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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871920 | KEH26293.1 | 97.890 | 237 | 5 | 0 | 1 | 237 | 1 | 237 | 3.00e-170 | 483 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871920 | sp|Q9SZL8|FRS5_ARATH | 30.769 | 234 | 156 | 4 | 2 | 235 | 62 | 289 | 3.95e-29 | 118 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871920 | A0A072UB45 | 97.890 | 237 | 5 | 0 | 1 | 237 | 1 | 237 | 1.43e-170 | 483 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0871920 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871920 | MtrunA17_Chr8g0363841 | 72.574 | 237 | 61 | 1 | 1 | 237 | 1 | 233 | 3.40e-122 | 362 |
| Msa0871920 | MtrunA17_Chr7g0258861 | 28.440 | 218 | 148 | 3 | 19 | 234 | 12 | 223 | 2.74e-27 | 106 |
| Msa0871920 | MtrunA17_Chr5g0448761 | 33.333 | 180 | 115 | 4 | 62 | 237 | 104 | 282 | 3.66e-27 | 109 |
| Msa0871920 | MtrunA17_Chr2g0287651 | 27.488 | 211 | 149 | 3 | 27 | 236 | 85 | 292 | 1.48e-25 | 104 |
| Msa0871920 | MtrunA17_Chr2g0324011 | 30.222 | 225 | 143 | 6 | 13 | 234 | 9 | 222 | 5.90e-25 | 102 |
| Msa0871920 | MtrunA17_Chr1g0202341 | 29.825 | 228 | 147 | 7 | 14 | 237 | 48 | 266 | 4.04e-24 | 100 |
| Msa0871920 | MtrunA17_Chr2g0291581 | 28.000 | 250 | 151 | 4 | 1 | 240 | 45 | 275 | 7.45e-24 | 99.8 |
| Msa0871920 | MtrunA17_Chr3g0082121 | 26.761 | 213 | 138 | 6 | 25 | 234 | 51 | 248 | 1.01e-20 | 90.5 |
| Msa0871920 | MtrunA17_Chr5g0440451 | 25.105 | 239 | 141 | 8 | 18 | 237 | 44 | 263 | 1.20e-20 | 90.5 |
| Msa0871920 | MtrunA17_Chr2g0291591 | 25.118 | 211 | 149 | 3 | 27 | 237 | 74 | 275 | 5.12e-20 | 88.6 |
| Msa0871920 | MtrunA17_Chr1g0207551 | 26.389 | 216 | 142 | 5 | 25 | 235 | 42 | 245 | 3.21e-19 | 86.3 |
| Msa0871920 | MtrunA17_Chr1g0203721 | 23.853 | 218 | 156 | 5 | 19 | 232 | 65 | 276 | 2.47e-18 | 84.0 |
| Msa0871920 | MtrunA17_Chr2g0287061 | 25.532 | 235 | 133 | 6 | 7 | 240 | 173 | 366 | 2.58e-18 | 83.6 |
| Msa0871920 | MtrunA17_Chr2g0296781 | 27.315 | 216 | 142 | 4 | 25 | 237 | 5 | 208 | 8.78e-18 | 82.0 |
| Msa0871920 | MtrunA17_Chr6g0458391 | 23.982 | 221 | 142 | 5 | 19 | 237 | 227 | 423 | 1.36e-17 | 81.6 |
| Msa0871920 | MtrunA17_Chr2g0294841 | 28.319 | 226 | 150 | 5 | 18 | 235 | 46 | 267 | 3.57e-17 | 80.5 |
