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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150620 | GAU21245.1 | 75.044 | 565 | 98 | 4 | 6 | 528 | 5 | 568 | 0.0 | 861 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150620 | sp|P93604|LRK10_WHEAT | 36.945 | 563 | 257 | 20 | 30 | 500 | 71 | 627 | 2.72e-99 | 316 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150620 | A0A072VFM0 | 75.000 | 572 | 98 | 5 | 1 | 528 | 1 | 571 | 0.0 | 857 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000800 | Msa0150620 | 0.818754 | 1.661558e-52 | -8.615850e-47 |
| Msa0002110 | Msa0150620 | -0.805237 | 1.470830e-49 | -8.615850e-47 |
| Msa0002300 | Msa0150620 | 0.805449 | 1.327942e-49 | -8.615850e-47 |
| Msa0004180 | Msa0150620 | -0.840739 | 7.252818e-58 | -8.615850e-47 |
| Msa0009640 | Msa0150620 | 0.813285 | 2.765373e-51 | -8.615850e-47 |
| Msa0011410 | Msa0150620 | -0.813057 | 3.102639e-51 | -8.615850e-47 |
| Msa0011440 | Msa0150620 | -0.814626 | 1.399688e-51 | -8.615850e-47 |
| Msa0011450 | Msa0150620 | -0.806561 | 7.748413e-50 | -8.615850e-47 |
| Msa0017300 | Msa0150620 | -0.817004 | 4.127841e-52 | -8.615850e-47 |
| Msa0026420 | Msa0150620 | 0.850144 | 2.053134e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150620 | MtrunA17_Chr1g0158391 | 75.000 | 572 | 98 | 5 | 1 | 528 | 1 | 571 | 0.0 | 857 |
| Msa0150620 | MtrunA17_Chr1g0158711 | 72.581 | 558 | 104 | 8 | 19 | 528 | 18 | 574 | 0.0 | 796 |
| Msa0150620 | MtrunA17_Chr3g0088341 | 68.739 | 595 | 108 | 7 | 11 | 528 | 1 | 594 | 0.0 | 777 |
| Msa0150620 | MtrunA17_Chr6g0467681 | 63.908 | 568 | 138 | 10 | 7 | 518 | 10 | 566 | 0.0 | 709 |
| Msa0150620 | MtrunA17_Chr6g0467661 | 63.556 | 568 | 140 | 10 | 7 | 518 | 10 | 566 | 0.0 | 704 |
| Msa0150620 | MtrunA17_Chr1g0158471 | 62.176 | 579 | 149 | 12 | 1 | 518 | 11 | 580 | 0.0 | 691 |
| Msa0150620 | MtrunA17_Chr1g0158511 | 61.658 | 579 | 153 | 11 | 1 | 518 | 11 | 581 | 0.0 | 681 |
| Msa0150620 | MtrunA17_Chr1g0157871 | 61.302 | 553 | 164 | 7 | 24 | 528 | 25 | 575 | 0.0 | 672 |
| Msa0150620 | MtrunA17_Chr1g0157941 | 59.075 | 562 | 177 | 8 | 16 | 528 | 15 | 572 | 0.0 | 656 |
| Msa0150620 | MtrunA17_Chr6g0467641 | 58.333 | 552 | 124 | 9 | 7 | 518 | 10 | 495 | 0.0 | 621 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150620 | AT1G66910.1 | 40.761 | 368 | 155 | 8 | 188 | 499 | 274 | 634 | 7.49e-87 | 281 |
| Msa0150620 | AT1G66910.2 | 41.551 | 361 | 158 | 6 | 185 | 499 | 278 | 631 | 5.47e-86 | 279 |
| Msa0150620 | AT1G66920.2 | 41.311 | 351 | 160 | 5 | 193 | 499 | 244 | 592 | 5.42e-85 | 275 |
| Msa0150620 | AT1G66920.1 | 40.327 | 367 | 172 | 6 | 177 | 499 | 221 | 584 | 1.85e-84 | 274 |
