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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0541370 | XP_024636235.1 | 94.650 | 243 | 13 | 0 | 1 | 243 | 1 | 243 | 1.49e-173 | 487 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0541370 | sp|Q9M202|ZAT9_ARATH | 30.400 | 250 | 136 | 7 | 9 | 229 | 6 | 246 | 6.06e-17 | 81.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0541370 | A0A396I2K7 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 9.53e-114 | 335 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0541370 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0541370 | Msa0541400 | 0.972144 | 2.742086e-134 | -8.615850e-47 |
| Msa0541370 | Msa0636080 | 0.987734 | 2.430868e-171 | -8.615850e-47 |
| Msa0541370 | Msa0675400 | 0.963072 | 1.222908e-121 | -8.615850e-47 |
| Msa0541370 | Msa0688950 | 0.967940 | 5.652730e-128 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0541370 | MtrunA17_Chr4g0018761 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 1.84e-117 | 335 |
| Msa0541370 | MtrunA17_Chr4g0018741 | 77.885 | 104 | 23 | 0 | 78 | 181 | 1 | 104 | 7.46e-55 | 171 |
| Msa0541370 | MtrunA17_Chr3g0079131 | 26.165 | 279 | 138 | 7 | 7 | 232 | 6 | 269 | 3.47e-18 | 81.3 |
| Msa0541370 | MtrunA17_Chr3g0079061 | 26.415 | 265 | 157 | 7 | 3 | 229 | 2 | 266 | 3.87e-16 | 75.9 |
| Msa0541370 | MtrunA17_Chr3g0079091 | 38.532 | 109 | 62 | 2 | 3 | 107 | 2 | 109 | 9.24e-14 | 67.4 |
| Msa0541370 | MtrunA17_Chr4g0056091 | 59.322 | 59 | 22 | 1 | 173 | 229 | 210 | 268 | 2.06e-13 | 68.6 |
| Msa0541370 | MtrunA17_Chr7g0231181 | 40.741 | 81 | 38 | 1 | 170 | 240 | 239 | 319 | 6.98e-13 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0541370 | AT3G60580.1 | 30.400 | 250 | 136 | 7 | 9 | 229 | 6 | 246 | 6.16e-18 | 81.3 |
| Msa0541370 | AT1G02030.1 | 27.132 | 258 | 132 | 6 | 9 | 236 | 7 | 238 | 4.01e-13 | 67.4 |
| Msa0541370 | AT5G61470.1 | 41.096 | 73 | 31 | 2 | 168 | 229 | 225 | 296 | 3.91e-12 | 65.1 |
Find 68 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTGTGTTTGTTGTATTTC+GGG | 0.187551 | 4_1:+25183442 | None:intergenic |
| ATTCTGTGTTTGTTGTATTT+CGG | 0.237824 | 4_1:+25183441 | None:intergenic |
| GCCGCAATTGGATCTCTTGC+GGG | 0.303465 | 4_1:+25183333 | None:intergenic |
| AATTGGATCTCTTGCGGGTT+GGG | 0.313326 | 4_1:+25183338 | None:intergenic |
| ATCCAGGTGTTCTGATGTTA+TGG | 0.324938 | 4_1:-25183267 | Msa0541370:CDS |
| TGAGTATTAGTTTCAAGCTT+TGG | 0.337317 | 4_1:+25183532 | None:intergenic |
| CAGCCGCAGCATTAACTTCT+CGG | 0.371873 | 4_1:+25183311 | None:intergenic |
| CAATTGGATCTCTTGCGGGT+TGG | 0.402481 | 4_1:+25183337 | None:intergenic |
| ATTAACTTCTCGGCCGCAAT+TGG | 0.433182 | 4_1:+25183321 | None:intergenic |
| TACTCAAGCTGTAGACAATT+CGG | 0.436960 | 4_1:-25183515 | Msa0541370:CDS |
