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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427050 | XP_003602495.1 | 29.000 | 300 | 160 | 6 | 32 | 278 | 99 | 398 | 1.24e-20 | 103 |
| Msa0427050 | XP_003602495.1 | 99.338 | 302 | 2 | 0 | 5 | 306 | 399 | 700 | 0.0 | 617 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427050 | sp|Q9LV93|AB5F_ARATH | 88.742 | 302 | 34 | 0 | 5 | 306 | 391 | 692 | 0.0 | 537 |
| Msa0427050 | sp|Q9LV93|AB5F_ARATH | 27.184 | 309 | 170 | 6 | 32 | 287 | 90 | 396 | 5.22e-21 | 96.7 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0427050 | 0.857503 | 1.561967e-62 | -8.615850e-47 |
| Msa0001460 | Msa0427050 | 0.839798 | 1.277018e-57 | -8.615850e-47 |
| Msa0003470 | Msa0427050 | 0.854144 | 1.496961e-61 | -8.615850e-47 |
| Msa0004350 | Msa0427050 | 0.805304 | 1.424280e-49 | -8.615850e-47 |
| Msa0005160 | Msa0427050 | 0.861222 | 1.193940e-63 | -8.615850e-47 |
| Msa0005690 | Msa0427050 | 0.828678 | 7.866217e-55 | -8.615850e-47 |
| Msa0006700 | Msa0427050 | 0.843903 | 1.052542e-58 | -8.615850e-47 |
| Msa0006820 | Msa0427050 | 0.874595 | 5.971719e-68 | -8.615850e-47 |
| Msa0007160 | Msa0427050 | 0.840354 | 9.143474e-58 | -8.615850e-47 |
| Msa0007230 | Msa0427050 | 0.837670 | 4.532882e-57 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427050 | MtrunA17_Chr3g0129301 | 99.338 | 302 | 2 | 0 | 5 | 306 | 399 | 700 | 0.0 | 617 |
| Msa0427050 | MtrunA17_Chr3g0129301 | 29.000 | 300 | 160 | 6 | 32 | 278 | 99 | 398 | 1.14e-24 | 103 |
| Msa0427050 | MtrunA17_Chr3g0119921 | 32.273 | 220 | 146 | 3 | 25 | 242 | 488 | 706 | 4.24e-30 | 120 |
| Msa0427050 | MtrunA17_Chr3g0119921 | 26.786 | 168 | 101 | 3 | 122 | 289 | 306 | 451 | 3.94e-13 | 69.7 |
| Msa0427050 | MtrunA17_Chr2g0327291 | 31.858 | 226 | 152 | 2 | 14 | 238 | 350 | 574 | 4.81e-29 | 116 |
| Msa0427050 | MtrunA17_Chr2g0327291 | 26.016 | 246 | 151 | 3 | 39 | 256 | 64 | 306 | 9.13e-21 | 92.4 |
| Msa0427050 | MtrunA17_Chr4g0028471 | 32.743 | 226 | 150 | 2 | 14 | 238 | 350 | 574 | 1.11e-28 | 115 |
| Msa0427050 | MtrunA17_Chr4g0028471 | 26.316 | 247 | 149 | 4 | 39 | 256 | 64 | 306 | 5.50e-21 | 93.2 |
| Msa0427050 | MtrunA17_Chr8g0371361 | 30.303 | 264 | 164 | 7 | 12 | 262 | 457 | 713 | 9.49e-28 | 113 |
| Msa0427050 | MtrunA17_Chr8g0371361 | 26.923 | 286 | 167 | 7 | 39 | 285 | 154 | 436 | 4.19e-24 | 102 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427050 | AT5G64840.1 | 88.742 | 302 | 34 | 0 | 5 | 306 | 391 | 692 | 0.0 | 537 |
| Msa0427050 | AT5G64840.1 | 27.184 | 309 | 170 | 6 | 32 | 287 | 90 | 396 | 5.30e-22 | 96.7 |
| Msa0427050 | AT5G09930.1 | 84.437 | 302 | 47 | 0 | 5 | 306 | 377 | 678 | 3.94e-174 | 498 |
| Msa0427050 | AT5G09930.1 | 26.471 | 306 | 175 | 5 | 32 | 287 | 77 | 382 | 1.81e-23 | 100 |
| Msa0427050 | AT1G64550.1 | 31.739 | 230 | 154 | 3 | 15 | 242 | 479 | 707 | 1.62e-30 | 121 |
