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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351650 | XP_003592879.2 | 96.676 | 361 | 10 | 2 | 1 | 361 | 15 | 373 | 0.0 | 719 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351650 | sp|Q40541|NPK1_TOBAC | 39.373 | 287 | 137 | 7 | 1 | 277 | 85 | 344 | 6.02e-58 | 202 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351650 | MtrunA17_Chr2g0276831 | 96.676 | 361 | 10 | 2 | 1 | 361 | 15 | 373 | 0.0 | 719 |
| Msa1351650 | MtrunA17_Chr7g0272841 | 39.032 | 310 | 146 | 8 | 1 | 293 | 73 | 356 | 1.59e-59 | 203 |
| Msa1351650 | MtrunA17_Chr4g0052981 | 34.153 | 366 | 194 | 11 | 2 | 359 | 9 | 335 | 3.20e-59 | 194 |
| Msa1351650 | MtrunA17_Chr2g0322401 | 33.425 | 362 | 197 | 11 | 1 | 359 | 10 | 330 | 6.28e-57 | 190 |
| Msa1351650 | MtrunA17_Chr8g0375141 | 34.060 | 367 | 193 | 12 | 2 | 359 | 48 | 374 | 6.56e-57 | 189 |
| Msa1351650 | MtrunA17_Chr5g0402111 | 37.143 | 280 | 144 | 8 | 2 | 275 | 9 | 262 | 7.42e-57 | 187 |
| Msa1351650 | MtrunA17_Chr3g0130151 | 38.542 | 288 | 140 | 7 | 1 | 281 | 249 | 506 | 3.91e-56 | 194 |
| Msa1351650 | MtrunA17_Chr4g0052961 | 36.335 | 322 | 169 | 9 | 2 | 320 | 46 | 334 | 6.83e-56 | 187 |
| Msa1351650 | MtrunA17_Chr4g0025041 | 39.203 | 301 | 141 | 12 | 2 | 296 | 9 | 273 | 6.40e-55 | 185 |
| Msa1351650 | MtrunA17_Chr1g0205931 | 37.063 | 286 | 144 | 7 | 1 | 276 | 60 | 319 | 7.95e-55 | 190 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351650 | AT5G55090.1 | 39.535 | 301 | 146 | 9 | 1 | 296 | 11 | 280 | 2.26e-60 | 201 |
| Msa1351650 | AT5G55090.2 | 41.367 | 278 | 128 | 9 | 1 | 275 | 73 | 318 | 3.77e-59 | 199 |
| Msa1351650 | AT1G09000.2 | 35.792 | 366 | 184 | 10 | 1 | 350 | 74 | 404 | 1.34e-58 | 200 |
| Msa1351650 | AT1G09000.1 | 35.792 | 366 | 184 | 10 | 1 | 350 | 74 | 404 | 4.99e-58 | 199 |
| Msa1351650 | AT4G26890.1 | 39.610 | 308 | 147 | 10 | 1 | 303 | 10 | 283 | 1.86e-57 | 193 |
| Msa1351650 | AT1G07150.2 | 37.748 | 302 | 148 | 9 | 2 | 296 | 15 | 283 | 1.50e-56 | 192 |
| Msa1351650 | AT1G07150.1 | 37.748 | 302 | 148 | 9 | 2 | 296 | 29 | 297 | 2.42e-56 | 191 |
| Msa1351650 | AT3G06030.1 | 38.127 | 299 | 148 | 8 | 1 | 289 | 73 | 344 | 7.39e-56 | 193 |
| Msa1351650 | AT1G54960.1 | 36.585 | 328 | 163 | 9 | 1 | 310 | 73 | 373 | 1.37e-55 | 192 |
| Msa1351650 | AT1G54960.2 | 36.585 | 328 | 163 | 9 | 1 | 310 | 73 | 373 | 1.37e-55 | 192 |
Find 84 sgRNAs with CRISPR-Local
Find 210 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAGTTTCTGTGCCCACA+AGG | 0.682941 | tig0012345:+10173 | Msa1351650:CDS |
| AAAGTAGTTGAAACAAGAAA+TGG | 0.447215 | tig0012345:-9993 | None:intergenic |
| AACTGGAAGACAGTGCATCA+GGG | 0.621540 | tig0012345:+10210 | Msa1351650:CDS |
| AAGGGTAAAATGGTTGGATG+TGG | 0.544948 | tig0012345:+9168 | None:intergenic |
| AAGTTTGACATTCCCAGATG+AGG | 0.603375 | tig0012345:-9562 | None:intergenic |
| AATGTCAAACTTGCAGATTT+TGG | 0.278972 | tig0012345:+9573 | Msa1351650:CDS |
| AATTAGTATGTCCAGCAGGA+GGG | 0.637641 | tig0012345:+10132 | Msa1351650:CDS |
| ACAGTGCATCAGGGAATCAT+TGG | 0.450692 | tig0012345:+10219 | Msa1351650:CDS |
