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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549020 | KYP58465.1 | 100.000 | 136 | 0 | 0 | 1 | 136 | 5 | 140 | 1.76e-92 | 273 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549020 | sp|P68428|H32_WHEAT | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 5.15e-95 | 272 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549020 | A0A1D1ZGP1 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 1.97e-92 | 272 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0364680 | Msa0549020 | 0.800544 | 1.371461e-48 | -8.615850e-47 |
| Msa0503990 | Msa0549020 | 0.800103 | 1.686332e-48 | -8.615850e-47 |
| Msa0549020 | Msa0550590 | 0.807320 | 5.354717e-50 | -8.615850e-47 |
| Msa0549020 | Msa0561560 | 0.805730 | 1.159142e-49 | -8.615850e-47 |
| Msa0549020 | Msa0603980 | 0.820471 | 6.740072e-53 | -8.615850e-47 |
| Msa0549020 | Msa0620500 | 0.815056 | 1.123764e-51 | -8.615850e-47 |
| Msa0549020 | Msa0654740 | 0.800177 | 1.628442e-48 | -8.615850e-47 |
| Msa0549020 | Msa0816080 | 0.803777 | 2.965188e-49 | -8.615850e-47 |
| Msa0549020 | Msa0909760 | 0.803796 | 2.937481e-49 | -8.615850e-47 |
| Msa0549020 | Msa1033920 | 0.812272 | 4.609644e-51 | -8.615850e-47 |
| Msa0549020 | Msa1162880 | 0.828636 | 8.051607e-55 | -8.615850e-47 |
| Msa0549020 | Msa1215980 | 0.815728 | 7.967122e-52 | -8.615850e-47 |
| Msa0549020 | Msa1223390 | 0.818273 | 2.136556e-52 | -8.615850e-47 |
| Msa0549020 | Msa1254420 | 0.818479 | 1.918442e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549020 | MtrunA17_Chr5g0410931 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr5g0410951 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr8g0383851 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr8g0383781 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr8g0390361 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr2g0295191 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr7g0237661 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr4g0033041 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr7g0218971 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr4g0046301 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr8g0364801 | 100.000 | 136 | 0 | 0 | 1 | 136 | 1 | 136 | 3.79e-96 | 272 |
| Msa0549020 | MtrunA17_Chr4g0054161 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 2.60e-93 | 265 |
| Msa0549020 | MtrunA17_Chr8g0363741 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 2.60e-93 | 265 |
| Msa0549020 | MtrunA17_Chr1g0156021 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 2.60e-93 | 265 |
