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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0229540 | XP_024631312.1 | 72.222 | 234 | 55 | 3 | 1 | 232 | 8 | 233 | 1.73e-109 | 338 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0229540 | sp|Q9SKK8|ATL22_ARATH | 33.659 | 205 | 115 | 7 | 36 | 230 | 40 | 233 | 3.36e-24 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0229540 | A0A396JLC4 | 72.222 | 234 | 55 | 3 | 1 | 232 | 8 | 233 | 8.27e-110 | 338 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0229540 | Msa0650520 | 0.803581 | 3.255891e-49 | -8.615850e-47 |
| Msa0229540 | Msa0692540 | 0.804147 | 2.483813e-49 | -8.615850e-47 |
| Msa0229540 | Msa1383020 | 0.988017 | 2.136965e-172 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0229540 | MtrunA17_Chr1g0160731 | 72.222 | 234 | 55 | 3 | 1 | 232 | 8 | 233 | 1.59e-113 | 338 |
| Msa0229540 | MtrunA17_Chr1g0160671 | 73.109 | 238 | 53 | 5 | 1 | 233 | 7 | 238 | 1.09e-112 | 323 |
| Msa0229540 | MtrunA17_Chr1g0160771 | 69.328 | 238 | 59 | 5 | 1 | 232 | 8 | 237 | 8.27e-104 | 313 |
| Msa0229540 | MtrunA17_Chr1g0160581 | 63.786 | 243 | 75 | 7 | 1 | 232 | 1 | 241 | 8.15e-95 | 290 |
| Msa0229540 | MtrunA17_Chr1g0160541 | 64.045 | 89 | 25 | 2 | 2 | 88 | 6 | 89 | 5.30e-31 | 110 |
| Msa0229540 | MtrunA17_Chr1g0158181 | 39.815 | 216 | 116 | 8 | 29 | 235 | 53 | 263 | 3.50e-27 | 109 |
| Msa0229540 | MtrunA17_Chr1g0158531 | 31.944 | 216 | 118 | 6 | 25 | 230 | 25 | 221 | 2.19e-26 | 107 |
| Msa0229540 | MtrunA17_Chr1g0158051 | 39.437 | 213 | 115 | 9 | 32 | 234 | 32 | 240 | 2.54e-26 | 106 |
| Msa0229540 | MtrunA17_Chr8g0347101 | 34.862 | 218 | 117 | 9 | 26 | 232 | 21 | 224 | 4.57e-26 | 104 |
| Msa0229540 | MtrunA17_Chr3g0126611 | 32.794 | 247 | 142 | 10 | 4 | 237 | 13 | 248 | 6.59e-26 | 103 |
| Msa0229540 | MtrunA17_Chr1g0158311 | 31.780 | 236 | 125 | 8 | 6 | 230 | 9 | 219 | 7.65e-26 | 105 |
| Msa0229540 | MtrunA17_Chr4g0037001 | 31.330 | 233 | 140 | 8 | 5 | 223 | 11 | 237 | 1.05e-25 | 105 |
| Msa0229540 | MtrunA17_Chr1g0158101 | 35.437 | 206 | 121 | 8 | 29 | 224 | 31 | 234 | 3.08e-23 | 97.8 |
| Msa0229540 | MtrunA17_Chr1g0158651 | 35.377 | 212 | 106 | 11 | 28 | 229 | 49 | 239 | 3.38e-23 | 97.8 |
| Msa0229540 | MtrunA17_Chr1g0158771 | 30.653 | 199 | 125 | 6 | 1 | 194 | 10 | 200 | 1.18e-22 | 96.3 |
| Msa0229540 | MtrunA17_Chr1g0157781 | 33.173 | 208 | 127 | 6 | 35 | 235 | 38 | 240 | 5.69e-21 | 91.3 |
| Msa0229540 | MtrunA17_Chr1g0157801 | 32.110 | 218 | 129 | 8 | 28 | 235 | 27 | 235 | 5.26e-19 | 85.5 |
| Msa0229540 | MtrunA17_Chr8g0388231 | 29.515 | 227 | 135 | 9 | 30 | 237 | 34 | 254 | 5.73e-18 | 82.0 |
