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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017560 | XP_003622913.3 | 88.095 | 126 | 15 | 0 | 1 | 126 | 368 | 493 | 4.21e-72 | 233 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017560 | sp|Q9FYR7|SCL8_ARATH | 57.364 | 129 | 48 | 2 | 1 | 125 | 514 | 639 | 5.12e-44 | 154 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017560 | G7L175 | 88.095 | 126 | 15 | 0 | 1 | 126 | 532 | 657 | 1.99e-71 | 234 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1017560 | TF | GRAS |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017560 | MtrunA17_Chr7g0236851 | 88.095 | 126 | 15 | 0 | 1 | 126 | 532 | 657 | 3.83e-75 | 234 |
| Msa1017560 | MtrunA17_Chr6g0468561 | 58.333 | 132 | 43 | 2 | 1 | 125 | 535 | 661 | 8.88e-46 | 156 |
| Msa1017560 | MtrunA17_Chr3g0125811 | 44.882 | 127 | 68 | 2 | 1 | 125 | 443 | 569 | 3.79e-33 | 121 |
| Msa1017560 | MtrunA17_Chr1g0159461 | 44.882 | 127 | 68 | 2 | 1 | 125 | 465 | 591 | 1.19e-30 | 114 |
| Msa1017560 | MtrunA17_Chr2g0319091 | 41.270 | 126 | 72 | 2 | 2 | 125 | 453 | 578 | 1.74e-27 | 105 |
| Msa1017560 | MtrunA17_Chr3g0101141 | 39.844 | 128 | 73 | 3 | 1 | 125 | 415 | 541 | 1.08e-25 | 100 |
| Msa1017560 | MtrunA17_Chr2g0290241 | 38.095 | 126 | 76 | 2 | 2 | 125 | 299 | 424 | 7.19e-25 | 97.4 |
| Msa1017560 | MtrunA17_Chr4g0076091 | 38.889 | 126 | 75 | 2 | 2 | 125 | 417 | 542 | 1.54e-24 | 97.1 |
| Msa1017560 | MtrunA17_Chr5g0447691 | 38.889 | 126 | 75 | 2 | 2 | 125 | 418 | 543 | 5.44e-24 | 95.5 |
| Msa1017560 | MtrunA17_Chr5g0445331 | 40.157 | 127 | 72 | 3 | 2 | 125 | 406 | 531 | 1.35e-23 | 94.4 |
| Msa1017560 | MtrunA17_Chr8g0357601 | 32.000 | 125 | 84 | 1 | 2 | 125 | 427 | 551 | 1.46e-16 | 74.3 |
| Msa1017560 | MtrunA17_Chr4g0057291 | 34.848 | 132 | 74 | 5 | 4 | 125 | 532 | 661 | 3.91e-15 | 70.5 |
| Msa1017560 | MtrunA17_Chr7g0224271 | 32.558 | 129 | 76 | 4 | 4 | 125 | 548 | 672 | 6.05e-15 | 69.7 |
| Msa1017560 | MtrunA17_Chr8g0376381 | 32.283 | 127 | 82 | 2 | 2 | 125 | 396 | 521 | 7.36e-14 | 66.6 |
| Msa1017560 | MtrunA17_Chr4g0031741 | 32.031 | 128 | 82 | 4 | 3 | 125 | 522 | 649 | 2.05e-13 | 65.5 |
| Msa1017560 | MtrunA17_Chr4g0038851 | 32.031 | 128 | 82 | 3 | 2 | 125 | 342 | 468 | 3.74e-13 | 64.7 |
| Msa1017560 | MtrunA17_Chr4g0057891 | 31.746 | 126 | 80 | 3 | 4 | 125 | 396 | 519 | 6.31e-13 | 63.9 |
| Msa1017560 | MtrunA17_Chr4g0031721 | 28.800 | 125 | 86 | 2 | 4 | 125 | 559 | 683 | 6.48e-13 | 63.9 |
| Msa1017560 | MtrunA17_Chr3g0085681 | 32.540 | 126 | 83 | 2 | 2 | 125 | 310 | 435 | 7.19e-13 | 63.9 |
| Msa1017560 | MtrunA17_Chr3g0110971 | 31.429 | 140 | 80 | 2 | 2 | 125 | 447 | 586 | 1.34e-12 | 63.2 |
| Msa1017560 | MtrunA17_Chr5g0396491 | 33.333 | 129 | 79 | 3 | 2 | 125 | 351 | 477 | 2.66e-12 | 62.4 |