| Msa0549020 | MtrunA17_Chr4g0054151 | 97.059 | 136 | 4 | 0 | 1 | 136 | 4 | 139 | 2.61e-93 | 265 |
| Msa0549020 | MtrunA17_Chr8g0388121 | 96.324 | 136 | 5 | 0 | 1 | 136 | 1 | 136 | 1.09e-92 | 264 |
| Msa0549020 | MtrunA17_Chr2g0319141 | 89.706 | 136 | 14 | 0 | 1 | 136 | 1 | 136 | 1.10e-86 | 248 |
| Msa0549020 | MtrunA17_Chr2g0319151 | 89.706 | 136 | 14 | 0 | 1 | 136 | 1 | 136 | 1.10e-86 | 248 |
| Msa0549020 | MtrunA17_Chr2g0319131 | 85.616 | 146 | 11 | 1 | 1 | 136 | 1 | 146 | 1.38e-82 | 238 |
| Msa0549020 | MtrunA17_Chr2g0319121 | 84.559 | 136 | 19 | 2 | 1 | 135 | 1 | 135 | 5.82e-75 | 219 |
| Msa0549020 | MtrunA17_Chr7g0218961 | 86.607 | 112 | 15 | 0 | 25 | 136 | 2 | 113 | 8.01e-66 | 195 |
| Msa0549020 | MtrunA17_Chr7g0222991 | 67.164 | 134 | 43 | 1 | 1 | 134 | 10 | 142 | 5.47e-56 | 171 |
| Msa0549020 | MtrunA17_Chr5g0407311 | 67.241 | 116 | 35 | 2 | 1 | 116 | 1 | 113 | 1.29e-45 | 144 |
| Msa0549020 | MtrunA17_Chr7g0223001 | 58.647 | 133 | 41 | 3 | 3 | 134 | 27 | 146 | 5.46e-43 | 139 |
| Msa0549020 | MtrunA17_Chr7g0240791 | 100.000 | 66 | 0 | 0 | 1 | 66 | 1 | 66 | 9.61e-41 | 133 |
| Msa0549020 | MtrunA17_Chr8g0347231 | 55.102 | 98 | 43 | 1 | 37 | 133 | 28 | 125 | 3.80e-30 | 105 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549020 | AT1G09200.1 | 99.265 | 136 | 1 | 0 | 1 | 136 | 1 | 136 | 1.62e-95 | 271 |
| Msa0549020 | AT5G65360.1 | 99.265 | 136 | 1 | 0 | 1 | 136 | 1 | 136 | 1.62e-95 | 271 |
| Msa0549020 | AT5G10390.1 | 99.265 | 136 | 1 | 0 | 1 | 136 | 1 | 136 | 1.62e-95 | 271 |
| Msa0549020 | AT5G10400.1 | 99.265 | 136 | 1 | 0 | 1 | 136 | 1 | 136 | 1.62e-95 | 271 |
| Msa0549020 | AT3G27360.1 | 99.265 | 136 | 1 | 0 | 1 | 136 | 1 | 136 | 1.62e-95 | 271 |
| Msa0549020 | AT4G40030.3 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40030.1 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40030.4 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT5G10980.1 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40040.2 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40040.3 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40040.1 | 97.059 | 136 | 4 | 0 | 1 | 136 | 1 | 136 | 3.59e-93 | 265 |
| Msa0549020 | AT4G40030.2 | 97.059 | 136 | 4 | 0 | 1 | 136 | 29 | 164 | 7.05e-93 | 266 |
| Msa0549020 | AT5G65350.1 | 94.853 | 136 | 7 | 0 | 1 | 136 | 1 | 136 | 5.30e-91 | 260 |
| Msa0549020 | AT1G75600.1 | 93.382 | 136 | 9 | 0 | 1 | 136 | 1 | 136 | 1.25e-89 | 256 |
| Msa0549020 | AT1G13370.1 | 93.382 | 136 | 9 | 0 | 1 | 136 | 1 | 136 | 5.55e-89 | 254 |
| Msa0549020 | AT1G19890.1 | 89.781 | 137 | 13 | 1 | 1 | 136 | 1 | 137 | 1.07e-83 | 241 |
