804521 | None:intergenic | 40.0% |
| !!! | CTGTTATCTTTTGAGGCTCT+TGG | - | Chr5:90805385-90805404 | None:intergenic | 40.0% |
| AGGTGTGATGAAAGACAGGT+AGG | - | Chr5:90805199-90805218 | None:intergenic | 45.0% | |
| AGTGTGCACGTGATAAGAGA+AGG | - | Chr5:90804717-90804736 | None:intergenic | 45.0% | |
| ATGTCCCAACCAACCTCAAA+CGG | - | Chr5:90804234-90804253 | None:intergenic | 45.0% | |
| ATGTGTCCCTTTCGTTGAAG+AGG | + | Chr5:90804434-90804453 | MsG0580029040.01.T01:intron | 45.0% | |
| CATAAGTAAGCACCTGCAAG+TGG | - | Chr5:90804893-90804912 | None:intergenic | 45.0% | |
| GAGACAAGTGATGCTGTGTT+GGG | + | Chr5:90805346-90805365 | MsG0580029040.01.T01:CDS | 45.0% | |
| GTGTTGTGATCTCTCTTGAC+AGG | + | Chr5:90805123-90805142 | MsG0580029040.01.T01:intron | 45.0% | |
| TGCAAAACACTCACCGTTTG+AGG | + | Chr5:90804218-90804237 | MsG0580029040.01.T01:CDS | 45.0% | |
| ! | AAACACTCACCGTTTGAGGT+TGG | + | Chr5:90804222-90804241 | MsG0580029040.01.T01:CDS | 45.0% |
| !!! | ATCTTTTGAGGCTCTTGGCA+AGG | - | Chr5:90805380-90805399 | None:intergenic | 45.0% |
| ACAGCATCACTTGTCTCGCT+TGG | - | Chr5:90805343-90805362 | None:intergenic | 50.0% | |
| CGAGACAAGTGATGCTGTGT+TGG | + | Chr5:90805345-90805364 | MsG0580029040.01.T01:CDS | 50.0% | |
| ! | ACTCACCGTTTGAGGTTGGT+TGG | + | Chr5:90804226-90804245 | MsG0580029040.01.T01:CDS | 50.0% |
| ! | CTCACCGTTTGAGGTTGGTT+GGG | + | Chr5:90804227-90804246 | MsG0580029040.01.T01:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 90804217 | 90805435 | 90804217 | ID=MsG0580029040.01;Name=MsG0580029040.01 |
| Chr5 | mRNA | 90804217 | 90805435 | 90804217 | ID=MsG0580029040.01.T01;Parent=MsG0580029040.01;Name=MsG0580029040.01.T01;_AED=0.31;_eAED=0.33;_QI=0|0|0|1|1|1|4|0|240 |
| Chr5 | exon | 90804217 | 90804356 | 90804217 | ID=MsG0580029040.01.T01:exon:49177;Parent=MsG0580029040.01.T01 |
| Chr5 | exon | 90804468 | 90804615 | 90804468 | ID=MsG0580029040.01.T01:exon:49178;Parent=MsG0580029040.01.T01 |
| Chr5 | exon | 90804900 | 90805043 | 90804900 | ID=MsG0580029040.01.T01:exon:49179;Parent=MsG0580029040.01.T01 |
| Chr5 | exon | 90805145 | 90805435 | 90805145 | ID=MsG0580029040.01.T01:exon:49180;Parent=MsG0580029040.01.T01 |
| Chr5 | CDS | 90804217 | 90804356 | 90804217 | ID=MsG0580029040.01.T01:cds;Parent=MsG0580029040.01.T01 |
| Chr5 | CDS | 90804468 | 90804615 | 90804468 | ID=MsG0580029040.01.T01:cds;Parent=MsG0580029040.01.T01 |
| Chr5 | CDS | 90804900 | 90805043 | 90804900 | ID=MsG0580029040.01.T01:cds;Parent=MsG0580029040.01.T01 |
| Chr5 | CDS | 90805145 | 90805435 | 90805145 | ID=MsG0580029040.01.T01:cds;Parent=MsG0580029040.01.T01 |
| Gene Sequence |
| Protein sequence |
