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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686810 | XP_003607179.1 | 95.213 | 376 | 18 | 0 | 38 | 413 | 1 | 376 | 0.0 | 756 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686810 | sp|A0A1C9CX66|CYC2_CAMAC | 43.396 | 371 | 199 | 7 | 43 | 409 | 27 | 390 | 3.93e-98 | 301 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0686810 | -0.870745 | 1.156807e-66 | -8.615850e-47 |
| Msa0000800 | Msa0686810 | 0.820205 | 7.758757e-53 | -8.615850e-47 |
| Msa0002690 | Msa0686810 | -0.801527 | 8.631739e-49 | -8.615850e-47 |
| Msa0002700 | Msa0686810 | -0.809493 | 1.841588e-50 | -8.615850e-47 |
| Msa0005500 | Msa0686810 | -0.804969 | 1.673756e-49 | -8.615850e-47 |
| Msa0007810 | Msa0686810 | -0.831812 | 1.349926e-55 | -8.615850e-47 |
| Msa0011060 | Msa0686810 | -0.846539 | 2.038562e-59 | -8.615850e-47 |
| Msa0011100 | Msa0686810 | -0.843130 | 1.693423e-58 | -8.615850e-47 |
| Msa0011410 | Msa0686810 | -0.805182 | 1.510597e-49 | -8.615850e-47 |
| Msa0011440 | Msa0686810 | -0.810708 | 1.007797e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686810 | MtrunA17_Chr4g0036961 | 95.213 | 376 | 18 | 0 | 38 | 413 | 1 | 376 | 0.0 | 756 |
| Msa0686810 | MtrunA17_Chr4g0068121 | 83.511 | 376 | 62 | 0 | 38 | 413 | 1 | 376 | 0.0 | 677 |
| Msa0686810 | MtrunA17_Chr4g0068141 | 80.851 | 376 | 72 | 0 | 38 | 413 | 1 | 376 | 0.0 | 651 |
| Msa0686810 | MtrunA17_Chr3g0134571 | 43.127 | 371 | 199 | 7 | 43 | 409 | 16 | 378 | 7.50e-97 | 294 |
| Msa0686810 | MtrunA17_Chr3g0134551 | 42.933 | 375 | 195 | 9 | 43 | 409 | 27 | 390 | 7.88e-96 | 292 |
| Msa0686810 | MtrunA17_Chr3g0134561 | 42.204 | 372 | 202 | 8 | 43 | 409 | 27 | 390 | 2.50e-95 | 291 |
| Msa0686810 | MtrunA17_Chr3g0082001 | 42.667 | 375 | 196 | 9 | 43 | 409 | 27 | 390 | 3.21e-95 | 291 |
| Msa0686810 | MtrunA17_Chr1g0152811 | 41.622 | 370 | 206 | 6 | 43 | 409 | 63 | 425 | 1.02e-93 | 288 |
| Msa0686810 | MtrunA17_Chr1g0152831 | 41.253 | 383 | 214 | 7 | 28 | 407 | 47 | 421 | 1.00e-92 | 288 |
| Msa0686810 | MtrunA17_Chr3g0104611 | 36.269 | 386 | 224 | 12 | 35 | 409 | 3 | 377 | 4.38e-70 | 225 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0686810 | AT4G24220.2 | 42.049 | 371 | 202 | 8 | 43 | 409 | 26 | 387 | 1.49e-95 | 291 |
| Msa0686810 | AT4G24220.1 | 42.049 | 371 | 202 | 8 | 43 | 409 | 27 | 388 | 1.68e-95 | 291 |
| Msa0686810 | AT5G58750.1 | 32.071 | 396 | 245 | 12 | 28 | 410 | 2 | 386 | 3.24e-59 | 198 |
