Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066950.t1 | XP_003616636.1 | 98.8 | 86 | 1 | 0 | 1 | 86 | 504 | 589 | 1.00E-42 | 182.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066950.t1 | Q39033 | 78.8 | 85 | 18 | 0 | 1 | 85 | 496 | 580 | 4.7e-36 | 151.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066950.t1 | G7KH12 | 98.8 | 86 | 1 | 0 | 1 | 86 | 504 | 589 | 7.4e-43 | 182.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049404 | MS.gene066950 | 0.807034 | 6.16E-50 | -1.69E-46 |
| MS.gene049501 | MS.gene066950 | 0.808145 | 3.58E-50 | -1.69E-46 |
| MS.gene049850 | MS.gene066950 | 0.802705 | 4.94E-49 | -1.69E-46 |
| MS.gene050156 | MS.gene066950 | 0.806976 | 6.33E-50 | -1.69E-46 |
| MS.gene05016 | MS.gene066950 | 0.801968 | 7.01E-49 | -1.69E-46 |
| MS.gene050201 | MS.gene066950 | 0.809198 | 2.13E-50 | -1.69E-46 |
| MS.gene050251 | MS.gene066950 | 0.806885 | 6.62E-50 | -1.69E-46 |
| MS.gene050442 | MS.gene066950 | 0.803019 | 4.26E-49 | -1.69E-46 |
| MS.gene050780 | MS.gene066950 | 0.814634 | 1.39E-51 | -1.69E-46 |
| MS.gene050807 | MS.gene066950 | 0.818907 | 1.53E-52 | -1.69E-46 |
| MS.gene050844 | MS.gene066950 | 0.825544 | 4.42E-54 | -1.69E-46 |
| MS.gene051247 | MS.gene066950 | 0.829437 | 5.15E-55 | -1.69E-46 |
| MS.gene051265 | MS.gene066950 | 0.826339 | 2.86E-54 | -1.69E-46 |
| MS.gene051388 | MS.gene066950 | 0.81172 | 6.08E-51 | -1.69E-46 |
| MS.gene051594 | MS.gene066950 | 0.803005 | 4.29E-49 | -1.69E-46 |
| MS.gene051719 | MS.gene066950 | 0.838334 | 3.06E-57 | -1.69E-46 |
| MS.gene051720 | MS.gene066950 | 0.837484 | 5.06E-57 | -1.69E-46 |
| MS.gene051744 | MS.gene066950 | 0.807495 | 4.92E-50 | -1.69E-46 |
| MS.gene052519 | MS.gene066950 | 0.815127 | 1.08E-51 | -1.69E-46 |
| MS.gene052584 | MS.gene066950 | 0.807451 | 5.02E-50 | -1.69E-46 |
| MS.gene052611 | MS.gene066950 | 0.811242 | 7.72E-51 | -1.69E-46 |
| MS.gene052863 | MS.gene066950 | 0.810606 | 1.06E-50 | -1.69E-46 |
| MS.gene052896 | MS.gene066950 | 0.81611 | 6.55E-52 | -1.69E-46 |
| MS.gene053226 | MS.gene066950 | 0.815149 | 1.07E-51 | -1.69E-46 |
| MS.gene054236 | MS.gene066950 | 0.801055 | 1.08E-48 | -1.69E-46 |
| MS.gene054433 | MS.gene066950 | 0.813484 | 2.50E-51 | -1.69E-46 |
| MS.gene054467 | MS.gene066950 | 0.824114 | 9.62E-54 | -1.69E-46 |
| MS.gene05468 | MS.gene066950 | 0.81985 | 9.35E-53 | -1.69E-46 |
| MS.gene054775 | MS.gene066950 | 0.823578 | 1.28E-53 | -1.69E-46 |
| MS.gene055227 | MS.gene066950 | 0.800603 | 1.33E-48 | -1.69E-46 |
| MS.gene055356 | MS.gene066950 | 0.80987 | 1.53E-50 | -1.69E-46 |
| MS.gene055357 | MS.gene066950 | 0.833718 | 4.54E-56 | -1.69E-46 |