| Msa0549020 | AT5G12910.1 | 71.111 | 135 | 34 | 2 | 1 | 135 | 1 | 130 | 9.90e-67 | 198 |
| Msa0549020 | AT1G01370.2 | 53.982 | 113 | 49 | 2 | 24 | 134 | 63 | 174 | 2.97e-31 | 110 |
| Msa0549020 | AT1G01370.1 | 53.982 | 113 | 49 | 2 | 24 | 134 | 63 | 174 | 2.97e-31 | 110 |
| Msa0549020 | AT1G01370.4 | 53.982 | 113 | 49 | 2 | 24 | 134 | 63 | 174 | 2.97e-31 | 110 |
| Msa0549020 | AT1G01370.3 | 53.982 | 113 | 49 | 2 | 24 | 134 | 63 | 174 | 2.97e-31 | 110 |
Find 38 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGGTGGCTGGGGCGGATTTC+CGG | 0.131995 | 4_1:-43779926 | None:intergenic |
| TTCTTCACTCCGCCGGTGGC+TGG | 0.208877 | 4_1:-43779939 | None:intergenic |
| TTCACGAAGTGCGACGGTTC+CGG | 0.340741 | 4_1:-43779979 | None:intergenic |
| TCTTCACTCCGCCGGTGGCT+GGG | 0.346533 | 4_1:-43779938 | None:intergenic |
| GGTGGCTGGGGCGGATTTCC+GGG | 0.349417 | 4_1:-43779925 | None:intergenic |
| TCACGAAGTGCGACGGTTCC+GGG | 0.351546 | 4_1:-43779978 | None:intergenic |
| GAGCGGAAACAGCGCTGCTC+TGG | 0.355901 | 4_1:-43780103 | None:intergenic |
| TTGAATATCCTTGGGCATAA+TGG | 0.390549 | 4_1:-43780204 | None:intergenic |
| CACGAACGAGACGTTGGAAT+GGG | 0.414135 | 4_1:-43780046 | None:intergenic |
| TTATCTCGTTGGACTCTTTG+AGG | 0.419676 | 4_1:+43780145 | Msa0549020:CDS |
| CTTCACTCCGCCGGTGGCTG+GGG | 0.429355 | 4_1:-43779937 | None:intergenic |
| CGGAAATCCGCCCCAGCCAC+CGG | 0.439556 | 4_1:+43779927 | Msa0549020:CDS |
| CACTCCGCCGGTGGCTGGGG+CGG | 0.455168 | 4_1:-43779934 | None:intergenic |
| GCGAGCGAGTTGAATATCCT+TGG | 0.467952 | 4_1:-43780213 | None:intergenic |
| AAACAGCGCTGCTCTGGAAA+CGG | 0.476540 | 4_1:-43780097 | None:intergenic |
| TCACGAACGAGACGTTGGAA+TGG | 0.487442 | 4_1:-43780047 | None:intergenic |
| CGAGCGAGTTGAATATCCTT+GGG | 0.506955 | 4_1:-43780212 | None:intergenic |
| CGACGGTTCCGGGACGGAAA+CGG | 0.513929 | 4_1:-43779968 | None:intergenic |
| AAGCCTCACCGTTTCCGTCC+CGG | 0.527320 | 4_1:+43779960 | Msa0549020:CDS |
| TCGGGGAGCTTTGCCGCCGG+TGG | 0.528357 | 4_1:-43779880 | None:intergenic |
| GCTGCTGAAGCTTATCTCGT+TGG | 0.533530 | 4_1:+43780134 | Msa0549020:CDS |
| GCGGATTTCACGAAGTGCGA+CGG | 0.544208 | 4_1:-43779985 | None:intergenic |
| CGATTTCACGAACGAGACGT+TGG | 0.545134 | 4_1:-43780052 | None:intergenic |
| GGCTGGGGCGGATTTCCGGG+CGG | 0.553153 | 4_1:-43779922 | None:intergenic |
| CAACTCGCTCGCAGAATCAG+AGG | 0.556058 | 4_1:+43780224 | Msa0549020:CDS |
| GTGAGGCTTCTTCACTCCGC+CGG | 0.560763 | 4_1:-43779946 | None:intergenic |
| TCTCGTTCGTGAAATCGCTC+AGG | 0.574609 | 4_1:+43780058 | Msa0549020:CDS |
| AGGCTTCTTCACTCCGCCGG+TGG | 0.575034 | 4_1:-43779943 | None:intergenic |
| CAAACAGCTCGCAAATCCAC+CGG | 0.575165 | 4_1:+43779864 | Msa0549020:CDS |