| Msa0686810 | AT5G58750.2 | 32.552 | 384 | 235 | 12 | 40 | 410 | 6 | 378 | 8.20e-59 | 196 |
Find 124 sgRNAs with CRISPR-Local
Find 334 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAGGTGGGTGACTTCT+TGG | 0.296908 | 4_4:+51438438 | None:intergenic |
| AAACCATCAAGGATGGAAGA+AGG | 0.533134 | 4_4:+51438518 | None:intergenic |
| AAAGAAAAGGTAATCCTAAA+TGG | 0.355473 | 4_4:+51438033 | None:intergenic |
| AAAGAGGTGGGTGACTTCTT+GGG | 0.459855 | 4_4:+51438439 | None:intergenic |
| AAAGTGTGTCTTCAAGATGA+AGG | 0.553065 | 4_4:-51440323 | Msa0686810:CDS |
| AAATTTCTATTACGTGCTTG+AGG | 0.545697 | 4_4:-51438183 | Msa0686810:CDS |
| AAATTTGGGTAAGGGAGTCG+TGG | 0.629424 | 4_4:+51438200 | None:intergenic |
| AACCGGAACCAAACATTACA+TGG | 0.447203 | 4_4:-51438291 | Msa0686810:CDS |
| AACTGGACCCATGTAATGTT+TGG | 0.479645 | 4_4:+51438283 | None:intergenic |
| AACTGGCACCGTTGCTTCAA+AGG | 0.459967 | 4_4:+51437701 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AACAAAAGCCTTTCCATATA+AGG | + | chr4_4:51437730-51437749 | None:intergenic | 30.0% | |
| TGGAAGATCTTGTCATAATT+TGG | + | chr4_4:51437968-51437987 | None:intergenic | 30.0% | |
| TTTCAATTTCTCCAATCTAC+TGG | + | chr4_4:51437988-51438007 | None:intergenic | 30.0% | |
| ACTCTGGTGTAATTACTTTA+GGG | - | chr4_4:51438142-51438161 | Msa0686810:CDS | 30.0% | |
| ATATATTATTCATCCGGCTT+TGG | + | chr4_4:51438251-51438270 | None:intergenic | 30.0% | |
| TCCTATGCAATTAAGTTTCA+TGG | - | chr4_4:51438524-51438543 | Msa0686810:CDS | 30.0% | |
| ACCATGAAACTTAATTGCAT+AGG | + | chr4_4:51438528-51438547 | None:intergenic | 30.0% | |
| ATGAACTAGTTAAACTAGCA+TGG | - | chr4_4:51438561-51438580 | Msa0686810:CDS | 30.0% | |
| TTAGCGAAATCATTTCATGT+CGG | + | chr4_4:51439128-51439147 | None:intergenic | 30.0% | |
| ACAAATAAATAGTGGTGAAG+TGG | - | chr4_4:51439443-51439462 | Msa0686810:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 51437557 | 51442145 | 51437557 | ID=Msa0686810;Name=Msa0686810 |
| chr4_4 | mRNA | 51437557 | 51442145 | 51437557 | ID=Msa0686810-mRNA-1;Parent=Msa0686810;Name=Msa0686810-mRNA-1;_AED=0.32;_eAED=0.35;_QI=0|0|0|0.4|1|1|5|0|413 |
| chr4_4 | exon | 51442140 | 51442145 | 51442140 | ID=Msa0686810-mRNA-1:exon:13323;Parent=Msa0686810-mRNA-1 |
| chr4_4 | exon | 51440933 | 51440985 | 51440933 | ID=Msa0686810-mRNA-1:exon:13322;Parent=Msa0686810-mRNA-1 |
| chr4_4 | exon | 51440304 | 51440346 | 51440304 | ID=Msa0686810-mRNA-1:exon:13321;Parent=Msa0686810-mRNA-1 |