| Msa0871920 | MtrunA17_Chr1g0203051 | 24.299 | 214 | 150 | 5 | 26 | 235 | 88 | 293 | 1.26e-16 | 78.6 |
| Msa0871920 | MtrunA17_Chr5g0441581 | 23.474 | 213 | 143 | 5 | 27 | 237 | 42 | 236 | 1.03e-14 | 73.2 |
| Msa0871920 | MtrunA17_Chr1g0198761 | 26.316 | 228 | 156 | 6 | 17 | 235 | 47 | 271 | 1.50e-14 | 72.8 |
| Msa0871920 | MtrunA17_Chr2g0276841 | 25.225 | 222 | 159 | 4 | 18 | 235 | 71 | 289 | 1.61e-14 | 72.4 |
| Msa0871920 | MtrunA17_Chr1g0164591 | 29.231 | 130 | 83 | 2 | 105 | 234 | 8 | 128 | 1.82e-14 | 71.6 |
| Msa0871920 | MtrunA17_Chr2g0329421 | 31.579 | 114 | 70 | 3 | 11 | 124 | 24 | 129 | 1.09e-12 | 65.1 |
| Msa0871920 | MtrunA17_Chr2g0290391 | 26.721 | 247 | 158 | 8 | 7 | 235 | 37 | 278 | 2.11e-12 | 66.2 |
| Msa0871920 | MtrunA17_Chr2g0329031 | 24.299 | 214 | 140 | 6 | 25 | 234 | 22 | 217 | 5.84e-12 | 65.1 |
| Msa0871920 | MtrunA17_Chr1g0196541 | 22.120 | 217 | 152 | 4 | 25 | 237 | 5 | 208 | 5.67e-11 | 62.0 |
| Msa0871920 | MtrunA17_Chr3g0080351 | 22.907 | 227 | 140 | 6 | 20 | 236 | 79 | 280 | 7.34e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871920 | AT4G38180.1 | 30.769 | 234 | 156 | 4 | 2 | 235 | 62 | 289 | 4.01e-30 | 118 |
| Msa0871920 | AT4G15090.1 | 26.147 | 218 | 145 | 5 | 25 | 236 | 59 | 266 | 1.49e-18 | 84.7 |
| Msa0871920 | AT4G15090.5 | 26.147 | 218 | 145 | 5 | 25 | 236 | 59 | 266 | 1.49e-18 | 84.7 |
| Msa0871920 | AT4G15090.3 | 26.147 | 218 | 145 | 5 | 25 | 236 | 59 | 266 | 1.49e-18 | 84.7 |
| Msa0871920 | AT4G15090.2 | 26.147 | 218 | 145 | 5 | 25 | 236 | 59 | 266 | 1.49e-18 | 84.7 |
| Msa0871920 | AT4G15090.4 | 26.147 | 218 | 145 | 5 | 25 | 236 | 59 | 266 | 1.49e-18 | 84.7 |
| Msa0871920 | AT1G52520.1 | 26.840 | 231 | 150 | 5 | 10 | 240 | 81 | 292 | 6.36e-18 | 82.8 |
| Msa0871920 | AT3G06250.2 | 25.833 | 240 | 129 | 7 | 2 | 239 | 177 | 369 | 8.33e-18 | 82.4 |
| Msa0871920 | AT3G06250.1 | 25.833 | 240 | 129 | 7 | 2 | 239 | 177 | 369 | 8.33e-18 | 82.4 |
| Msa0871920 | AT3G06250.3 | 25.833 | 240 | 129 | 7 | 2 | 239 | 177 | 369 | 8.33e-18 | 82.4 |
| Msa0871920 | AT2G27110.2 | 23.744 | 219 | 136 | 4 | 19 | 237 | 51 | 238 | 4.02e-16 | 77.8 |
| Msa0871920 | AT2G27110.1 | 23.744 | 219 | 136 | 4 | 19 | 237 | 51 | 238 | 4.02e-16 | 77.8 |
| Msa0871920 | AT3G22170.2 | 26.496 | 234 | 132 | 7 | 20 | 240 | 73 | 279 | 4.12e-15 | 74.7 |