| Msa0150620 | AT4G18250.1 | 39.566 | 369 | 162 | 9 | 182 | 500 | 290 | 647 | 1.12e-80 | 266 |
| Msa0150620 | AT1G70250.1 | 40.318 | 377 | 171 | 7 | 170 | 500 | 380 | 748 | 1.64e-79 | 265 |
| Msa0150620 | AT5G38280.1 | 44.337 | 309 | 117 | 6 | 244 | 502 | 320 | 623 | 5.70e-79 | 261 |
| Msa0150620 | AT5G38280.2 | 44.337 | 309 | 117 | 6 | 244 | 502 | 320 | 623 | 6.74e-79 | 261 |
| Msa0150620 | AT1G67000.1 | 40.217 | 368 | 155 | 9 | 188 | 499 | 494 | 852 | 5.87e-78 | 263 |
| Msa0150620 | AT5G39030.1 | 40.000 | 360 | 160 | 6 | 204 | 519 | 452 | 799 | 9.03e-76 | 255 |
Find 88 sgRNAs with CRISPR-Local
Find 236 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTCATAGACTAGAGCA+CGG | 0.697452 | 1_4:-12225324 | None:intergenic |
| AAAAGTTGTGTTACCTGCAG+TGG | 0.570763 | 1_4:-12224856 | None:intergenic |
| AAAATGCTCAATAACGCAGA+AGG | 0.589123 | 1_4:+12225205 | Msa0150620:CDS |
| AAACTATCTTTGTTGCTTGG+AGG | 0.471888 | 1_4:-12225379 | None:intergenic |
| AAAGTTCCCTGCAACCCTTT+TGG | 0.340428 | 1_4:+12225948 | Msa0150620:CDS |
| AAATCTCCCTCTTCATCTAT+AGG | 0.313474 | 1_4:-12225810 | None:intergenic |
| AACGGACAACATTGAGATGG+TGG | 0.622410 | 1_4:-12225273 | None:intergenic |
| AAGTTGCAACAAATTGCTCT+AGG | 0.592125 | 1_4:+12225415 | Msa0150620:CDS |
| AAGTTGCTGTAAACAATTTC+CGG | 0.264025 | 1_4:-12224478 | None:intergenic |
| AATAAATTTAAGCATATGAT+AGG | 0.389840 | 1_4:+12225121 | Msa0150620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGCTGTTAAATAAAAACCT+TGG | + | chr1_4:12224303-12224322 | Msa0150620:CDS | 30.0% | |
| AAGTTGCTGTAAACAATTTC+CGG | - | chr1_4:12224481-12224500 | None:intergenic | 30.0% | |
| TTTAAGCATATGATAGGAGA+AGG | + | chr1_4:12225127-12225146 | Msa0150620:CDS | 30.0% | |
| GAATGAGTTCATAAATGAAG+TGG | + | chr1_4:12225234-12225253 | Msa0150620:CDS | 30.0% | |
| ACTCCAAAAATTACAGACTT+TGG | + | chr1_4:12225535-12225554 | Msa0150620:CDS | 30.0% | |
| GATGTATTAGTTGAAGTAGT+AGG | - | chr1_4:12225975-12225994 | None:intergenic | 30.0% | |
| CTGCTGTTAAATAAAAACCT+TGG | + | chr1_4:12224303-12224322 | Msa0150620:CDS | 30.0% | |
| AAGTTGCTGTAAACAATTTC+CGG | - | chr1_4:12224481-12224500 | None:intergenic | 30.0% | |
| TTTAAGCATATGATAGGAGA+AGG | + | chr1_4:12225127-12225146 | Msa0150620:CDS | 30.0% | |
| GAATGAGTTCATAAATGAAG+TGG | + | chr1_4:12225234-12225253 | Msa0150620:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 12224273 | 12226055 | 12224273 | ID=Msa0150620;Name=Msa0150620 |
| chr1_4 | mRNA | 12224273 | 12226055 | 12224273 | ID=Msa0150620-mRNA-1;Parent=Msa0150620;Name=Msa0150620-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|0.5|0|0.66|1|1|3|0|528 |
| chr1_4 | exon | 12224273 | 12224864 | 12224273 | ID=Msa0150620-mRNA-1:exon:4970;Parent=Msa0150620-mRNA-1 |