| Msa0229540 | MtrunA17_Chr1g0157971 | 30.392 | 204 | 129 | 6 | 29 | 224 | 30 | 228 | 9.66e-18 | 81.6 |
| Msa0229540 | MtrunA17_Chr1g0158621 | 40.541 | 111 | 60 | 3 | 28 | 132 | 32 | 142 | 3.04e-16 | 73.6 |
| Msa0229540 | MtrunA17_Chr1g0157871 | 37.415 | 147 | 83 | 5 | 56 | 196 | 31 | 174 | 6.10e-12 | 64.7 |
| Msa0229540 | MtrunA17_Chr6g0483801 | 27.014 | 211 | 121 | 9 | 37 | 227 | 49 | 246 | 8.75e-12 | 63.2 |
| Msa0229540 | MtrunA17_Chr1g0158711 | 31.138 | 167 | 97 | 6 | 56 | 205 | 29 | 194 | 2.90e-11 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0229540 | AT2G25410.1 | 33.659 | 205 | 115 | 7 | 36 | 230 | 40 | 233 | 3.42e-25 | 102 |
| Msa0229540 | AT5G53110.1 | 34.848 | 198 | 111 | 6 | 31 | 216 | 36 | 227 | 9.86e-25 | 100 |
| Msa0229540 | AT2G46495.2 | 30.244 | 205 | 123 | 5 | 37 | 230 | 38 | 233 | 8.08e-24 | 98.2 |
| Msa0229540 | AT2G46495.1 | 29.412 | 204 | 125 | 4 | 37 | 230 | 38 | 232 | 2.13e-23 | 97.4 |
| Msa0229540 | AT2G46494.1 | 33.175 | 211 | 112 | 10 | 31 | 231 | 38 | 229 | 6.58e-20 | 87.4 |
| Msa0229540 | AT1G28040.1 | 33.333 | 156 | 85 | 5 | 78 | 220 | 7 | 156 | 9.84e-13 | 66.6 |
Find 32 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGAAACATTAAACATTT+TGG | 0.159805 | 2_2:+1320323 | None:intergenic |
| TATGGGATTGTTGTTGTTTA+TGG | 0.178581 | 2_2:-1320832 | Msa0229540:CDS |
| TTTCCACATCTTAAATCTTC+TGG | 0.227108 | 2_2:+1320753 | None:intergenic |
| GATTCACAATGTTTGCAATT+AGG | 0.232490 | 2_2:+1320243 | None:intergenic |
| AGATAGGTTGAAATCCTATT+TGG | 0.249004 | 2_2:-1320430 | Msa0229540:CDS |
| GTTTCATTAAACAGCAATTC+TGG | 0.263893 | 2_2:-1320309 | Msa0229540:CDS |
| CTAAATCAACAAACATATTA+AGG | 0.316301 | 2_2:+1320805 | None:intergenic |
| ACATCAAACTAAGAATGTTT+TGG | 0.339634 | 2_2:+1320274 | None:intergenic |
| TCATCAATAATTCTACTAGA+AGG | 0.350874 | 2_2:+1320366 | None:intergenic |
| GCACCCATGTGTGGCTATCC+TGG | 0.372670 | 2_2:-1320690 | Msa0229540:CDS |
| AGCACTTGCAGCAACAGATA+TGG | 0.397229 | 2_2:-1320784 | Msa0229540:CDS |
| ACATTGAGTTTCACTTTGTA+AGG | 0.402144 | 2_2:+1320621 | None:intergenic |
| GCTTAGACAAGGAACCAAAT+AGG | 0.431986 | 2_2:+1320416 | None:intergenic |
| ATTCTGAAAGATTGAGGTTG+TGG | 0.434719 | 2_2:+1320529 | None:intergenic |
| AAAGAGATTCTGAAAGATTG+AGG | 0.446235 | 2_2:+1320523 | None:intergenic |
| GATCGGATAGTTGAATAGTT+TGG | 0.451389 | 2_2:+1320577 | None:intergenic |
| AGCCACACATGGGTGCTTGA+TGG | 0.461765 | 2_2:+1320697 | None:intergenic |
| TATCTAGTAATCTATATTGA+AGG | 0.463084 | 2_2:+1320137 | None:intergenic |
| AACATATGTTTGAGAGGTTG+AGG | 0.467390 | 2_2:+1320392 | None:intergenic |