| Msa0871920 | AT3G22170.1 | 26.496 | 234 | 132 | 7 | 20 | 240 | 73 | 279 | 4.12e-15 | 74.7 |
| Msa0871920 | AT5G28530.3 | 24.194 | 248 | 171 | 5 | 1 | 235 | 39 | 282 | 9.70e-15 | 73.6 |
| Msa0871920 | AT5G28530.2 | 24.194 | 248 | 171 | 5 | 1 | 235 | 39 | 282 | 9.70e-15 | 73.6 |
| Msa0871920 | AT5G28530.1 | 24.194 | 248 | 171 | 5 | 1 | 235 | 39 | 282 | 1.11e-14 | 73.6 |
| Msa0871920 | AT1G10240.2 | 27.753 | 227 | 147 | 7 | 18 | 235 | 49 | 267 | 1.16e-14 | 73.2 |
| Msa0871920 | AT1G10240.1 | 27.753 | 227 | 147 | 7 | 18 | 235 | 49 | 267 | 1.16e-14 | 73.2 |
| Msa0871920 | AT5G28530.4 | 26.500 | 200 | 138 | 5 | 1 | 196 | 39 | 233 | 2.03e-12 | 66.6 |
| Msa0871920 | AT5G28530.5 | 26.500 | 200 | 138 | 5 | 1 | 196 | 39 | 233 | 2.14e-12 | 66.6 |
| Msa0871920 | AT3G59470.2 | 30.088 | 113 | 71 | 3 | 12 | 124 | 80 | 184 | 8.77e-12 | 63.5 |
| Msa0871920 | AT3G59470.3 | 30.088 | 113 | 71 | 3 | 12 | 124 | 68 | 172 | 8.78e-12 | 63.5 |
| Msa0871920 | AT3G59470.1 | 30.088 | 113 | 71 | 3 | 12 | 124 | 68 | 172 | 8.78e-12 | 63.5 |
| Msa0871920 | AT1G80010.1 | 24.000 | 225 | 155 | 5 | 20 | 237 | 98 | 313 | 1.29e-11 | 64.3 |
| Msa0871920 | AT5G18960.2 | 23.950 | 238 | 132 | 8 | 5 | 239 | 202 | 393 | 1.70e-11 | 63.9 |
| Msa0871920 | AT5G18960.1 | 23.950 | 238 | 132 | 8 | 5 | 239 | 202 | 393 | 1.70e-11 | 63.9 |
Find 42 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTAATGTTTGGAGTTATTT+AGG | 0.178667 | 6_1:+7194114 | Msa0871920:CDS |
| CCATCTTGAAGCCATGTTCT+TGG | 0.280191 | 6_1:-7193747 | None:intergenic |
| CACGTTTAACCAATGTGTTT+TGG | 0.307246 | 6_1:+7194316 | Msa0871920:CDS |
| GCGAATTACTAAGTTGATAA+TGG | 0.317295 | 6_1:+7193975 | Msa0871920:CDS |
| GAAAAGAGTAAATTAATTAA+AGG | 0.318587 | 6_1:+7194204 | Msa0871920:CDS |
| CATTGGTTAAACGTGATTCT+TGG | 0.328206 | 6_1:-7194308 | None:intergenic |
| ATTGTTCTTAAACCCTTGTT+TGG | 0.337062 | 6_1:-7193848 | None:intergenic |
| CGATTTAATGTTAGCAAGAA+TGG | 0.360075 | 6_1:+7193946 | Msa0871920:CDS |
| TCACCTACGATTTCTCCTTC+TGG | 0.371892 | 6_1:-7193874 | None:intergenic |
| GCAAGTGATTGATTAAAGAT+TGG | 0.373633 | 6_1:-7194236 | None:intergenic |
| CAAGTGATTGATTAAAGATT+GGG | 0.384672 | 6_1:-7194235 | None:intergenic |
| GTATGAAAGTTACTAATGTT+TGG | 0.386893 | 6_1:+7194103 | Msa0871920:CDS |
| AGACTTTATGAGACCTCCTT+TGG | 0.388927 | 6_1:-7194067 | None:intergenic |