| chr1_4 | exon | 12224951 | 12225658 | 12224951 | ID=Msa0150620-mRNA-1:exon:4971;Parent=Msa0150620-mRNA-1 |
| chr1_4 | exon | 12225769 | 12226055 | 12225769 | ID=Msa0150620-mRNA-1:exon:4972;Parent=Msa0150620-mRNA-1 |
| chr1_4 | CDS | 12224273 | 12224864 | 12224273 | ID=Msa0150620-mRNA-1:cds;Parent=Msa0150620-mRNA-1 |
| chr1_4 | CDS | 12224951 | 12225658 | 12224951 | ID=Msa0150620-mRNA-1:cds;Parent=Msa0150620-mRNA-1 |
| chr1_4 | CDS | 12225769 | 12226055 | 12225769 | ID=Msa0150620-mRNA-1:cds;Parent=Msa0150620-mRNA-1 |
| Gene Sequence |
>Msa0150620 ATGTCAGTGATCACAACACTTGTAGTATTGCTGCTGTTAAATAAAAACCTTGGAAATGGTCTGAGTGATGCTTCCATTGGATGTCCCTTCAAGCTCAACTGTACACATAACATGAAGATTCTTGAACTTCCTACTCAACCAGTCCCTGTGAAATTCATCGTCACTGACATTTATTATAGTTACAAAACTATTACTCTATCCGATCCCGGAAATTGTTTACAGCAACTTCTACTTGATCACAACTTCTCATCAATATTTCCGTTTAAGTATTTACAATTTGAACATACCAATATTAGTTTTTTCAATTGTTCTGCAGCAGTCCAGATTAGAAACAACGATCCAGTGTACCACATCACGCAAGATATCAAATCTTGTCCAATTTATGTTGCTGATTCGGATGAAGAAAGTATTGTTGAATCTGACTTAGTATACTGCATCAAACTGTGTGATCGCGTTTATCCATTCCAGGCATTTGGTATTCGAAACAACAGACTGTCATTTACATGGTCTGCTACCAATTTTGACATAGGATGCTTGAAATGTGAACACAAATCAAAGAAAAAGATTACATTCATTATTTTATCCACTGCAGGTGTAATCTTTGGTTCAACTTTGCTAGTGCTTCTGATCTGTGCTATTGTTCGAGTTCATCGCCATTTCAAGATGAAAGGCGAAGATCATACAAGAATCGAAAACTTTTTGAAGGATTATAAGGCTTTAAAGCCAACCAGATTCTCCTATGCTGACATAAAGAGAATCACAAATAAATTTAAGCATATGATAGGAGAAGGAGCTCATGGAGCTGTTTACAAAGGTAAATTATCGAGTCAAATTATGGTTGCTGTTAAAATGCTCAATAACGCAGAAGGAGATGGGAATGAGTTCATAAATGAAGTGGGAACGATGGGCAAAATCCACCATCTCAATGTTGTCCGTTTGCTTGGCTTTTGCGCCGATGGATTTCACCGTGCTCTAGTCTATGACTTTTTCCCAAATGGTTCGCTGCAGAAATTCATTTCTCCTCCAAGCAACAAAGATAGTTTCCTTGGATGGGACAAGTTGCAACAAATTGCTCTAGGCATAGCCAATGGAATCGAGTATCTTCACCAAGGTTGTGATCAAAGAATTCTTCACTTTGACATCAATCCTCATAATGTCTTGATCGATGAAAATTTAACTCCAAAAATTACAGACTTTGGTTTGGCTAAGATGTGCGCGAAAAATCAGAGTACTATATCTATGACTGCAGCCAGAGGAACATTAGGATACATGGCACCCGAAGTTTTTTCTAGAAATTTTGATTGGATTCACAGTTTGCTTGAAGGGGAAGAAATACAAATCCCTATAGATGAAGAGGGAGATTTAAGAATTGCGAAAAAATTGGCAATCGTGGGACTTTGGTGCATCCAATGGCAACCTATGCATCGTCCGTCTATGAAAACTGTGATGCAAATGCTTCAAGGAGATGGAGACAAGTTAAAAGTTCCCTGCAACCCTTTTGGACCTACTACTTCAACTAATACATCTACTAGTATTGTTGCACAACGTATGAATTTGGAGCTTGAAGTGATTCAAGAAATAGATTAA |
| Protein sequence |
>Msa0150620 MSVITTLVVLLLLNKNLGNGLSDASIGCPFKLNCTHNMKILELPTQPVPVKFIVTDIYYSYKTITLSDPGNCLQQLLLDHNFSSIFPFKYLQFEHTNISFFNCSAAVQIRNNDPVYHITQDIKSCPIYVADSDEESIVESDLVYCIKLCDRVYPFQAFGIRNNRLSFTWSATNFDIGCLKCEHKSKKKITFIILSTAGVIFGSTLLVLLICAIVRVHRHFKMKGEDHTRIENFLKDYKALKPTRFSYADIKRITNKFKHMIGEGAHGAVYKGKLSSQIMVAVKMLNNAEGDGNEFINEVGTMGKIHHLNVVRLLGFCADGFHRALVYDFFPNGSLQKFISPPSNKDSFLGWDKLQQIALGIANGIEYLHQGCDQRILHFDINPHNVLIDENLTPKITDFGLAKMCAKNQSTISMTAARGTLGYMAPEVFSRNFDWIHSLLEGEEIQIPIDEEGDLRIAKKLAIVGLWCIQWQPMHRPSMKTVMQMLQGDGDKLKVPCNPFGPTTSTNTSTSIVAQRMNLELEVIQEID* |