| Msa0427050 | AT1G64550.1 | 23.026 | 304 | 169 | 6 | 32 | 289 | 168 | 452 | 1.70e-15 | 77.4 |
| Msa0427050 | AT5G60790.1 | 30.973 | 226 | 154 | 2 | 14 | 238 | 355 | 579 | 1.66e-27 | 112 |
| Msa0427050 | AT5G60790.1 | 26.016 | 246 | 151 | 4 | 39 | 256 | 69 | 311 | 2.92e-19 | 88.6 |
| Msa0427050 | AT3G54540.2 | 31.604 | 212 | 133 | 4 | 44 | 244 | 501 | 711 | 1.25e-26 | 110 |
| Msa0427050 | AT3G54540.2 | 26.421 | 299 | 180 | 5 | 39 | 298 | 163 | 460 | 4.03e-26 | 108 |
Find 82 sgRNAs with CRISPR-Local
Find 252 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCAGGTTCCCTGTGCG+TGG | 0.579340 | 3_2:+77730026 | Msa0427050:CDS |
| AAAATTGTTCTCTTCATGTA+TGG | 0.407853 | 3_2:-77733343 | None:intergenic |
| AAACACATTAGCATCCGCTG+TGG | 0.734759 | 3_2:+77733598 | Msa0427050:three_prime_UTR |
| AAAGTACCGATCATGAGATA+CGG | 0.606013 | 3_2:-77731765 | None:intergenic |
| AAAGTTTCTCTATTGAGTGG+TGG | 0.627890 | 3_2:+77730594 | Msa0427050:CDS |
| AAATAGCATTAAGACCACAG+CGG | 0.779665 | 3_2:-77733612 | None:intergenic |
| AACGGAAACAAATGAAAATC+AGG | 0.359605 | 3_2:+77730012 | Msa0427050:CDS |
| AAGGAAGAAGCAAAAGATGC+AGG | 0.553204 | 3_2:+77733243 | Msa0427050:CDS |
| ACAGGCTGAGGCACTTGATC+TGG | 0.376554 | 3_2:+77730464 | Msa0427050:intron |
| ACAGTTAGGAACTTGGATTT+TGG | 0.319199 | 3_2:+77730071 | Msa0427050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTGTTGTCACATATACATA+AGG | - | chr3_2:77729947-77729966 | None:intergenic | 30.0% | |
| GTATATGTGACAACAGAAAT+TGG | + | chr3_2:77729950-77729969 | Msa0427050:intron | 30.0% | |
| TTCATTTGTTTCCGTTCAAA+TGG | - | chr3_2:77730008-77730027 | None:intergenic | 30.0% | |
| AACGGAAACAAATGAAAATC+AGG | + | chr3_2:77730012-77730031 | Msa0427050:CDS | 30.0% | |
| AGGCAAATCTTACAATTGAA+AGG | + | chr3_2:77730200-77730219 | Msa0427050:CDS | 30.0% | |
| GGCAAATCTTACAATTGAAA+GGG | + | chr3_2:77730201-77730220 | Msa0427050:CDS | 30.0% | |
| GCAAATCTTACAATTGAAAG+GGG | + | chr3_2:77730202-77730221 | Msa0427050:CDS | 30.0% | |
| TTGACTGAGAAAATGCTATT+TGG | + | chr3_2:77730377-77730396 | Msa0427050:intron | 30.0% | |
| AAATAAAGAATTGGAACCGA+TGG | - | chr3_2:77730405-77730424 | None:intergenic | 30.0% | |
| ACGATATTAAAGGACTTCTT+GGG | + | chr3_2:77730538-77730557 | Msa0427050:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 77729873 | 77733631 | 77729873 | ID=Msa0427050;Name=Msa0427050 |
| chr3_2 | mRNA | 77729873 | 77733631 | 77729873 | ID=Msa0427050-mRNA-1;Parent=Msa0427050;Name=Msa0427050-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|0.85|0.75|0.87|1|1|8|307|306 |