| ACGTGATGCTCTGGAGAACG+AGG | 0.644191 | tig0012345:+9272 | Msa1351650:CDS |
| ACTCCATGAAAACATGCAGT+TGG | 0.604150 | tig0012345:-9377 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CCTAAACATTGGACAATATA+GGG | - | tig0012345:9333-9352 | None:intergenic | 30.0% | |
| CCTATATTGTCCAATGTTTA+GGG | + | tig0012345:9331-9350 | Msa1351650:CDS | 30.0% | |
| TATACTAGACAAATTGTGCA+TGG | + | tig0012345:9474-9493 | Msa1351650:CDS | 30.0% | |
| ATACTAGACAAATTGTGCAT+GGG | + | tig0012345:9475-9494 | Msa1351650:CDS | 30.0% | |
| TTATATCATCTTCACCAACA+TGG | + | tig0012345:9498-9517 | Msa1351650:CDS | 30.0% | |
| CATTTCCATTTCAAATCCAA+TGG | + | tig0012345:9830-9849 | Msa1351650:CDS | 30.0% | |
| GAGAAATGAATTGGAAATTG+AGG | - | tig0012345:9891-9910 | None:intergenic | 30.0% | |
| ATTTCCAATTCATTTCTCTC+AGG | + | tig0012345:9893-9912 | Msa1351650:CDS | 30.0% | |
| TAGTTGAAACAAGAAATGGA+TGG | - | tig0012345:9992-10011 | None:intergenic | 30.0% | |
| ATTGGATCACTATTAGATCA+AGG | + | tig0012345:10237-10256 | Msa1351650:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0012345 | gene | 9177 | 10262 | 9177 | ID=Msa1351650;Name=Msa1351650 |
| tig0012345 | mRNA | 9177 | 10262 | 9177 | ID=Msa1351650-mRNA-1;Parent=Msa1351650;Name=Msa1351650-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|361 |
| tig0012345 | exon | 9177 | 10262 | 9177 | ID=Msa1351650-mRNA-1:exon:7810;Parent=Msa1351650-mRNA-1 |
| tig0012345 | CDS | 9177 | 10262 | 9177 | ID=Msa1351650-mRNA-1:cds;Parent=Msa1351650-mRNA-1 |
| Gene Sequence |
>Msa1351650 ATGGTTGGATGTGGATCTTTTGGCTGTGTCCATCTAGCCATGAACAAATCCACCGGTGGACTTTTTGTGGTGAAAAAAGCGCATTCAGAGGCAGGACGTGATGCTCTGGAGAACGAGGTGAATATCCTAAATACATTAAATTCATCACCTTCACCCTATATTGTCCAATGTTTAGGGACAGATTATGATCATCAAGATAACCAACTGCATGTTTTCATGGAGTATATGTCCGGGGGTAGTTTGGCTGACGTGTCACACAAGTTTGGTGGTTCAATAGATGAAGATGTTGTTCGTGTGTATACTAGACAAATTGTGCATGGGTTATATCATCTTCACCAACATGGAATTGTACATTGTGACCTTAAGTGCAAAAACGTGCTTTTGGCCTCATCTGGGAATGTCAAACTTGCAGATTTTGGGTGTGCAAAAAGGGTCAAGAAAAACATGAACATGAACAAATCTTCATCATATATTATTGCTAATGGTGGCACTCCTCTATGGATGGCTCCCGAAGTATTATTAATGAAGAATGATAGTAGTATTAATGATGAGAGCCGGGTTGTTGTTGATTTTGCAGCAGCAGATATATGGTCTTTGGGATGTACTGTTATTGAAATGGCCACTGGCAGGCCTCCTTGGGTCGACGATGACCTCATTTCCATTTCAAATCCAATGGCTGCTATGTTTAAGATTGCATGTGGTGATGGGATACCTCAATTTCCAATTCATTTCTCTCAGGAGGGTTTTGATTTCTTGAGGAGGTGTTTGGTGAGAGATCCCAAAAAGAGGTCTACCGCACAGGAGTTGCTTAACCATCCATTTCTTGTTTCAACTACTTTAACTCATCACAAACACTACTCTGCTTCCTCGCCCGCATCTGTCTTGGAGGTTCATCAGTTTGAGGATACATATGATGATGATGATGACGACGACGACGACTCAGATGATAATGATGAATTAGTATGTCCAGCAGGAGGGAATCATTTCTCCATCACGAAAGAGTTTCTGTGCCCACAAGGAACAACAATGTGGCAACTGGAAGACAGTGCATCAGGGAATCATTGGATCACTATTAGATCAAGGTGA |
| Protein sequence |
>Msa1351650 MVGCGSFGCVHLAMNKSTGGLFVVKKAHSEAGRDALENEVNILNTLNSSPSPYIVQCLGTDYDHQDNQLHVFMEYMSGGSLADVSHKFGGSIDEDVVRVYTRQIVHGLYHLHQHGIVHCDLKCKNVLLASSGNVKLADFGCAKRVKKNMNMNKSSSYIIANGGTPLWMAPEVLLMKNDSSINDESRVVVDFAAADIWSLGCTVIEMATGRPPWVDDDLISISNPMAAMFKIACGDGIPQFPIHFSQEGFDFLRRCLVRDPKKRSTAQELLNHPFLVSTTLTHHKHYSASSPASVLEVHQFEDTYDDDDDDDDDSDDNDELVCPAGGNHFSITKEFLCPQGTTMWQLEDSASGNHWITIRSR* |