| ATTTGTGGGAAGTGGTTCTC+CGG | 0.453707 | 4_1:-25183610 | Msa0541370:CDS |
| GTTTCAAGCTTTGGAGCAAT+CGG | 0.454553 | 4_1:+25183541 | None:intergenic |
| TTCCGATCTTATCAGGCTCT+TGG | 0.457389 | 4_1:-25183103 | Msa0541370:CDS |
| TTTACAAAGATGCGCAGAAA+AGG | 0.459521 | 4_1:-25183240 | Msa0541370:CDS |
| TACAGAATCACAAATCAATA+CGG | 0.462697 | 4_1:+25182917 | None:intergenic |
| TTCTCCGGTGGGAAAGCCCT+TGG | 0.463478 | 4_1:-25183595 | Msa0541370:CDS |
| GGAAAGCCTGTGGGATTTGT+GGG | 0.467351 | 4_1:-25183624 | Msa0541370:CDS |
| GGGAAAGCCTGTGGGATTTG+TGG | 0.468727 | 4_1:-25183625 | Msa0541370:CDS |
| CGATCTTATCAGGCTCTTGG+TGG | 0.468794 | 4_1:-25183100 | Msa0541370:CDS |
| TTGCAATTTGAGCAGTGAAA+AGG | 0.471865 | 4_1:+25183025 | None:intergenic |
| GCCTCCAAGGGCTTTCCCAC+CGG | 0.472807 | 4_1:+25183591 | None:intergenic |
| CCCCATAACATCAGAACACC+TGG | 0.474579 | 4_1:+25183265 | None:intergenic |
| AGATCTCATGTGGCCTCCAA+GGG | 0.485485 | 4_1:+25183579 | None:intergenic |
| GGCCGCAATTGGATCTCTTG+CGG | 0.489489 | 4_1:+25183332 | None:intergenic |
| TCCAGGTGTTCTGATGTTAT+GGG | 0.494593 | 4_1:-25183266 | Msa0541370:CDS |
| TCCGGTGGGAAAGCCCTTGG+AGG | 0.494800 | 4_1:-25183592 | Msa0541370:CDS |
| TTCTCTGTTTGAGCTTGCAG+AGG | 0.496954 | 4_1:+25183387 | None:intergenic |
| TCTGTTTGAGCTTGCAGAGG+AGG | 0.498454 | 4_1:+25183390 | None:intergenic |
| TTACAAAGATGCGCAGAAAA+GGG | 0.499625 | 4_1:-25183239 | Msa0541370:CDS |
| TTCAAGTCTGCTCAGGCACT+CGG | 0.500253 | 4_1:-25182995 | Msa0541370:CDS |
| AACGATGGCGAAAGCAGTAC+AGG | 0.507873 | 4_1:-25183187 | Msa0541370:CDS |
| AGCAAATTGATTTCGACGAT+GGG | 0.509489 | 4_1:+25183483 | None:intergenic |
| GCACCTCTCACAGTTGAACC+TGG | 0.509618 | 4_1:+25183135 | None:intergenic |
| ATTTCGACGATGGGTTGAAT+CGG | 0.510947 | 4_1:+25183492 | None:intergenic |
| GAGATCTCATGTGGCCTCCA+AGG | 0.514030 | 4_1:+25183578 | None:intergenic |
| GAAGATATGTCAAGAGATCC+AGG | 0.516117 | 4_1:-25183283 | Msa0541370:CDS |
| TGTGGGAAGTGGTTCTCCGG+TGG | 0.517822 | 4_1:-25183607 | Msa0541370:CDS |
| ACTTTGAAATTCCTTAGCAC+TGG | 0.521740 | 4_1:+25182949 | None:intergenic |
| CAAAGTGTTCAAGTCTGCTC+AGG | 0.524975 | 4_1:-25183002 | Msa0541370:CDS |
| CACAAGCAGACTCTGAAGCC+AGG | 0.539423 | 4_1:-25183153 | Msa0541370:CDS |
| AAGCAAATTGATTTCGACGA+TGG | 0.551421 | 4_1:+25183482 | None:intergenic |
| GTGTTTGTTGTATTTCGGGA+AGG | 0.552910 | 4_1:+25183446 | None:intergenic |
| CCTGTGGGATTTGTGGGAAG+TGG | 0.558125 | 4_1:-25183618 | Msa0541370:CDS |
| GTGGGAAGTGGTTCTCCGGT+GGG | 0.561353 | 4_1:-25183606 | Msa0541370:CDS |
| GATCTTATCAGGCTCTTGGT+GGG | 0.571526 | 4_1:-25183099 | Msa0541370:CDS |
| GGTACACTCTTCCAGTGCTA+AGG | 0.575791 | 4_1:-25182960 | Msa0541370:CDS |
| GCAACTATGGAGAAGAGCGA+TGG | 0.579019 | 4_1:-25183646 | None:intergenic |
| AAAGATGCGCAGAAAAGGGA+AGG | 0.579501 | 4_1:-25183235 | Msa0541370:CDS |