| TTCAGCAGCTTCTTGAAGAG+CGG | 0.576635 | 4_1:-43780120 | None:intergenic |
| TCGCAGAATCAGAGGCGAGA+GGG | 0.584947 | 4_1:+43780232 | Msa0549020:CDS |
| CTCGCAGAATCAGAGGCGAG+AGG | 0.599896 | 4_1:+43780231 | Msa0549020:CDS |
| AGCTAGCTACAAAAGCCGCC+CGG | 0.600622 | 4_1:+43779907 | Msa0549020:CDS |
| GAGAGTTACCATTATGCCCA+AGG | 0.602637 | 4_1:+43780196 | Msa0549020:CDS |
| AAATCCGCCCCAGCCACCGG+CGG | 0.628636 | 4_1:+43779930 | Msa0549020:CDS |
| GAAGTGCGACGGTTCCGGGA+CGG | 0.649162 | 4_1:-43779974 | None:intergenic |
| ACAGCTCGCAAATCCACCGG+CGG | 0.668402 | 4_1:+43779867 | Msa0549020:CDS |
| GTTCCGGGACGGAAACGGTG+AGG | 0.691461 | 4_1:-43779963 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTTGTAGCTAGCTGTTTTC+GGG | - | chr4_1:43779901-43779920 | None:intergenic | 35.0% |
| !! | CTTTTGTAGCTAGCTGTTTT+CGG | - | chr4_1:43779902-43779921 | None:intergenic | 35.0% |
| !!! | CTGTGCTTTTTTGGTATTTG+CGG | - | chr4_1:43780007-43780026 | None:intergenic | 35.0% |
| TTGAATATCCTTGGGCATAA+TGG | - | chr4_1:43780207-43780226 | None:intergenic | 35.0% | |
| !! | TTTGTAGCTAGCTGTTTTCG+GGG | - | chr4_1:43779900-43779919 | None:intergenic | 40.0% |
| !!! | TGAGAAGCTCTGTGCTTTTT+TGG | - | chr4_1:43780016-43780035 | None:intergenic | 40.0% |
| TTATCTCGTTGGACTCTTTG+AGG | + | chr4_1:43780145-43780164 | Msa0549020:CDS | 40.0% | |
| ! | GACGTTGGAATGGGAGTTTT+CGG | - | chr4_1:43780040-43780059 | None:intergenic | 45.0% |
| TTCAGCAGCTTCTTGAAGAG+CGG | - | chr4_1:43780123-43780142 | None:intergenic | 45.0% | |
| GAGAGTTACCATTATGCCCA+AGG | + | chr4_1:43780196-43780215 | Msa0549020:CDS | 45.0% | |
| ! | CGAGCGAGTTGAATATCCTT+GGG | - | chr4_1:43780215-43780234 | None:intergenic | 45.0% |
| CAAACAGCTCGCAAATCCAC+CGG | + | chr4_1:43779864-43779883 | Msa0549020:CDS | 50.0% | |
| CACGAACGAGACGTTGGAAT+GGG | - | chr4_1:43780049-43780068 | None:intergenic | 50.0% | |
| TCACGAACGAGACGTTGGAA+TGG | - | chr4_1:43780050-43780069 | None:intergenic | 50.0% | |
| CGATTTCACGAACGAGACGT+TGG | - | chr4_1:43780055-43780074 | None:intergenic | 50.0% | |
| TCTCGTTCGTGAAATCGCTC+AGG | + | chr4_1:43780058-43780077 | Msa0549020:CDS | 50.0% | |
| !! | AAACAGCGCTGCTCTGGAAA+CGG | - | chr4_1:43780100-43780119 | None:intergenic | 50.0% |
| GCTGCTGAAGCTTATCTCGT+TGG | + | chr4_1:43780134-43780153 | Msa0549020:CDS | 50.0% | |
| ! | GCGAGCGAGTTGAATATCCT+TGG | - | chr4_1:43780216-43780235 | None:intergenic | 50.0% |
| AGCTAGCTACAAAAGCCGCC+CGG | + | chr4_1:43779907-43779926 | Msa0549020:CDS | 55.0% | |
| TTCACGAAGTGCGACGGTTC+CGG | - | chr4_1:43779982-43780001 | None:intergenic | 55.0% | |
