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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102320 | XP_013448241.2 | 84.545 | 110 | 12 | 1 | 1 | 105 | 335 | 444 | 2.51e-55 | 187 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102320 | sp|Q9LW07|PGLR3_ARATH | 40.517 | 116 | 58 | 4 | 1 | 105 | 273 | 388 | 2.13e-14 | 70.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102320 | A0A396H0N4 | 84.545 | 110 | 12 | 1 | 1 | 105 | 320 | 429 | 2.22e-55 | 187 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0824590 | Msa1102320 | 0.804289 | 2.320442e-49 | -8.615850e-47 |
| Msa1016020 | Msa1102320 | 0.881419 | 2.437549e-70 | -8.615850e-47 |
| Msa1064150 | Msa1102320 | 0.834369 | 3.118822e-56 | -8.615850e-47 |
| Msa0919860 | Msa1102320 | 0.809680 | 1.678526e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102320 | MtrunA17_Chr7g0228411 | 84.545 | 110 | 12 | 1 | 1 | 105 | 320 | 429 | 4.28e-59 | 187 |
| Msa1102320 | MtrunA17_Chr8g0337511 | 64.151 | 106 | 37 | 1 | 1 | 105 | 137 | 242 | 4.16e-41 | 135 |
| Msa1102320 | MtrunA17_Chr8g0337531 | 53.704 | 108 | 45 | 3 | 1 | 105 | 25 | 130 | 1.98e-30 | 105 |
| Msa1102320 | MtrunA17_Chr8g0337601 | 55.140 | 107 | 45 | 2 | 1 | 105 | 134 | 239 | 2.85e-29 | 105 |
| Msa1102320 | MtrunA17_Chr8g0337571 | 57.009 | 107 | 43 | 2 | 1 | 105 | 282 | 387 | 3.08e-29 | 107 |
| Msa1102320 | MtrunA17_Chr8g0337561 | 51.402 | 107 | 49 | 2 | 1 | 105 | 8 | 113 | 1.95e-27 | 97.1 |
| Msa1102320 | MtrunA17_Chr8g0337581 | 52.336 | 107 | 48 | 2 | 1 | 105 | 283 | 388 | 9.98e-27 | 101 |
| Msa1102320 | MtrunA17_Chr6g0461181 | 48.148 | 108 | 51 | 3 | 1 | 105 | 328 | 433 | 4.50e-22 | 89.0 |
| Msa1102320 | MtrunA17_Chr4g0018151 | 46.957 | 115 | 49 | 4 | 1 | 105 | 327 | 439 | 2.62e-21 | 87.0 |
| Msa1102320 | MtrunA17_Chr3g0121881 | 45.455 | 110 | 53 | 3 | 2 | 105 | 290 | 398 | 1.11e-20 | 84.7 |
| Msa1102320 | MtrunA17_Chr3g0121891 | 44.444 | 108 | 54 | 3 | 1 | 105 | 290 | 394 | 1.72e-19 | 81.6 |
| Msa1102320 | MtrunA17_Chr2g0332971 | 41.228 | 114 | 56 | 3 | 1 | 105 | 290 | 401 | 7.81e-19 | 79.7 |
| Msa1102320 | MtrunA17_Chr3g0100091 | 41.667 | 108 | 57 | 3 | 1 | 105 | 241 | 345 | 4.18e-18 | 77.4 |
| Msa1102320 | MtrunA17_Chr4g0043661 | 41.026 | 117 | 56 | 4 | 1 | 105 | 278 | 393 | 9.41e-18 | 76.6 |
| Msa1102320 | MtrunA17_Chr1g0149241 | 42.708 | 96 | 53 | 1 | 1 | 94 | 254 | 349 | 2.92e-17 | 75.1 |
| Msa1102320 | MtrunA17_Chr5g0418411 | 49.091 | 110 | 50 | 3 | 1 | 105 | 287 | 395 | 5.76e-17 | 74.7 |
| Msa1102320 | MtrunA17_Chr8g0336481 | 57.143 | 63 | 27 | 0 | 1 | 63 | 205 | 267 | 1.25e-16 | 72.8 |
| Msa1102320 | MtrunA17_Chr1g0150301 | 37.037 | 108 | 65 | 2 | 1 | 105 | 284 | 391 | 5.09e-15 | 68.9 |
| Msa1102320 | MtrunA17_Chr1g0150291 | 36.458 | 96 | 59 | 1 | 1 | 94 | 302 | 397 | 3.28e-13 | 63.9 |