| CACCAAGAGCCTGATAAGAT+CGG | 0.582662 | 4_1:+25183101 | None:intergenic |
| CCAGGTGTTCTGATGTTATG+GGG | 0.595199 | 4_1:-25183265 | Msa0541370:CDS |
| AAGAGCGATGGGAAAGCCTG+TGG | 0.598960 | 4_1:-25183634 | Msa0541370:CDS |
| AGGCACTCGGTGGACACAAG+AGG | 0.606213 | 4_1:-25182982 | Msa0541370:CDS |
| ACAGAATCACAAATCAATAC+GGG | 0.613334 | 4_1:+25182918 | None:intergenic |
| CAACTATGGAGAAGAGCGAT+GGG | 0.616240 | 4_1:-25183645 | None:intergenic |
| TACTGCAAAAGAGACAATGA+TGG | 0.621835 | 4_1:-25183067 | Msa0541370:CDS |
| AAGCCAGGTTCAACTGTGAG+AGG | 0.622627 | 4_1:-25183138 | Msa0541370:CDS |
| ATCACAAATCAATACGGGTG+TGG | 0.631203 | 4_1:+25182923 | None:intergenic |
| GGCACTCGGTGGACACAAGA+GGG | 0.632635 | 4_1:-25182981 | Msa0541370:CDS |
| CCACTTCCCACAAATCCCAC+AGG | 0.647858 | 4_1:+25183618 | None:intergenic |
| CGGCCGAGAAGTTAATGCTG+CGG | 0.653910 | 4_1:-25183314 | Msa0541370:CDS |
| AGAGCGATGGGAAAGCCTGT+GGG | 0.654994 | 4_1:-25183633 | Msa0541370:CDS |
| AGGTTCAACTGTGAGAGGTG+CGG | 0.663022 | 4_1:-25183133 | Msa0541370:CDS |
| AAGATGCGCAGAAAAGGGAA+GGG | 0.667779 | 4_1:-25183234 | Msa0541370:CDS |
| TTCGGGAAGGCAAGTCTGTG+AGG | 0.669270 | 4_1:+25183459 | None:intergenic |
| AAGTCTGCTCAGGCACTCGG+TGG | 0.670340 | 4_1:-25182992 | Msa0541370:CDS |
| AGGCCACATGAGATCTCACA+TGG | 0.682156 | 4_1:-25183572 | Msa0541370:CDS |
| ACCCGCAAGAGATCCAATTG+CGG | 0.686880 | 4_1:-25183334 | Msa0541370:CDS |
| GAACCATGTGAGATCTCATG+TGG | 0.730676 | 4_1:+25183569 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCTGTGTTTGTTGTATTT+CGG | + | chr4_1:25183133-25183152 | None:intergenic | 25.0% |
| ! | GATCAAGAAACAAAAAATGA+GGG | - | chr4_1:25183359-25183378 | Msa0541370:CDS | 25.0% |
| ! | TGAGTATTAGTTTCAAGCTT+TGG | + | chr4_1:25183042-25183061 | None:intergenic | 30.0% |
| !! | TTCTGTGTTTGTTGTATTTC+GGG | + | chr4_1:25183132-25183151 | None:intergenic | 30.0% |
| !!! | TGAAGTTTTGTTTCAAGGAT+AGG | + | chr4_1:25183158-25183177 | None:intergenic | 30.0% |
| GGATCAAGAAACAAAAAATG+AGG | - | chr4_1:25183358-25183377 | Msa0541370:CDS | 30.0% | |
| AAAAATGTTCCGATCTTATC+AGG | - | chr4_1:25183461-25183480 | Msa0541370:CDS | 30.0% | |
| TACTCAAGCTGTAGACAATT+CGG | - | chr4_1:25183056-25183075 | Msa0541370:CDS | 35.0% | |
| ! | AGCAAATTGATTTCGACGAT+GGG | + | chr4_1:25183091-25183110 | None:intergenic | 35.0% |
| ! | AAGCAAATTGATTTCGACGA+TGG | + | chr4_1:25183092-25183111 | None:intergenic | 35.0% |
| TTTACAAAGATGCGCAGAAA+AGG | - | chr4_1:25183331-25183350 | Msa0541370:CDS | 35.0% | |
| TTACAAAGATGCGCAGAAAA+GGG | - | chr4_1:25183332-25183351 | Msa0541370:CDS | 35.0% | |
| CAAAAAATGAGGGAAAACGA+TGG | - | chr4_1:25183369-25183388 | Msa0541370:CDS | 35.0% | |
| TACTGCAAAAGAGACAATGA+TGG | - | chr4_1:25183504-25183523 | Msa0541370:CDS | 35.0% | |
| TTGCAATTTGAGCAGTGAAA+AGG | + | chr4_1:25183549-25183568 | None:intergenic | 35.0% | |