| MS.gene055466 | MS.gene066950 | 0.825972 | 3.50E-54 | -1.69E-46 |
| MS.gene055818 | MS.gene066950 | 0.836966 | 6.86E-57 | -1.69E-46 |
| MS.gene055926 | MS.gene066950 | 0.803524 | 3.35E-49 | -1.69E-46 |
| MS.gene05604 | MS.gene066950 | 0.817868 | 2.64E-52 | -1.69E-46 |
| MS.gene056366 | MS.gene066950 | 0.808251 | 3.39E-50 | -1.69E-46 |
| MS.gene056595 | MS.gene066950 | 0.805922 | 1.06E-49 | -1.69E-46 |
| MS.gene057060 | MS.gene066950 | 0.80999 | 1.44E-50 | -1.69E-46 |
| MS.gene057915 | MS.gene066950 | 0.802475 | 5.51E-49 | -1.69E-46 |
| MS.gene058625 | MS.gene066950 | 0.815246 | 1.02E-51 | -1.69E-46 |
| MS.gene05954 | MS.gene066950 | 0.807958 | 3.92E-50 | -1.69E-46 |
| MS.gene060137 | MS.gene066950 | -0.807887 | 4.06E-50 | -1.69E-46 |
| MS.gene060322 | MS.gene066950 | 0.823815 | 1.13E-53 | -1.69E-46 |
| MS.gene060803 | MS.gene066950 | 0.821125 | 4.77E-53 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066950.t1 | MTR_5g082620 | 98.837 | 86 | 1 | 0 | 1 | 86 | 504 | 589 | 8.63e-56 | 181 |
| MS.gene066950.t1 | MTR_3g070720 | 85.882 | 85 | 12 | 0 | 1 | 85 | 508 | 592 | 1.57e-48 | 161 |
| MS.gene066950.t1 | MTR_3g069280 | 81.176 | 85 | 16 | 0 | 1 | 85 | 487 | 571 | 5.56e-46 | 154 |
| MS.gene066950.t1 | MTR_5g071010 | 72.941 | 85 | 23 | 0 | 1 | 85 | 509 | 593 | 4.54e-42 | 144 |
| MS.gene066950.t1 | MTR_5g082590 | 71.429 | 84 | 24 | 0 | 2 | 85 | 498 | 581 | 4.69e-37 | 130 |
| MS.gene066950.t1 | MTR_5g082580 | 63.095 | 84 | 31 | 0 | 2 | 85 | 523 | 606 | 7.67e-34 | 121 |
| MS.gene066950.t1 | MTR_3g070710 | 66.667 | 84 | 27 | 1 | 2 | 85 | 504 | 586 | 3.02e-30 | 111 |
| MS.gene066950.t1 | MTR_3g070560 | 66.667 | 81 | 26 | 1 | 3 | 83 | 333 | 412 | 3.53e-29 | 107 |
| MS.gene066950.t1 | MTR_3g070560 | 66.667 | 81 | 26 | 1 | 3 | 83 | 506 | 585 | 6.91e-29 | 107 |
| MS.gene066950.t1 | MTR_5g071040 | 59.524 | 84 | 34 | 0 | 2 | 85 | 489 | 572 | 1.43e-28 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066950.t1 | AT3G08510 | 78.824 | 85 | 18 | 0 | 1 | 85 | 467 | 551 | 1.19e-43 | 148 |
| MS.gene066950.t1 | AT3G08510 | 78.824 | 85 | 18 | 0 | 1 | 85 | 467 | 551 | 1.19e-43 | 148 |
| MS.gene066950.t1 | AT3G08510 | 78.824 | 85 | 18 | 0 | 1 | 85 | 496 | 580 | 2.00e-43 | 147 |
| MS.gene066950.t1 | AT3G08510 | 78.824 | 85 | 18 | 0 | 1 | 85 | 496 | 580 | 2.00e-43 | 147 |
| MS.gene066950.t1 | AT3G55940 | 78.824 | 85 | 18 | 0 | 1 | 85 | 499 | 583 | 7.79e-42 | 143 |
| MS.gene066950.t1 | AT2G40116 | 73.810 | 84 | 22 | 0 | 2 | 85 | 529 | 612 | 7.14e-39 | 135 |
| MS.gene066950.t1 | AT5G58700 | 67.059 | 85 | 28 | 0 | 1 | 85 | 404 | 488 | 3.95e-36 | 127 |