| Msa1102320 | MtrunA17_Chr3g0089021 | 38.776 | 98 | 52 | 3 | 1 | 91 | 327 | 423 | 2.79e-12 | 61.2 |
| Msa1102320 | MtrunA17_Chr4g0052621 | 34.513 | 113 | 66 | 4 | 1 | 105 | 330 | 442 | 3.95e-12 | 60.8 |
| Msa1102320 | MtrunA17_Chr4g0020771 | 36.735 | 98 | 54 | 3 | 1 | 91 | 332 | 428 | 6.27e-12 | 60.5 |
| Msa1102320 | MtrunA17_Chr7g0270361 | 36.283 | 113 | 64 | 4 | 1 | 105 | 333 | 445 | 6.75e-12 | 60.1 |
| Msa1102320 | MtrunA17_Chr1g0194231 | 37.168 | 113 | 63 | 4 | 1 | 105 | 348 | 460 | 7.70e-12 | 60.1 |
| Msa1102320 | MtrunA17_Chr1g0173451 | 37.755 | 98 | 53 | 3 | 1 | 91 | 326 | 422 | 8.76e-12 | 60.1 |
| Msa1102320 | MtrunA17_Chr2g0332801 | 36.634 | 101 | 56 | 3 | 1 | 94 | 318 | 417 | 2.43e-11 | 58.5 |
| Msa1102320 | MtrunA17_Chr8g0365901 | 27.434 | 113 | 72 | 4 | 1 | 105 | 323 | 433 | 6.09e-11 | 57.4 |
| Msa1102320 | MtrunA17_Chr3g0093011 | 33.333 | 93 | 55 | 2 | 6 | 91 | 154 | 246 | 6.16e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102320 | AT4G32375.1 | 44.231 | 104 | 49 | 4 | 1 | 96 | 182 | 284 | 7.50e-19 | 80.1 |
| Msa1102320 | AT4G32380.1 | 39.640 | 111 | 57 | 3 | 1 | 101 | 281 | 391 | 9.52e-19 | 80.1 |
| Msa1102320 | AT4G35670.2 | 43.434 | 99 | 50 | 3 | 1 | 94 | 172 | 269 | 7.87e-17 | 73.9 |
| Msa1102320 | AT4G35670.1 | 43.434 | 99 | 50 | 3 | 1 | 94 | 279 | 376 | 1.39e-16 | 73.9 |
| Msa1102320 | AT5G17200.1 | 35.714 | 126 | 53 | 3 | 2 | 99 | 289 | 414 | 3.21e-16 | 72.8 |
| Msa1102320 | AT5G27530.1 | 39.604 | 101 | 53 | 3 | 1 | 94 | 298 | 397 | 1.37e-15 | 71.2 |
| Msa1102320 | AT3G15720.3 | 40.517 | 116 | 58 | 4 | 1 | 105 | 272 | 387 | 2.06e-15 | 70.5 |
| Msa1102320 | AT3G15720.2 | 40.517 | 116 | 58 | 4 | 1 | 105 | 269 | 384 | 2.11e-15 | 70.5 |
| Msa1102320 | AT3G15720.1 | 40.517 | 116 | 58 | 4 | 1 | 105 | 273 | 388 | 2.16e-15 | 70.5 |
| Msa1102320 | AT3G15720.4 | 40.517 | 116 | 58 | 4 | 1 | 105 | 209 | 324 | 2.26e-15 | 70.5 |
| Msa1102320 | AT1G70500.1 | 33.628 | 113 | 65 | 4 | 1 | 105 | 325 | 435 | 3.90e-14 | 67.0 |
| Msa1102320 | AT1G56710.1 | 34.821 | 112 | 66 | 3 | 1 | 105 | 315 | 426 | 9.57e-14 | 65.9 |
| Msa1102320 | AT4G32380.2 | 37.500 | 96 | 54 | 3 | 12 | 101 | 255 | 350 | 1.15e-13 | 65.5 |
| Msa1102320 | AT2G43860.1 | 34.579 | 107 | 62 | 3 | 5 | 105 | 293 | 397 | 1.76e-13 | 65.1 |
| Msa1102320 | AT5G44840.1 | 38.384 | 99 | 54 | 4 | 2 | 94 | 280 | 377 | 1.95e-13 | 65.1 |
| Msa1102320 | AT5G44830.1 | 39.394 | 99 | 53 | 4 | 2 | 94 | 221 | 318 | 4.68e-13 | 63.9 |
| Msa1102320 | AT2G41850.1 | 43.902 | 82 | 40 | 2 | 1 | 76 | 327 | 408 | 6.21e-13 | 63.5 |
| Msa1102320 | AT3G57510.1 | 40.244 | 82 | 43 | 2 | 1 | 76 | 327 | 408 | 4.66e-12 | 61.2 |
| Msa1102320 | AT3G07850.1 | 35.780 | 109 | 63 | 3 | 4 | 105 | 328 | 436 | 1.16e-11 | 60.1 |
| Msa1102320 | AT1G48100.1 | 33.628 | 113 | 67 | 4 | 1 | 105 | 345 | 457 | 2.20e-11 | 59.3 |