| !! | ACTTTGAAATTCCTTAGCAC+TGG | + | chr4_1:25183625-25183644 | None:intergenic | 35.0% |
| !! | GTTTCAAGCTTTGGAGCAAT+CGG | + | chr4_1:25183033-25183052 | None:intergenic | 40.0% |
| !! | ATTTCGACGATGGGTTGAAT+CGG | + | chr4_1:25183082-25183101 | None:intergenic | 40.0% |
| !! | GTGTTTGTTGTATTTCGGGA+AGG | + | chr4_1:25183128-25183147 | None:intergenic | 40.0% |
| !!! | GGCAGTGAAGTTTTGTTTCA+AGG | + | chr4_1:25183163-25183182 | None:intergenic | 40.0% |
| GAAGATATGTCAAGAGATCC+AGG | - | chr4_1:25183288-25183307 | Msa0541370:CDS | 40.0% | |
| ATCCAGGTGTTCTGATGTTA+TGG | - | chr4_1:25183304-25183323 | Msa0541370:CDS | 40.0% | |
| TCCAGGTGTTCTGATGTTAT+GGG | - | chr4_1:25183305-25183324 | Msa0541370:CDS | 40.0% | |
| ATTTGTGGGAAGTGGTTCTC+CGG | - | chr4_1:25182961-25182980 | Msa0541370:CDS | 45.0% | |
| GAACCATGTGAGATCTCATG+TGG | + | chr4_1:25183005-25183024 | None:intergenic | 45.0% | |
| TTCTCTGTTTGAGCTTGCAG+AGG | + | chr4_1:25183187-25183206 | None:intergenic | 45.0% | |
| AATTGGATCTCTTGCGGGTT+GGG | + | chr4_1:25183236-25183255 | None:intergenic | 45.0% | |
| ATTAACTTCTCGGCCGCAAT+TGG | + | chr4_1:25183253-25183272 | None:intergenic | 45.0% | |
| CCAGGTGTTCTGATGTTATG+GGG | - | chr4_1:25183306-25183325 | Msa0541370:CDS | 45.0% | |
| AAAGATGCGCAGAAAAGGGA+AGG | - | chr4_1:25183336-25183355 | Msa0541370:CDS | 45.0% | |
| AAGATGCGCAGAAAAGGGAA+GGG | - | chr4_1:25183337-25183356 | Msa0541370:CDS | 45.0% | |
| TTCCGATCTTATCAGGCTCT+TGG | - | chr4_1:25183468-25183487 | Msa0541370:CDS | 45.0% | |
| CACCAAGAGCCTGATAAGAT+CGG | + | chr4_1:25183473-25183492 | None:intergenic | 45.0% | |
| GATCTTATCAGGCTCTTGGT+GGG | - | chr4_1:25183472-25183491 | Msa0541370:CDS | 45.0% | |
| ! | CAAAGTGTTCAAGTCTGCTC+AGG | - | chr4_1:25183569-25183588 | Msa0541370:CDS | 45.0% |
| GGAAAGCCTGTGGGATTTGT+GGG | - | chr4_1:25182947-25182966 | Msa0541370:CDS | 50.0% | |
| AGATCTCATGTGGCCTCCAA+GGG | + | chr4_1:25182995-25183014 | None:intergenic | 50.0% | |
| AGGCCACATGAGATCTCACA+TGG | - | chr4_1:25182999-25183018 | Msa0541370:CDS | 50.0% | |
| TCTGTTTGAGCTTGCAGAGG+AGG | + | chr4_1:25183184-25183203 | None:intergenic | 50.0% | |
| !!! | TCTTGCGGGTTGGGTTTTTC+GGG | + | chr4_1:25183227-25183246 | None:intergenic | 50.0% |
| !!! | CTCTTGCGGGTTGGGTTTTT+CGG | + | chr4_1:25183228-25183247 | None:intergenic | 50.0% |
| CAATTGGATCTCTTGCGGGT+TGG | + | chr4_1:25183237-25183256 | None:intergenic | 50.0% | |
| ACCCGCAAGAGATCCAATTG+CGG | - | chr4_1:25183237-25183256 | Msa0541370:CDS | 50.0% | |
| CAGCCGCAGCATTAACTTCT+CGG | + | chr4_1:25183263-25183282 | None:intergenic | 50.0% | |
| CCCCATAACATCAGAACACC+TGG | + | chr4_1:25183309-25183328 | None:intergenic | 50.0% | |
| AACGATGGCGAAAGCAGTAC+AGG | - | chr4_1:25183384-25183403 | Msa0541370:CDS | 50.0% | |