| chr3_2 | exon | 77729873 | 77729884 | 77729873 | ID=Msa0427050-mRNA-1:exon:20294;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77729966 | 77730106 | 77729966 | ID=Msa0427050-mRNA-1:exon:20295;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77730187 | 77730366 | 77730187 | ID=Msa0427050-mRNA-1:exon:20296;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77730468 | 77730623 | 77730468 | ID=Msa0427050-mRNA-1:exon:20297;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77731490 | 77731591 | 77731490 | ID=Msa0427050-mRNA-1:exon:20298;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77731731 | 77731859 | 77731731 | ID=Msa0427050-mRNA-1:exon:20299;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77733027 | 77733131 | 77733027 | ID=Msa0427050-mRNA-1:exon:20300;Parent=Msa0427050-mRNA-1 |
| chr3_2 | exon | 77733229 | 77733631 | 77733229 | ID=Msa0427050-mRNA-1:exon:20301;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77729873 | 77729884 | 77729873 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77729966 | 77730106 | 77729966 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77730187 | 77730366 | 77730187 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77730468 | 77730623 | 77730468 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77731490 | 77731591 | 77731490 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77731731 | 77731859 | 77731731 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77733027 | 77733131 | 77733027 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | CDS | 77733229 | 77733324 | 77733229 | ID=Msa0427050-mRNA-1:cds;Parent=Msa0427050-mRNA-1 |
| chr3_2 | three_prime_UTR | 77733325 | 77733631 | 77733325 | ID=Msa0427050-mRNA-1:three_prime_utr;Parent=Msa0427050-mRNA-1 |
| Gene Sequence |
>Msa0427050 ATGCATCCTTCCAAATTGGAAAGACTTCTTGGAGAGGAACTAGTAGAGAAGCCATTTGAACGGAAACAAATGAAAATCAGGTTCCCTGTGCGTGGAAGCAGTGGAAGATCTGTTGTAACAGTTAGGAACTTGGATTTTGGCTTTGAGGATAAAAAACTTTTCAACAAGGCAAATCTTACAATTGAAAGGGGAGAAAAAATTGCCATTCTTGGTCCAAATGGATGTGGCAAGAGTACTTTACTAAAATTGATTATGGGTTTAGAGAAGCCAATCAGCGGTGAAGTTATCCTTGGGGAGCATAATGTATTGCCTAACTATTTCGAGCAGAATCAGGCTGAGGCACTTGATCTGGAAAAGACGGTGCTTGAGACAGTAGAGGAAGCTGCCGAGGACTGGAGGAGTGACGATATTAAAGGACTTCTTGGGCGTTGTAATTTTAAATCTGATATGCTTGATCGTAAAGTTTCTCTATTGAGTGGTGGTGAGAAGGCACGGCTGGCTTTTTGCAAATTCATGGTAAAACCATCAACTCTACTTGTTTTGGATGAACCAACGAATCACTTGGATATACCTTCTAAAGAAATGCTTGAGGAGGCAATAAATGAGTACGAGGGCACCGTTATCACCGTATCTCATGATCGGTACTTTATAAAGCAGATAGTTAATAGAGTGATTGAAGTTAAAGATGGCACTGTGCAGGATTATGCTGGAGATTACAATTATTATTTGGAGAAGAATCTTGATGCCAGGGAAAAAGAGCTTGAACGCCAGGCTGAGCTTGACGACAAAGCTCCTAAATTGAAAGCCAAATCCAAGATGTCAAAGGCTGAGAAAGAAGCAAGGAAGAAGCAAAAGATGCAGGCCTTTCAGCAAGCAAAACAGAAGTCTAAAGGTGCAAAGAATTCAAAGAGATGGAATTAA |
| Protein sequence |
>Msa0427050 MHPSKLERLLGEELVEKPFERKQMKIRFPVRGSSGRSVVTVRNLDFGFEDKKLFNKANLTIERGEKIAILGPNGCGKSTLLKLIMGLEKPISGEVILGEHNVLPNYFEQNQAEALDLEKTVLETVEEAAEDWRSDDIKGLLGRCNFKSDMLDRKVSLLSGGEKARLAFCKFMVKPSTLLVLDEPTNHLDIPSKEMLEEAINEYEGTVITVSHDRYFIKQIVNRVIEVKDGTVQDYAGDYNYYLEKNLDAREKELERQAELDDKAPKLKAKSKMSKAEKEARKKQKMQAFQQAKQKSKGAKNSKRWN* |