| AGGAGGTCTCATAAAGTCTA+TGG | 0.403748 | 6_1:+7194071 | Msa0871920:CDS |
| TTATTAGCCACAATGAACTT+TGG | 0.434313 | 6_1:-7194352 | None:intergenic |
| CTTATCAAAGGGCTGATTCA+AGG | 0.444079 | 6_1:+7193902 | Msa0871920:CDS |
| TATTTAGGAGAAGAGGTTGG+TGG | 0.461595 | 6_1:+7194129 | Msa0871920:CDS |
| GTTGGTGGATTTGATAAGCT+TGG | 0.492644 | 6_1:+7194144 | Msa0871920:CDS |
| CAAGAACATGGCTTCAAGAT+GGG | 0.500638 | 6_1:+7193748 | Msa0871920:CDS |
| CCAAGAACATGGCTTCAAGA+TGG | 0.507821 | 6_1:+7193747 | Msa0871920:CDS |
| AGTTATTTAGGAGAAGAGGT+TGG | 0.508257 | 6_1:+7194126 | Msa0871920:CDS |
| TTGGAGTTATTTAGGAGAAG+AGG | 0.526196 | 6_1:+7194122 | Msa0871920:CDS |
| GATTATTATTGTTCCAAACA+AGG | 0.530481 | 6_1:+7193835 | Msa0871920:CDS |
| TAGGTGAAGTTGCTTATCAA+AGG | 0.533461 | 6_1:+7193890 | Msa0871920:CDS |
| AAGAGTAAATTAATTAAAGG+TGG | 0.536645 | 6_1:+7194207 | Msa0871920:CDS |
| AATGGATCACAACCATGCTT+TGG | 0.538091 | 6_1:+7193993 | Msa0871920:CDS |
| ATTATTATTGTTCCAAACAA+GGG | 0.540953 | 6_1:+7193836 | Msa0871920:CDS |
| AGGTGAAGTTGCTTATCAAA+GGG | 0.546039 | 6_1:+7193891 | Msa0871920:CDS |
| ATGTTAGCAAGAATGGAGAA+TGG | 0.552161 | 6_1:+7193953 | Msa0871920:CDS |
| AAGGACAAATTGTAAAGCAA+TGG | 0.564077 | 6_1:+7193921 | Msa0871920:CDS |
| ATAAAGTCTATGGTGAATGC+TGG | 0.565519 | 6_1:+7194081 | Msa0871920:CDS |
| GCTCGAGCGGCACCAAAGCA+TGG | 0.565748 | 6_1:-7194005 | None:intergenic |
| TGGTCAAGTTGTGCATAGCA+AGG | 0.581013 | 6_1:+7193705 | Msa0871920:CDS |
| ACCATCTCTCCAAAACACAT+TGG | 0.590535 | 6_1:-7194325 | None:intergenic |
| CTGCACACTATAGTAGAACA+TGG | 0.618082 | 6_1:-7194280 | None:intergenic |
| TTTAAGAACAATGAACCAGA+AGG | 0.621796 | 6_1:+7193859 | Msa0871920:CDS |
| GAACCAGAAGGAGAAATCGT+AGG | 0.643994 | 6_1:+7193871 | Msa0871920:CDS |
| AGAAAAGTATCAGAAACCAA+AGG | 0.645801 | 6_1:+7194051 | Msa0871920:CDS |
| GGTAAATCCAAAGTTCATTG+TGG | 0.651472 | 6_1:+7194345 | Msa0871920:CDS |
| AACAAATGTCTTTGCTCGAG+CGG | 0.656974 | 6_1:-7194018 | None:intergenic |
| TATAACTTATACCAAGAACA+TGG | 0.669118 | 6_1:+7193736 | Msa0871920:CDS |
| AAAGTATCAGAAACCAAAGG+AGG | 0.690747 | 6_1:+7194054 | Msa0871920:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAAAGAGTAAATTAATTAA+AGG | + | chr6_1:7194204-7194223 | Msa0871920:CDS | 15.0% |