| GCGGATTTCACGAAGTGCGA+CGG | - | chr4_1:43779988-43780007 | None:intergenic | 55.0% | |
| CAACTCGCTCGCAGAATCAG+AGG | + | chr4_1:43780224-43780243 | Msa0549020:CDS | 55.0% | |
| TCGCAGAATCAGAGGCGAGA+GGG | + | chr4_1:43780232-43780251 | Msa0549020:CDS | 55.0% | |
| ACAGCTCGCAAATCCACCGG+CGG | + | chr4_1:43779867-43779886 | Msa0549020:CDS | 60.0% | |
| !! | TTTTCGGGGAGCTTTGCCGC+CGG | - | chr4_1:43779886-43779905 | None:intergenic | 60.0% |
| GTGAGGCTTCTTCACTCCGC+CGG | - | chr4_1:43779949-43779968 | None:intergenic | 60.0% | |
| AAGCCTCACCGTTTCCGTCC+CGG | + | chr4_1:43779960-43779979 | Msa0549020:CDS | 60.0% | |
| TCACGAAGTGCGACGGTTCC+GGG | - | chr4_1:43779981-43780000 | None:intergenic | 60.0% | |
| CTCGCAGAATCAGAGGCGAG+AGG | + | chr4_1:43780231-43780250 | Msa0549020:CDS | 60.0% | |
| TCTTCACTCCGCCGGTGGCT+GGG | - | chr4_1:43779941-43779960 | None:intergenic | 65.0% | |
| TTCTTCACTCCGCCGGTGGC+TGG | - | chr4_1:43779942-43779961 | None:intergenic | 65.0% | |
| AGGCTTCTTCACTCCGCCGG+TGG | - | chr4_1:43779946-43779965 | None:intergenic | 65.0% | |
| GTTCCGGGACGGAAACGGTG+AGG | - | chr4_1:43779966-43779985 | None:intergenic | 65.0% | |
| CGACGGTTCCGGGACGGAAA+CGG | - | chr4_1:43779971-43779990 | None:intergenic | 65.0% | |
| GAAGTGCGACGGTTCCGGGA+CGG | - | chr4_1:43779977-43779996 | None:intergenic | 65.0% | |
| GAGCGGAAACAGCGCTGCTC+TGG | - | chr4_1:43780106-43780125 | None:intergenic | 65.0% | |
| ! | GGTGGCTGGGGCGGATTTCC+GGG | - | chr4_1:43779928-43779947 | None:intergenic | 70.0% |
| ! | CGGTGGCTGGGGCGGATTTC+CGG | - | chr4_1:43779929-43779948 | None:intergenic | 70.0% |
| CGGAAATCCGCCCCAGCCAC+CGG | + | chr4_1:43779927-43779946 | Msa0549020:CDS | 70.0% | |
| AAATCCGCCCCAGCCACCGG+CGG | + | chr4_1:43779930-43779949 | Msa0549020:CDS | 70.0% | |
| CTTCACTCCGCCGGTGGCTG+GGG | - | chr4_1:43779940-43779959 | None:intergenic | 70.0% | |
| TCGGGGAGCTTTGCCGCCGG+TGG | - | chr4_1:43779883-43779902 | None:intergenic | 75.0% | |
| ! | GGCTGGGGCGGATTTCCGGG+CGG | - | chr4_1:43779925-43779944 | None:intergenic | 75.0% |
| ! | CACTCCGCCGGTGGCTGGGG+CGG | - | chr4_1:43779937-43779956 | None:intergenic | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 43779849 | 43780259 | 43779849 | ID=Msa0549020;Name=Msa0549020 |
| chr4_1 | mRNA | 43779849 | 43780259 | 43779849 | ID=Msa0549020-mRNA-1;Parent=Msa0549020;Name=Msa0549020-mRNA-1;_AED=0.41;_eAED=0.42;_QI=0|-1|0|1|-1|1|1|0|136 |
| chr4_1 | exon | 43779849 | 43780259 | 43779849 | ID=Msa0549020-mRNA-1:exon:11313;Parent=Msa0549020-mRNA-1 |
| chr4_1 | CDS | 43779849 | 43780259 | 43779849 | ID=Msa0549020-mRNA-1:cds;Parent=Msa0549020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