| Msa1017560 | MtrunA17_Chr7g0238891 | 28.682 | 129 | 81 | 3 | 4 | 125 | 615 | 739 | 4.90e-12 | 61.6 |
| Msa1017560 | MtrunA17_Chr4g0031711 | 25.600 | 125 | 90 | 2 | 4 | 125 | 608 | 732 | 9.74e-12 | 60.8 |
| Msa1017560 | MtrunA17_Chr2g0328431 | 30.075 | 133 | 73 | 4 | 5 | 125 | 529 | 653 | 1.25e-11 | 60.5 |
| Msa1017560 | MtrunA17_Chr2g0328391 | 29.032 | 124 | 84 | 3 | 6 | 125 | 545 | 668 | 2.88e-11 | 59.3 |
| Msa1017560 | MtrunA17_Chr2g0306641 | 30.952 | 126 | 83 | 2 | 2 | 125 | 363 | 486 | 2.99e-11 | 59.3 |
| Msa1017560 | MtrunA17_Chr3g0085361 | 31.200 | 125 | 85 | 1 | 2 | 125 | 225 | 349 | 5.39e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017560 | AT5G52510.1 | 57.364 | 129 | 48 | 2 | 1 | 125 | 514 | 639 | 5.20e-45 | 154 |
| Msa1017560 | AT1G21450.1 | 43.750 | 128 | 69 | 2 | 1 | 125 | 465 | 592 | 2.23e-28 | 108 |
| Msa1017560 | AT5G48150.1 | 40.476 | 126 | 73 | 2 | 2 | 125 | 364 | 489 | 1.62e-26 | 102 |
| Msa1017560 | AT5G48150.4 | 40.476 | 126 | 73 | 2 | 2 | 125 | 364 | 489 | 1.62e-26 | 102 |
| Msa1017560 | AT5G48150.2 | 40.476 | 126 | 73 | 2 | 2 | 125 | 364 | 489 | 1.62e-26 | 102 |
| Msa1017560 | AT5G48150.3 | 40.476 | 126 | 73 | 2 | 2 | 125 | 364 | 489 | 1.62e-26 | 102 |
| Msa1017560 | AT2G04890.1 | 36.508 | 126 | 78 | 2 | 2 | 125 | 287 | 412 | 4.26e-25 | 98.2 |
| Msa1017560 | AT1G50600.2 | 38.095 | 126 | 76 | 2 | 2 | 125 | 475 | 600 | 1.81e-23 | 94.7 |
| Msa1017560 | AT1G50600.1 | 38.095 | 126 | 76 | 2 | 2 | 125 | 471 | 596 | 1.95e-23 | 94.4 |
| Msa1017560 | AT1G50600.3 | 38.095 | 126 | 76 | 2 | 2 | 125 | 400 | 525 | 2.04e-23 | 94.4 |
| Msa1017560 | AT4G17230.1 | 35.938 | 128 | 76 | 3 | 2 | 125 | 399 | 524 | 9.90e-18 | 78.2 |
| Msa1017560 | AT4G17230.2 | 35.938 | 128 | 76 | 3 | 2 | 125 | 399 | 524 | 9.90e-18 | 78.2 |
| Msa1017560 | AT2G29065.1 | 30.952 | 126 | 83 | 2 | 4 | 125 | 502 | 627 | 9.00e-16 | 72.8 |
| Msa1017560 | AT3G03450.1 | 33.858 | 127 | 81 | 1 | 2 | 125 | 418 | 544 | 2.04e-14 | 68.9 |
| Msa1017560 | AT5G17490.1 | 32.558 | 129 | 80 | 2 | 2 | 125 | 389 | 515 | 1.05e-13 | 66.6 |
| Msa1017560 | AT1G66350.1 | 30.709 | 127 | 82 | 2 | 2 | 125 | 382 | 505 | 2.35e-13 | 65.9 |
| Msa1017560 | AT1G07530.1 | 29.134 | 127 | 87 | 2 | 2 | 125 | 638 | 764 | 3.06e-13 | 65.5 |
| Msa1017560 | AT1G14920.1 | 30.709 | 127 | 83 | 2 | 2 | 125 | 404 | 528 | 1.70e-12 | 63.2 |
| Msa1017560 | AT2G01570.1 | 32.283 | 127 | 81 | 2 | 2 | 125 | 456 | 580 | 2.22e-12 | 62.8 |
| Msa1017560 | AT1G50420.1 | 31.250 | 128 | 83 | 3 | 2 | 125 | 352 | 478 | 2.70e-12 | 62.8 |
| Msa1017560 | AT1G07520.1 | 26.190 | 126 | 89 | 2 | 4 | 125 | 567 | 692 | 1.74e-11 | 60.5 |
| Msa1017560 | AT1G07520.3 | 26.190 | 126 | 89 | 2 | 4 | 125 | 568 | 693 | 1.77e-11 | 60.5 |