| AAGCCAGGTTCAACTGTGAG+AGG | - | chr4_1:25183433-25183452 | Msa0541370:CDS | 50.0% | |
| AGGTTCAACTGTGAGAGGTG+CGG | - | chr4_1:25183438-25183457 | Msa0541370:CDS | 50.0% | |
| CGATCTTATCAGGCTCTTGG+TGG | - | chr4_1:25183471-25183490 | Msa0541370:CDS | 50.0% | |
| TTCAAGTCTGCTCAGGCACT+CGG | - | chr4_1:25183576-25183595 | Msa0541370:CDS | 50.0% | |
| GGTACACTCTTCCAGTGCTA+AGG | - | chr4_1:25183611-25183630 | Msa0541370:CDS | 50.0% | |
| AAGAGCGATGGGAAAGCCTG+TGG | - | chr4_1:25182937-25182956 | Msa0541370:CDS | 55.0% | |
| AGAGCGATGGGAAAGCCTGT+GGG | - | chr4_1:25182938-25182957 | Msa0541370:CDS | 55.0% | |
| GGGAAAGCCTGTGGGATTTG+TGG | - | chr4_1:25182946-25182965 | Msa0541370:CDS | 55.0% | |
| CCACTTCCCACAAATCCCAC+AGG | + | chr4_1:25182956-25182975 | None:intergenic | 55.0% | |
| CCTGTGGGATTTGTGGGAAG+TGG | - | chr4_1:25182953-25182972 | Msa0541370:CDS | 55.0% | |
| GAGATCTCATGTGGCCTCCA+AGG | + | chr4_1:25182996-25183015 | None:intergenic | 55.0% | |
| TTCGGGAAGGCAAGTCTGTG+AGG | + | chr4_1:25183115-25183134 | None:intergenic | 55.0% | |
| GCCGCAATTGGATCTCTTGC+GGG | + | chr4_1:25183241-25183260 | None:intergenic | 55.0% | |
| GGCCGCAATTGGATCTCTTG+CGG | + | chr4_1:25183242-25183261 | None:intergenic | 55.0% | |
| CGGCCGAGAAGTTAATGCTG+CGG | - | chr4_1:25183257-25183276 | Msa0541370:CDS | 55.0% | |
| !! | CACAAGCAGACTCTGAAGCC+AGG | - | chr4_1:25183418-25183437 | Msa0541370:CDS | 55.0% |
| GCACCTCTCACAGTTGAACC+TGG | + | chr4_1:25183439-25183458 | None:intergenic | 55.0% | |
| TGTGGGAAGTGGTTCTCCGG+TGG | - | chr4_1:25182964-25182983 | Msa0541370:CDS | 60.0% | |
| GTGGGAAGTGGTTCTCCGGT+GGG | - | chr4_1:25182965-25182984 | Msa0541370:CDS | 60.0% | |
| TTCTCCGGTGGGAAAGCCCT+TGG | - | chr4_1:25182976-25182995 | Msa0541370:CDS | 60.0% | |
| !!! | GCGGGTTGGGTTTTTCGGGT+TGG | + | chr4_1:25183223-25183242 | None:intergenic | 60.0% |
| AAGTCTGCTCAGGCACTCGG+TGG | - | chr4_1:25183579-25183598 | Msa0541370:CDS | 60.0% | |
| ! | AGGCACTCGGTGGACACAAG+AGG | - | chr4_1:25183589-25183608 | Msa0541370:CDS | 60.0% |
| ! | GGCACTCGGTGGACACAAGA+GGG | - | chr4_1:25183590-25183609 | Msa0541370:CDS | 60.0% |
| TCCGGTGGGAAAGCCCTTGG+AGG | - | chr4_1:25182979-25182998 | Msa0541370:CDS | 65.0% | |
| GCCTCCAAGGGCTTTCCCAC+CGG | + | chr4_1:25182983-25183002 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 25182931 | 25183662 | 25182931 | ID=Msa0541370;Name=Msa0541370 |
| chr4_1 | mRNA | 25182931 | 25183662 | 25182931 | ID=Msa0541370-mRNA-1;Parent=Msa0541370;Name=Msa0541370-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|243 |
| chr4_1 | exon | 25182931 | 25183662 | 25182931 | ID=Msa0541370-mRNA-1:exon:6780;Parent=Msa0541370-mRNA-1 |
| chr4_1 | CDS | 25182931 | 25183662 | 25182931 | ID=Msa0541370-mRNA-1:cds;Parent=Msa0541370-mRNA-1 |
| Gene Sequence |
| Protein sequence |