Find 24 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCACATTCCGTCAATTTAA+AGG | 0.206478 | 7_3:+35007450 | Msa1102320:CDS |
| TGGAATTACTTTCAAACATA+TGG | 0.292813 | 7_3:-35007663 | None:intergenic |
| AATTTGATCCAATATAATAT+TGG | 0.293764 | 7_3:-35007520 | None:intergenic |
| GGGTTGTTCCAATATTATAT+TGG | 0.322448 | 7_3:+35007512 | Msa1102320:CDS |
| TACTTTCAAACATATGGAAA+TGG | 0.392590 | 7_3:-35007657 | None:intergenic |
| TCACATTCCGTCAATTTAAA+GGG | 0.411898 | 7_3:+35007451 | Msa1102320:CDS |
| CAGAAGTCCCTTTAAATTGA+CGG | 0.414624 | 7_3:-35007458 | None:intergenic |
| ACCACCGTACTCCTGATCTA+TGG | 0.417570 | 7_3:-35007279 | None:intergenic |
| ATTAATATTGTTTCTTCTCA+AGG | 0.418870 | 7_3:+35007540 | Msa1102320:CDS |
| CCACGTTACAATGCAATGTA+TGG | 0.424234 | 7_3:+35007737 | Msa1102320:three_prime_UTR |
| CGGTATAAATCTAAAGTGCA+TGG | 0.478367 | 7_3:+35007491 | Msa1102320:CDS |
| TTAATATTGTTTCTTCTCAA+GGG | 0.497779 | 7_3:+35007541 | Msa1102320:CDS |
| TTGTTTCAACACAAAACCCT+TGG | 0.507450 | 7_3:-35007621 | None:intergenic |
| GAACGCGATAACCATAGATC+AGG | 0.519921 | 7_3:+35007268 | Msa1102320:CDS |
| TAATTTACGCTACTATTCCA+AGG | 0.522998 | 7_3:+35007604 | Msa1102320:CDS |
| TCAGGAGTACGGTGGTAGAA+TGG | 0.524195 | 7_3:+35007286 | Msa1102320:CDS |
| TAGTAGCGTAAATTATTCCA+TGG | 0.578395 | 7_3:-35007596 | None:intergenic |
| CCATACATTGCATTGTAACG+TGG | 0.580488 | 7_3:-35007737 | None:intergenic |
| GGTATAAATCTAAAGTGCAT+GGG | 0.587965 | 7_3:+35007492 | Msa1102320:CDS |
| AATTTACGCTACTATTCCAA+GGG | 0.594427 | 7_3:+35007605 | Msa1102320:CDS |
| GGGACTTCTGATAGCGACAT+CGG | 0.624397 | 7_3:+35007471 | Msa1102320:CDS |
| GTACGGTGGTAGAATGGCAA+AGG | 0.637474 | 7_3:+35007292 | Msa1102320:CDS |
| ATAACCATAGATCAGGAGTA+CGG | 0.641364 | 7_3:+35007275 | Msa1102320:CDS |
| ACCATAGATCAGGAGTACGG+TGG | 0.731590 | 7_3:+35007278 | Msa1102320:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAATGTTGTAAAATTATT+AGG | + | chr7_3:35007404-35007423 | Msa1102320:intron | 10.0% |
| !! | TAAATGTTGTAAAATTATTA+GGG | + | chr7_3:35007405-35007424 | Msa1102320:intron | 10.0% |
| !! | AATTTGATCCAATATAATAT+TGG | - | chr7_3:35007523-35007542 | None:intergenic | 15.0% |
| !! | TAAATGAAAAATTTATGGAA+TGG | - | chr7_3:35007686-35007705 | None:intergenic | 15.0% |
| !! | CTTGATAAATGAAAAATTTA+TGG | - | chr7_3:35007691-35007710 | None:intergenic | 15.0% |
| !!! | ATTAATATTGTTTCTTCTCA+AGG | + | chr7_3:35007540-35007559 | Msa1102320:CDS | 20.0% |
| !!! | TTAATATTGTTTCTTCTCAA+GGG | + | chr7_3:35007541-35007560 | Msa1102320:CDS | 20.0% |
| !!! | TTTTGACAAAAAGCTTTAAC+TGG | - | chr7_3:35007573-35007592 | None:intergenic | 25.0% |
| ! | TACTTTCAAACATATGGAAA+TGG | - | chr7_3:35007660-35007679 | None:intergenic | 25.0% |
| ! | TGGAATTACTTTCAAACATA+TGG | - | chr7_3:35007666-35007685 | None:intergenic | 25.0% |