| Msa1017560 | AT2G29060.1 | 28.571 | 126 | 86 | 2 | 4 | 125 | 566 | 691 | 2.93e-11 | 59.7 |
| Msa1017560 | AT2G29060.2 | 28.571 | 126 | 86 | 2 | 4 | 125 | 529 | 654 | 3.02e-11 | 59.7 |
| Msa1017560 | AT1G07520.2 | 26.190 | 126 | 89 | 2 | 4 | 125 | 403 | 528 | 3.09e-11 | 59.7 |
| Msa1017560 | AT1G07520.4 | 26.190 | 126 | 89 | 2 | 4 | 125 | 403 | 528 | 3.09e-11 | 59.7 |
Find 26 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTCAATGTTGCATCTTCT+TGG | 0.201520 | 7_1:-36845894 | Msa1017560:CDS |
| GAGAGATTAAAGCTTGAAAA+AGG | 0.266629 | 7_1:-36846141 | Msa1017560:CDS |
| CGTGCACGCATGAGCATGGC+TGG | 0.338695 | 7_1:-36846039 | Msa1017560:CDS |
| GCATGAGCATGGCTGGGTTT+AGG | 0.345416 | 7_1:-36846032 | Msa1017560:CDS |
| TGGAGTTTGCTTTGGTTGGA+TGG | 0.363970 | 7_1:-36845923 | Msa1017560:CDS |
| ATGGTGGAGTTTGCTTTGGT+TGG | 0.406060 | 7_1:-36845927 | Msa1017560:CDS |
| GGAGTTTGCTTTGGTTGGAT+GGG | 0.411286 | 7_1:-36845922 | Msa1017560:CDS |
| GTTACTGACTCAGTAACTTT+CGG | 0.416851 | 7_1:+36845994 | None:intergenic |
| GCACAGTAATTCTGCTACCT+TGG | 0.435103 | 7_1:+36845959 | None:intergenic |
| CAGTAACTTTCGGACTCATC+GGG | 0.453689 | 7_1:+36846004 | None:intergenic |
| GAGAATGGTGGAGTTTGCTT+TGG | 0.469489 | 7_1:-36845931 | Msa1017560:CDS |
| TCAGTAACTTTCGGACTCAT+CGG | 0.497001 | 7_1:+36846003 | None:intergenic |
| TCAGCCACACGTGAAACTAA+TGG | 0.502475 | 7_1:+36846228 | None:intergenic |
| AGAATCTATTGAATTTGCGA+TGG | 0.545507 | 7_1:-36846178 | Msa1017560:CDS |
| TGCAGTTGCTTGTGAAGGGA+GGG | 0.568004 | 7_1:-36846097 | Msa1017560:CDS |
| ATGGCGTGCACGCATGAGCA+TGG | 0.579124 | 7_1:-36846043 | Msa1017560:CDS |
| GTGCACGCATGAGCATGGCT+GGG | 0.597641 | 7_1:-36846038 | Msa1017560:CDS |
| AGAAATGCAGTTGCTTGTGA+AGG | 0.600882 | 7_1:-36846102 | Msa1017560:CDS |
| ATGCAGTTGCTTGTGAAGGG+AGG | 0.602267 | 7_1:-36846098 | Msa1017560:CDS |
| ATTACTGTGCATGAAGAGAA+TGG | 0.610201 | 7_1:-36845946 | Msa1017560:CDS |
| TTGTGAAGGGAGGGATAGTG+TGG | 0.632145 | 7_1:-36846088 | Msa1017560:CDS |
| AAGGGAGGGATAGTGTGGAA+AGG | 0.634468 | 7_1:-36846083 | Msa1017560:CDS |
| AGCACCATTAGTTTCACGTG+TGG | 0.653510 | 7_1:-36846232 | Msa1017560:CDS |
| GAAATGCAGTTGCTTGTGAA+GGG | 0.657022 | 7_1:-36846101 | Msa1017560:CDS |
| GTAACTTCAAGACTCATCCA+AGG | 0.665089 | 7_1:-36845976 | Msa1017560:CDS |
| ACTGTGCATGAAGAGAATGG+TGG | 0.760237 | 7_1:-36845943 | Msa1017560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGAATCTATTGAATTTGCGA+TGG | - | chr7_1:36845956-36845975 | Msa1017560:CDS | 30.0% | |
| GAGAGATTAAAGCTTGAAAA+AGG | - | chr7_1:36845993-36846012 | Msa1017560:CDS | 30.0% | |
| !! | TGGAAAGGTGTGAAGTTTTT+GGG | - | chr7_1:36846066-36846085 | Msa1017560:CDS | 35.0% |
| !! | GTTACTGACTCAGTAACTTT+CGG | + | chr7_1:36846143-36846162 | None:intergenic | 35.0% |