| !! | ATTATTATTGTTCCAAACAA+GGG | + | chr6_1:7193836-7193855 | Msa0871920:CDS | 20.0% |
| !! | AAGAGTAAATTAATTAAAGG+TGG | + | chr6_1:7194207-7194226 | Msa0871920:CDS | 20.0% |
| ! | TATAACTTATACCAAGAACA+TGG | + | chr6_1:7193736-7193755 | Msa0871920:CDS | 25.0% |
| ! | GATTATTATTGTTCCAAACA+AGG | + | chr6_1:7193835-7193854 | Msa0871920:CDS | 25.0% |
| ! | GTATGAAAGTTACTAATGTT+TGG | + | chr6_1:7194103-7194122 | Msa0871920:CDS | 25.0% |
| !! | ACTAATGTTTGGAGTTATTT+AGG | + | chr6_1:7194114-7194133 | Msa0871920:CDS | 25.0% |
| ! | CAAGTGATTGATTAAAGATT+GGG | - | chr6_1:7194238-7194257 | None:intergenic | 25.0% |
| TGACCAAGAAAAATATCTCT+GGG | - | chr6_1:7193691-7193710 | None:intergenic | 30.0% | |
| TTGACCAAGAAAAATATCTC+TGG | - | chr6_1:7193692-7193711 | None:intergenic | 30.0% | |
| ATTGTTCTTAAACCCTTGTT+TGG | - | chr6_1:7193851-7193870 | None:intergenic | 30.0% | |
| TTTAAGAACAATGAACCAGA+AGG | + | chr6_1:7193859-7193878 | Msa0871920:CDS | 30.0% | |
| AAGGACAAATTGTAAAGCAA+TGG | + | chr6_1:7193921-7193940 | Msa0871920:CDS | 30.0% | |
| CGATTTAATGTTAGCAAGAA+TGG | + | chr6_1:7193946-7193965 | Msa0871920:CDS | 30.0% | |
| !! | GCGAATTACTAAGTTGATAA+TGG | + | chr6_1:7193975-7193994 | Msa0871920:CDS | 30.0% |
| !! | AGAAAAGTATCAGAAACCAA+AGG | + | chr6_1:7194051-7194070 | Msa0871920:CDS | 30.0% |
| GCAAGTGATTGATTAAAGAT+TGG | - | chr6_1:7194239-7194258 | None:intergenic | 30.0% | |
| ! | AAGCCCAGAGATATTTTTCT+TGG | + | chr6_1:7193685-7193704 | Msa0871920:CDS | 35.0% |
| !! | ATGGGTTTTAGTGTGAGAAA+AGG | + | chr6_1:7193766-7193785 | Msa0871920:CDS | 35.0% |
| !! | TGGGTTTTAGTGTGAGAAAA+GGG | + | chr6_1:7193767-7193786 | Msa0871920:CDS | 35.0% |
| ! | TTTTAGTGTGAGAAAAGGGA+AGG | + | chr6_1:7193771-7193790 | Msa0871920:CDS | 35.0% |
| TAGGTGAAGTTGCTTATCAA+AGG | + | chr6_1:7193890-7193909 | Msa0871920:CDS | 35.0% | |
| AGGTGAAGTTGCTTATCAAA+GGG | + | chr6_1:7193891-7193910 | Msa0871920:CDS | 35.0% | |
| ATGTTAGCAAGAATGGAGAA+TGG | + | chr6_1:7193953-7193972 | Msa0871920:CDS | 35.0% | |
| ! | AAAGTATCAGAAACCAAAGG+AGG | + | chr6_1:7194054-7194073 | Msa0871920:CDS | 35.0% |
| ATAAAGTCTATGGTGAATGC+TGG | + | chr6_1:7194081-7194100 | Msa0871920:CDS | 35.0% | |
| TTGGAGTTATTTAGGAGAAG+AGG | + | chr6_1:7194122-7194141 | Msa0871920:CDS | 35.0% | |