| chr4_4 | exon | 51438777 | 51438783 | 51438777 | ID=Msa0686810-mRNA-1:exon:13320;Parent=Msa0686810-mRNA-1 |
| chr4_4 | exon | 51437557 | 51438689 | 51437557 | ID=Msa0686810-mRNA-1:exon:13319;Parent=Msa0686810-mRNA-1 |
| chr4_4 | CDS | 51442140 | 51442145 | 51442140 | ID=Msa0686810-mRNA-1:cds;Parent=Msa0686810-mRNA-1 |
| chr4_4 | CDS | 51440933 | 51440985 | 51440933 | ID=Msa0686810-mRNA-1:cds;Parent=Msa0686810-mRNA-1 |
| chr4_4 | CDS | 51440304 | 51440346 | 51440304 | ID=Msa0686810-mRNA-1:cds;Parent=Msa0686810-mRNA-1 |
| chr4_4 | CDS | 51438777 | 51438783 | 51438777 | ID=Msa0686810-mRNA-1:cds;Parent=Msa0686810-mRNA-1 |
| chr4_4 | CDS | 51437557 | 51438689 | 51437557 | ID=Msa0686810-mRNA-1:cds;Parent=Msa0686810-mRNA-1 |
| Gene Sequence |
>Msa0686810 ATGATTAACTTGGGGAAGAAGGGGTGTGTTTTCATCTCAGTACTTTGTGCTGTGGACAGCAAAGTGTGTCTTCAAGATGAAGGAAAGTTGGCATCAAGATTGTTGCAAGTGATGAATGTACGAAATTCCGTAGCACTGGTGGTTGGAGTAACAGGAATGGCTGGGCTAAGCCTAGCCAAAGCCTTGAAGCAGCCTGATTGTCTTGGAGGCCCATGGAAAGTTTACGGTGCAGCTCGCCGCTCCGCCGACGGTTGGTTTCCTTCTTCCATCCTTGATGGTTTCATCACCTTTGACGCTGTCAACTCAGCTGACACACATACCAAGCTGTTACCAATATCCCAAGAAGTCACCCACCTCTTTTGGGTCACGTTCCAGTTTGTAGGTGATGAAGAAGTTAACATCACCGTTAACAAAACCATGCTTCTTAATGTTCTCACCGTCCTCAAATCTTCTCCATCTTCCTCTCTCACCCATATAACACTCCAAACCGGAACCAAACATTACATGGGTCCAGTTCATGATCCGGTTCGGTCCACCAAACTTATATGCCACGAAACACCTTTTCATGAGAATATGCCACGACTCCCTTACCCAAATTTCTATTACGTGCTTGAGGATCTCGTTACATCCTATGCACCTTCGGTTACATACTCAATACATCGATCCTCTATCATAATAGGTATGTCACCAAGGAGTGCACACAACATGCTAATGAAGCTAGCAGTATATGCTGCCATATGTCGCCATTTAGGATTACCTTTTCTTTATCCAGGAAACAGGTACACTTGGGAGCATTTCTGTGATATGACGGATGTAGGCGTGCTTGCAAAGCAACATGTGTGGGCTGCAGTTACAGAAAATGCTAAGAACCAAGCGTTTAATTGCACAAACGGCGATGTTTTCACTTGGAAGAGTATGTGGATGTTGCTTAGTGAGGTTTTTGATGTTAAGTTTGTGGAGTTGAATGACAAGGAAGAGTTTGATTTGGTGGAGTTAATGCGTGATAAGGGTGAGATTTGGGACTTGATTGTCGAGGAATATGGGCTTCATAAGACCAAATTGCAGGAAATTGCTTCCTTTGAAGCAACGGTGCCAGTTCTGCGGTTTGAGTTTCAACATGTATCTAGTATGAACAAGAGTAAGGATTATGGGTTCTTTGAGTATGCTGATACGTTTAAGAGTATCAGATTCTGGGTGGCTAAGCTGAGGGAGATGAAACTCGTACCCGTCTACCAACATTGA |
| Protein sequence |
>Msa0686810 MINLGKKGCVFISVLCAVDSKVCLQDEGKLASRLLQVMNVRNSVALVVGVTGMAGLSLAKALKQPDCLGGPWKVYGAARRSADGWFPSSILDGFITFDAVNSADTHTKLLPISQEVTHLFWVTFQFVGDEEVNITVNKTMLLNVLTVLKSSPSSSLTHITLQTGTKHYMGPVHDPVRSTKLICHETPFHENMPRLPYPNFYYVLEDLVTSYAPSVTYSIHRSSIIIGMSPRSAHNMLMKLAVYAAICRHLGLPFLYPGNRYTWEHFCDMTDVGVLAKQHVWAAVTENAKNQAFNCTNGDVFTWKSMWMLLSEVFDVKFVELNDKEEFDLVELMRDKGEIWDLIVEEYGLHKTKLQEIASFEATVPVLRFEFQHVSSMNKSKDYGFFEYADTFKSIRFWVAKLREMKLVPVYQH* |