| MS.gene066950.t1 | AT5G58700 | 67.059 | 85 | 28 | 0 | 1 | 85 | 512 | 596 | 7.54e-36 | 127 |
| MS.gene066950.t1 | AT5G58700 | 67.059 | 85 | 28 | 0 | 1 | 85 | 512 | 596 | 7.54e-36 | 127 |
| MS.gene066950.t1 | AT5G58690 | 67.059 | 85 | 28 | 0 | 1 | 85 | 474 | 558 | 4.74e-34 | 122 |
| MS.gene066950.t1 | AT5G58690 | 67.059 | 85 | 28 | 0 | 1 | 85 | 493 | 577 | 5.92e-34 | 122 |
| MS.gene066950.t1 | AT5G58690 | 67.059 | 85 | 28 | 0 | 1 | 85 | 493 | 577 | 5.92e-34 | 122 |
| MS.gene066950.t1 | AT5G58670 | 53.086 | 81 | 38 | 0 | 3 | 83 | 476 | 556 | 7.68e-26 | 99.4 |
| MS.gene066950.t1 | AT3G47290 | 51.807 | 83 | 40 | 0 | 3 | 85 | 448 | 530 | 6.22e-24 | 94.0 |
| MS.gene066950.t1 | AT3G47220 | 51.220 | 82 | 40 | 0 | 4 | 85 | 449 | 530 | 6.01e-23 | 91.3 |
| MS.gene066950.t1 | AT4G38530 | 52.439 | 82 | 38 | 1 | 3 | 83 | 474 | 555 | 7.55e-23 | 90.9 |
| MS.gene066950.t1 | AT3G47290 | 54.412 | 68 | 31 | 0 | 3 | 70 | 448 | 515 | 4.65e-20 | 82.8 |
Find 22 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAAACATGCTTACCTGTTT+CGG | 0.306660 | 5.4:+65237897 | MS.gene066950:CDS |
| AGTTGTATTTATCTCCCTTC+TGG | 0.319388 | 5.4:-65237957 | None:intergenic |
| TGAGTTCCCGCTTACTGTTC+CGG | 0.319955 | 5.4:+65237810 | MS.gene066950:CDS |
| CCGAAACAGGTAAGCATGTT+TGG | 0.351920 | 5.4:-65237897 | None:intergenic |
| CAAGGGCAATAGAGGATAAC+TGG | 0.369854 | 5.4:+65237764 | MS.gene066950:CDS |
| ATGTCCGAGAAAGATGATTT+TGG | 0.376271 | 5.4:+65237871 | MS.gene066950:CDS |
| TATCTCCCTTCTGGCTATGC+AGG | 0.385216 | 5.4:-65237948 | None:intergenic |
| GCCACCAAAATCATCTTTCT+CGG | 0.396908 | 5.4:-65237875 | None:intergenic |
| CCACTCCTTAGCTCCGAAAC+AGG | 0.428640 | 5.4:-65237910 | None:intergenic |
| AGGATAACTGGCTGCCTACA+TGG | 0.502775 | 5.4:+65237776 | MS.gene066950:CDS |
| GCTTACCTGTTTCGGAGCTA+AGG | 0.504467 | 5.4:+65237905 | MS.gene066950:CDS |
| CGTGAACTTCTATACGAAGA+AGG | 0.506720 | 5.4:-65237840 | None:intergenic |
| ATACGAAGAAGGGCTAGTTC+CGG | 0.521787 | 5.4:-65237829 | None:intergenic |
| GTTTCCCTGCATAGCCAGAA+GGG | 0.556734 | 5.4:+65237943 | MS.gene066950:CDS |
| ATCTCCCTTCTGGCTATGCA+GGG | 0.556839 | 5.4:-65237947 | None:intergenic |
| AGTTTCCCTGCATAGCCAGA+AGG | 0.561034 | 5.4:+65237942 | MS.gene066950:CDS |
| CTAGTTCCGGAACAGTAAGC+GGG | 0.572544 | 5.4:-65237816 | None:intergenic |
| TCAAATACCTCGTTCCATGT+AGG | 0.605540 | 5.4:-65237790 | None:intergenic |
| GCTAGTTCCGGAACAGTAAG+CGG | 0.611031 | 5.4:-65237817 | None:intergenic |
| CCTGTTTCGGAGCTAAGGAG+TGG | 0.625863 | 5.4:+65237910 | MS.gene066950:CDS |
| GTGAACTTCTATACGAAGAA+GGG | 0.630679 | 5.4:-65237839 | None:intergenic |