| TGCAAACATTGTGAATCAAA+AGG | 0.480676 | 2_2:-1320237 | Msa0229540:CDS |
| GAACAAAATAACTCGAATCC+AGG | 0.516202 | 2_2:+1320672 | None:intergenic |
| CATCAATAATTCTACTAGAA+GGG | 0.534575 | 2_2:+1320367 | None:intergenic |
| AAAACATTCTTAGTTTGATG+TGG | 0.543656 | 2_2:-1320272 | Msa0229540:CDS |
| TGGTGCAAAATGAGAGGGGA+AGG | 0.556699 | 2_2:+1320343 | None:intergenic |
| CAAAAGGAAACAGATGTGGA+TGG | 0.578458 | 2_2:-1320221 | Msa0229540:CDS |
| TGTCCAGAAGATTTAAGATG+TGG | 0.582775 | 2_2:-1320756 | Msa0229540:CDS |
| AGGGATAACATATGTTTGAG+AGG | 0.588716 | 2_2:+1320386 | None:intergenic |
| GAGGTTGAGGTGCTTAGACA+AGG | 0.591807 | 2_2:+1320405 | None:intergenic |
| AACCATCAAGCACCCATGTG+TGG | 0.617921 | 2_2:-1320699 | Msa0229540:CDS |
| GAATCCAGGATAGCCACACA+TGG | 0.622433 | 2_2:+1320686 | None:intergenic |
| GAATCAAAAGGAAACAGATG+TGG | 0.660175 | 2_2:-1320225 | Msa0229540:CDS |
| AATCCAGGATAGCCACACAT+GGG | 0.712277 | 2_2:+1320687 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGAAACATTAAACATTT+TGG | + | chr2_2:1320651-1320670 | None:intergenic | 15.0% |
| !! | CTAAATCAACAAACATATTA+AGG | + | chr2_2:1320169-1320188 | None:intergenic | 20.0% |
| !!! | GTTATTTTGTTCATCAAATA+AGG | - | chr2_2:1320310-1320329 | Msa0229540:CDS | 20.0% |
| !! | TGTTTGTAAAGACAATTTTG+TGG | + | chr2_2:1320419-1320438 | None:intergenic | 25.0% |
| ! | CATCAATAATTCTACTAGAA+GGG | + | chr2_2:1320607-1320626 | None:intergenic | 25.0% |
| ! | TCATCAATAATTCTACTAGA+AGG | + | chr2_2:1320608-1320627 | None:intergenic | 25.0% |
| !! | ACATCAAACTAAGAATGTTT+TGG | + | chr2_2:1320700-1320719 | None:intergenic | 25.0% |
| !! | AAAACATTCTTAGTTTGATG+TGG | - | chr2_2:1320699-1320718 | Msa0229540:CDS | 25.0% |
| !! | GAAACAATCTATTTTCTTGT+TGG | + | chr2_2:1320792-1320811 | None:intergenic | 25.0% |
| TTTCCACATCTTAAATCTTC+TGG | + | chr2_2:1320221-1320240 | None:intergenic | 30.0% | |
| !!! | GATGGTTTTTGATTTGGAAA+GGG | + | chr2_2:1320259-1320278 | None:intergenic | 30.0% |
| !!! | TGATGGTTTTTGATTTGGAA+AGG | + | chr2_2:1320260-1320279 | None:intergenic | 30.0% |
| ACATTGAGTTTCACTTTGTA+AGG | + | chr2_2:1320353-1320372 | None:intergenic | 30.0% | |
| ! | GTAAAGACAATTTTGTGGAT+CGG | + | chr2_2:1320414-1320433 | None:intergenic | 30.0% |
| ! | AAAGAGATTCTGAAAGATTG+AGG | + | chr2_2:1320451-1320470 | None:intergenic | 30.0% |
| !! | GTTCACTTTTGATTAGAGAT+AGG | - | chr2_2:1320525-1320544 | Msa0229540:CDS | 30.0% |
| ! | AGATAGGTTGAAATCCTATT+TGG | - | chr2_2:1320541-1320560 | Msa0229540:CDS | 30.0% |
| GTTTCATTAAACAGCAATTC+TGG | - | chr2_2:1320662-1320681 | Msa0229540:CDS | 30.0% | |