| AGTTATTTAGGAGAAGAGGT+TGG | + | chr6_1:7194126-7194145 | Msa0871920:CDS | 35.0% | |
| ! | CATTGGTTAAACGTGATTCT+TGG | - | chr6_1:7194311-7194330 | None:intergenic | 35.0% |
| ! | CACGTTTAACCAATGTGTTT+TGG | + | chr6_1:7194316-7194335 | Msa0871920:CDS | 35.0% |
| GGTAAATCCAAAGTTCATTG+TGG | + | chr6_1:7194345-7194364 | Msa0871920:CDS | 35.0% | |
| CAAGAACATGGCTTCAAGAT+GGG | + | chr6_1:7193748-7193767 | Msa0871920:CDS | 40.0% | |
| ! | CTTATCAAAGGGCTGATTCA+AGG | + | chr6_1:7193902-7193921 | Msa0871920:CDS | 40.0% |
| AATGGATCACAACCATGCTT+TGG | + | chr6_1:7193993-7194012 | Msa0871920:CDS | 40.0% | |
| AACAAATGTCTTTGCTCGAG+CGG | - | chr6_1:7194021-7194040 | None:intergenic | 40.0% | |
| AGACTTTATGAGACCTCCTT+TGG | - | chr6_1:7194070-7194089 | None:intergenic | 40.0% | |
| AGGAGGTCTCATAAAGTCTA+TGG | + | chr6_1:7194071-7194090 | Msa0871920:CDS | 40.0% | |
| TATTTAGGAGAAGAGGTTGG+TGG | + | chr6_1:7194129-7194148 | Msa0871920:CDS | 40.0% | |
| !! | GTTGGTGGATTTGATAAGCT+TGG | + | chr6_1:7194144-7194163 | Msa0871920:CDS | 40.0% |
| CTGCACACTATAGTAGAACA+TGG | - | chr6_1:7194283-7194302 | None:intergenic | 40.0% | |
| !!! | ACCAATGTGTTTTGGAGAGA+TGG | + | chr6_1:7194324-7194343 | Msa0871920:CDS | 40.0% |
| ACCATCTCTCCAAAACACAT+TGG | - | chr6_1:7194328-7194347 | None:intergenic | 40.0% | |
| ! | TGGTCAAGTTGTGCATAGCA+AGG | + | chr6_1:7193705-7193724 | Msa0871920:CDS | 45.0% |
| CCATCTTGAAGCCATGTTCT+TGG | - | chr6_1:7193750-7193769 | None:intergenic | 45.0% | |
| CCAAGAACATGGCTTCAAGA+TGG | + | chr6_1:7193747-7193766 | Msa0871920:CDS | 45.0% | |
| GAACCAGAAGGAGAAATCGT+AGG | + | chr6_1:7193871-7193890 | Msa0871920:CDS | 45.0% | |
| TCACCTACGATTTCTCCTTC+TGG | - | chr6_1:7193877-7193896 | None:intergenic | 45.0% | |
| GCTCGAGCGGCACCAAAGCA+TGG | - | chr6_1:7194008-7194027 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 7193649 | 7194371 | 7193649 | ID=Msa0871920;Name=Msa0871920 |
| chr6_1 | mRNA | 7193649 | 7194371 | 7193649 | ID=Msa0871920-mRNA-1;Parent=Msa0871920;Name=Msa0871920-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|240 |
| chr6_1 | exon | 7193649 | 7194371 | 7193649 | ID=Msa0871920-mRNA-1:exon:2171;Parent=Msa0871920-mRNA-1 |
| chr6_1 | CDS | 7193649 | 7194371 | 7193649 | ID=Msa0871920-mRNA-1:cds;Parent=Msa0871920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