| CTGGCTGCCTACATGGAACG+AGG | 0.693778 | 5.4:+65237783 | MS.gene066950:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTTGTATTTATCTCCCTTC+TGG | - | chr5.4:65237960-65237979 | None:intergenic | 35.0% | |
| GAAAAAAACAAGGGCAATAG+AGG | + | chr5.4:65237756-65237775 | MS.gene066950:CDS | 35.0% | |
| GTGAACTTCTATACGAAGAA+GGG | - | chr5.4:65237842-65237861 | None:intergenic | 35.0% | |
| ! | ATGTCCGAGAAAGATGATTT+TGG | + | chr5.4:65237871-65237890 | MS.gene066950:CDS | 35.0% |
| CCAAACATGCTTACCTGTTT+CGG | + | chr5.4:65237897-65237916 | MS.gene066950:CDS | 40.0% | |
| CGTGAACTTCTATACGAAGA+AGG | - | chr5.4:65237843-65237862 | None:intergenic | 40.0% | |
| GCCACCAAAATCATCTTTCT+CGG | - | chr5.4:65237878-65237897 | None:intergenic | 40.0% | |
| TCAAATACCTCGTTCCATGT+AGG | - | chr5.4:65237793-65237812 | None:intergenic | 40.0% | |
| ! | TCCGAGAAAGATGATTTTGG+TGG | + | chr5.4:65237874-65237893 | MS.gene066950:CDS | 40.0% |
| CAAGGGCAATAGAGGATAAC+TGG | + | chr5.4:65237764-65237783 | MS.gene066950:CDS | 45.0% | |
| CCGAAACAGGTAAGCATGTT+TGG | - | chr5.4:65237900-65237919 | None:intergenic | 45.0% | |
| !! | ATACGAAGAAGGGCTAGTTC+CGG | - | chr5.4:65237832-65237851 | None:intergenic | 45.0% |
| AGGATAACTGGCTGCCTACA+TGG | + | chr5.4:65237776-65237795 | MS.gene066950:CDS | 50.0% | |
| AGTTTCCCTGCATAGCCAGA+AGG | + | chr5.4:65237942-65237961 | MS.gene066950:CDS | 50.0% | |
| CTAGTTCCGGAACAGTAAGC+GGG | - | chr5.4:65237819-65237838 | None:intergenic | 50.0% | |
| GCTAGTTCCGGAACAGTAAG+CGG | - | chr5.4:65237820-65237839 | None:intergenic | 50.0% | |
| GCTTACCTGTTTCGGAGCTA+AGG | + | chr5.4:65237905-65237924 | MS.gene066950:CDS | 50.0% | |
| GTTTCCCTGCATAGCCAGAA+GGG | + | chr5.4:65237943-65237962 | MS.gene066950:CDS | 50.0% | |
| TGAGTTCCCGCTTACTGTTC+CGG | + | chr5.4:65237810-65237829 | MS.gene066950:CDS | 50.0% | |
| ! | ATCTCCCTTCTGGCTATGCA+GGG | - | chr5.4:65237950-65237969 | None:intergenic | 50.0% |
| ! | TATCTCCCTTCTGGCTATGC+AGG | - | chr5.4:65237951-65237970 | None:intergenic | 50.0% |
| CCACTCCTTAGCTCCGAAAC+AGG | - | chr5.4:65237913-65237932 | None:intergenic | 55.0% | |
| CCTGTTTCGGAGCTAAGGAG+TGG | + | chr5.4:65237910-65237929 | MS.gene066950:CDS | 55.0% | |
| CTGGCTGCCTACATGGAACG+AGG | + | chr5.4:65237783-65237802 | MS.gene066950:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 65237754 | 65238014 | 65237754 | ID=MS.gene066950 |
| chr5.4 | mRNA | 65237754 | 65238014 | 65237754 | ID=MS.gene066950.t1;Parent=MS.gene066950 |
| chr5.4 | exon | 65237754 | 65238014 | 65237754 | ID=MS.gene066950.t1.exon1;Parent=MS.gene066950.t1 |
| chr5.4 | CDS | 65237754 | 65238014 | 65237754 | ID=cds.MS.gene066950.t1;Parent=MS.gene066950.t1 |
| Gene Sequence |
| Protein sequence |