| ATTACTGTGCATGAAGAGAA+TGG | - | chr7_1:36846188-36846207 | Msa1017560:CDS | 35.0% | |
| AGAAATGCAGTTGCTTGTGA+AGG | - | chr7_1:36846032-36846051 | Msa1017560:CDS | 40.0% | |
| GAAATGCAGTTGCTTGTGAA+GGG | - | chr7_1:36846033-36846052 | Msa1017560:CDS | 40.0% | |
| !! | GTGGAAAGGTGTGAAGTTTT+TGG | - | chr7_1:36846065-36846084 | Msa1017560:CDS | 40.0% |
| !! | GGTGTGAAGTTTTTGGGAAA+TGG | - | chr7_1:36846072-36846091 | Msa1017560:CDS | 40.0% |
| TCAGTAACTTTCGGACTCAT+CGG | + | chr7_1:36846134-36846153 | None:intergenic | 40.0% | |
| GTAACTTCAAGACTCATCCA+AGG | - | chr7_1:36846158-36846177 | Msa1017560:CDS | 40.0% | |
| CTCTCAATGTTGCATCTTCT+TGG | - | chr7_1:36846240-36846259 | Msa1017560:CDS | 40.0% | |
| ! | AGCACCATTAGTTTCACGTG+TGG | - | chr7_1:36845902-36845921 | Msa1017560:CDS | 45.0% |
| TCAGCCACACGTGAAACTAA+TGG | + | chr7_1:36845909-36845928 | None:intergenic | 45.0% | |
| CAGTAACTTTCGGACTCATC+GGG | + | chr7_1:36846133-36846152 | None:intergenic | 45.0% | |
| GCACAGTAATTCTGCTACCT+TGG | + | chr7_1:36846178-36846197 | None:intergenic | 45.0% | |
| ACTGTGCATGAAGAGAATGG+TGG | - | chr7_1:36846191-36846210 | Msa1017560:CDS | 45.0% | |
| ! | GAGAATGGTGGAGTTTGCTT+TGG | - | chr7_1:36846203-36846222 | Msa1017560:CDS | 45.0% |
| ! | ATGGTGGAGTTTGCTTTGGT+TGG | - | chr7_1:36846207-36846226 | Msa1017560:CDS | 45.0% |
| ! | TGGAGTTTGCTTTGGTTGGA+TGG | - | chr7_1:36846211-36846230 | Msa1017560:CDS | 45.0% |
| ! | GGAGTTTGCTTTGGTTGGAT+GGG | - | chr7_1:36846212-36846231 | Msa1017560:CDS | 45.0% |
| ATGCAGTTGCTTGTGAAGGG+AGG | - | chr7_1:36846036-36846055 | Msa1017560:CDS | 50.0% | |
| TGCAGTTGCTTGTGAAGGGA+GGG | - | chr7_1:36846037-36846056 | Msa1017560:CDS | 50.0% | |
| TTGTGAAGGGAGGGATAGTG+TGG | - | chr7_1:36846046-36846065 | Msa1017560:CDS | 50.0% | |
| AAGGGAGGGATAGTGTGGAA+AGG | - | chr7_1:36846051-36846070 | Msa1017560:CDS | 50.0% | |
| GCATGAGCATGGCTGGGTTT+AGG | - | chr7_1:36846102-36846121 | Msa1017560:CDS | 55.0% | |
| ATGGCGTGCACGCATGAGCA+TGG | - | chr7_1:36846091-36846110 | Msa1017560:CDS | 60.0% | |
| GTGCACGCATGAGCATGGCT+GGG | - | chr7_1:36846096-36846115 | Msa1017560:CDS | 60.0% | |
| CGTGCACGCATGAGCATGGC+TGG | - | chr7_1:36846095-36846114 | Msa1017560:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 36845888 | 36846268 | 36845888 | ID=Msa1017560;Name=Msa1017560 |
| chr7_1 | mRNA | 36845888 | 36846268 | 36845888 | ID=Msa1017560-mRNA-1;Parent=Msa1017560;Name=Msa1017560-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|126 |
| chr7_1 | exon | 36845888 | 36846268 | 36845888 | ID=Msa1017560-mRNA-1:exon:7018;Parent=Msa1017560-mRNA-1 |
| chr7_1 | CDS | 36845888 | 36846268 | 36845888 | ID=Msa1017560-mRNA-1:cds;Parent=Msa1017560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