| GATTCACAATGTTTGCAATT+AGG | + | chr2_2:1320731-1320750 | None:intergenic | 30.0% | |
| TGCAAACATTGTGAATCAAA+AGG | - | chr2_2:1320734-1320753 | Msa0229540:CDS | 30.0% | |
| TGTTTCATCAAAAACAGCAA+AGG | - | chr2_2:1320806-1320825 | Msa0229540:CDS | 30.0% | |
| ! | TGTCCAGAAGATTTAAGATG+TGG | - | chr2_2:1320215-1320234 | Msa0229540:CDS | 35.0% |
| !! | GTGCTTGATGGTTTTTGATT+TGG | + | chr2_2:1320265-1320284 | None:intergenic | 35.0% |
| GAACAAAATAACTCGAATCC+AGG | + | chr2_2:1320302-1320321 | None:intergenic | 35.0% | |
| GATCGGATAGTTGAATAGTT+TGG | + | chr2_2:1320397-1320416 | None:intergenic | 35.0% | |
| ! | ATTCTGAAAGATTGAGGTTG+TGG | + | chr2_2:1320445-1320464 | None:intergenic | 35.0% |
| AACATATGTTTGAGAGGTTG+AGG | + | chr2_2:1320582-1320601 | None:intergenic | 35.0% | |
| AGGGATAACATATGTTTGAG+AGG | + | chr2_2:1320588-1320607 | None:intergenic | 35.0% | |
| !! | ATTTTGGTGCAAAATGAGAG+GGG | + | chr2_2:1320635-1320654 | None:intergenic | 35.0% |
| !! | CATTTTGGTGCAAAATGAGA+GGG | + | chr2_2:1320636-1320655 | None:intergenic | 35.0% |
| !! | ACATTTTGGTGCAAAATGAG+AGG | + | chr2_2:1320637-1320656 | None:intergenic | 35.0% |
| GAATCAAAAGGAAACAGATG+TGG | - | chr2_2:1320746-1320765 | Msa0229540:CDS | 35.0% | |
| GCTTAGACAAGGAACCAAAT+AGG | + | chr2_2:1320558-1320577 | None:intergenic | 40.0% | |
| CAAAAGGAAACAGATGTGGA+TGG | - | chr2_2:1320750-1320769 | Msa0229540:CDS | 40.0% | |
| AGCACTTGCAGCAACAGATA+TGG | - | chr2_2:1320187-1320206 | Msa0229540:CDS | 45.0% | |
| AATCCAGGATAGCCACACAT+GGG | + | chr2_2:1320287-1320306 | None:intergenic | 45.0% | |
| AACCATCAAGCACCCATGTG+TGG | - | chr2_2:1320272-1320291 | Msa0229540:CDS | 50.0% | |
| GAATCCAGGATAGCCACACA+TGG | + | chr2_2:1320288-1320307 | None:intergenic | 50.0% | |
| ! | GAGGTTGAGGTGCTTAGACA+AGG | + | chr2_2:1320569-1320588 | None:intergenic | 50.0% |
| TGGTGCAAAATGAGAGGGGA+AGG | + | chr2_2:1320631-1320650 | None:intergenic | 50.0% | |
| AGCCACACATGGGTGCTTGA+TGG | + | chr2_2:1320277-1320296 | None:intergenic | 55.0% | |
| GCACCCATGTGTGGCTATCC+TGG | - | chr2_2:1320281-1320300 | Msa0229540:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 1320140 | 1320853 | 1320140 | ID=Msa0229540;Name=Msa0229540 |
| chr2_2 | mRNA | 1320140 | 1320853 | 1320140 | ID=Msa0229540-mRNA-1;Parent=Msa0229540;Name=Msa0229540-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|237 |
| chr2_2 | exon | 1320140 | 1320853 | 1320140 | ID=Msa0229540-mRNA-1:exon:456;Parent=Msa0229540-mRNA-1 |
| chr2_2 | CDS | 1320140 | 1320853 | 1320140 | ID=Msa0229540-mRNA-1:cds;Parent=Msa0229540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