| !!! | CGTTCTTGACATTTTTAAGT+TGG | - | chr7_3:35007253-35007272 | None:intergenic | 30.0% |
| TCACATTCCGTCAATTTAAA+GGG | + | chr7_3:35007451-35007470 | Msa1102320:CDS | 30.0% | |
| ! | GGTATAAATCTAAAGTGCAT+GGG | + | chr7_3:35007492-35007511 | Msa1102320:CDS | 30.0% |
| GGGTTGTTCCAATATTATAT+TGG | + | chr7_3:35007512-35007531 | Msa1102320:CDS | 30.0% | |
| ! | GCTTTTTGTCAAAATTTCCA+TGG | + | chr7_3:35007579-35007598 | Msa1102320:CDS | 30.0% |
| TAGTAGCGTAAATTATTCCA+TGG | - | chr7_3:35007599-35007618 | None:intergenic | 30.0% | |
| TAATTTACGCTACTATTCCA+AGG | + | chr7_3:35007604-35007623 | Msa1102320:CDS | 30.0% | |
| AATTTACGCTACTATTCCAA+GGG | + | chr7_3:35007605-35007624 | Msa1102320:CDS | 30.0% | |
| ATAACCATAGATCAGGAGTA+CGG | + | chr7_3:35007275-35007294 | Msa1102320:CDS | 35.0% | |
| GTCACATTCCGTCAATTTAA+AGG | + | chr7_3:35007450-35007469 | Msa1102320:CDS | 35.0% | |
| CAGAAGTCCCTTTAAATTGA+CGG | - | chr7_3:35007461-35007480 | None:intergenic | 35.0% | |
| ! | CGGTATAAATCTAAAGTGCA+TGG | + | chr7_3:35007491-35007510 | Msa1102320:CDS | 35.0% |
| TTGTTTCAACACAAAACCCT+TGG | - | chr7_3:35007624-35007643 | None:intergenic | 35.0% | |
| CCATACATTGCATTGTAACG+TGG | - | chr7_3:35007740-35007759 | None:intergenic | 40.0% | |
| CCACGTTACAATGCAATGTA+TGG | + | chr7_3:35007737-35007756 | Msa1102320:three_prime_UTR | 40.0% | |
| GAACGCGATAACCATAGATC+AGG | + | chr7_3:35007268-35007287 | Msa1102320:CDS | 45.0% | |
| ! | ACCATAGATCAGGAGTACGG+TGG | + | chr7_3:35007278-35007297 | Msa1102320:CDS | 50.0% |
| ACCACCGTACTCCTGATCTA+TGG | - | chr7_3:35007282-35007301 | None:intergenic | 50.0% | |
| ! | TCAGGAGTACGGTGGTAGAA+TGG | + | chr7_3:35007286-35007305 | Msa1102320:CDS | 50.0% |
| GTACGGTGGTAGAATGGCAA+AGG | + | chr7_3:35007292-35007311 | Msa1102320:CDS | 50.0% | |
| ! | GGGACTTCTGATAGCGACAT+CGG | + | chr7_3:35007471-35007490 | Msa1102320:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 35007209 | 35007779 | 35007209 | ID=Msa1102320;Name=Msa1102320 |
| chr7_3 | mRNA | 35007209 | 35007779 | 35007209 | ID=Msa1102320-mRNA-1;Parent=Msa1102320;Name=Msa1102320-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0.5|1|1|1|2|141|105 |
| chr7_3 | exon | 35007209 | 35007313 | 35007209 | ID=Msa1102320-mRNA-1:exon:7393;Parent=Msa1102320-mRNA-1 |
| chr7_3 | exon | 35007426 | 35007779 | 35007426 | ID=Msa1102320-mRNA-1:exon:7394;Parent=Msa1102320-mRNA-1 |
| chr7_3 | CDS | 35007209 | 35007313 | 35007209 | ID=Msa1102320-mRNA-1:cds;Parent=Msa1102320-mRNA-1 |
| chr7_3 | CDS | 35007426 | 35007638 | 35007426 | ID=Msa1102320-mRNA-1:cds;Parent=Msa1102320-mRNA-1 |
| chr7_3 | three_prime_UTR | 35007639 | 35007779 | 35007639 | ID=Msa1102320-mRNA-1:three_prime_utr;Parent=Msa1102320-mRNA-1 |
| Gene Sequence |
| Protein sequence |
