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.gene061719.t1 | RHN63663.1 | 100 | 55 | 0 | 0 | 22 | 76 | 23 | 77 | 3.90E-25 | 123.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene061719.t1 | Q2Q493 | 70.3 | 74 | 18 | 2 | 1 | 71 | 1 | 73 | 3.2e-20 | 98.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene061719.t1 | A0A396IG90 | 100.0 | 55 | 0 | 0 | 22 | 76 | 23 | 77 | 2.8e-25 | 123.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene061719.t1 | TF | zf-HD |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene061719 | 0.804048 | 2.60E-49 | -1.69E-46 |
| MS.gene049254 | MS.gene061719 | 0.800883 | 1.17E-48 | -1.69E-46 |
| MS.gene049293 | MS.gene061719 | -0.808665 | 2.77E-50 | -1.69E-46 |
| MS.gene049404 | MS.gene061719 | 0.807892 | 4.05E-50 | -1.69E-46 |
| MS.gene049435 | MS.gene061719 | 0.814439 | 1.54E-51 | -1.69E-46 |
| MS.gene049669 | MS.gene061719 | 0.819782 | 9.69E-53 | -1.69E-46 |
| MS.gene049821 | MS.gene061719 | 0.816656 | 4.94E-52 | -1.69E-46 |
| MS.gene050020 | MS.gene061719 | 0.83613 | 1.12E-56 | -1.69E-46 |
| MS.gene05016 | MS.gene061719 | 0.820353 | 7.17E-53 | -1.69E-46 |
| MS.gene050227 | MS.gene061719 | 0.809929 | 1.48E-50 | -1.69E-46 |
| MS.gene050228 | MS.gene061719 | 0.80843 | 3.11E-50 | -1.69E-46 |
| MS.gene050303 | MS.gene061719 | 0.812139 | 4.93E-51 | -1.69E-46 |
| MS.gene050442 | MS.gene061719 | 0.854678 | 1.05E-61 | -1.69E-46 |
| MS.gene050680 | MS.gene061719 | 0.821423 | 4.07E-53 | -1.69E-46 |
| MS.gene050719 | MS.gene061719 | 0.804891 | 1.74E-49 | -1.69E-46 |
| MS.gene050721 | MS.gene061719 | 0.802083 | 6.64E-49 | -1.69E-46 |
| MS.gene050750 | MS.gene061719 | 0.818286 | 2.12E-52 | -1.69E-46 |
| MS.gene050759 | MS.gene061719 | 0.816086 | 6.63E-52 | -1.69E-46 |
| MS.gene050780 | MS.gene061719 | 0.819938 | 8.93E-53 | -1.69E-46 |
| MS.gene050807 | MS.gene061719 | 0.853183 | 2.83E-61 | -1.69E-46 |
| MS.gene050808 | MS.gene061719 | 0.824956 | 6.09E-54 | -1.69E-46 |
| MS.gene050815 | MS.gene061719 | 0.805983 | 1.03E-49 | -1.69E-46 |
| MS.gene050953 | MS.gene061719 | 0.817983 | 2.48E-52 | -1.69E-46 |
| MS.gene050962 | MS.gene061719 | 0.808658 | 2.78E-50 | -1.69E-46 |
| MS.gene051243 | MS.gene061719 | 0.803555 | 3.30E-49 | -1.69E-46 |
| MS.gene051247 | MS.gene061719 | 0.801803 | 7.58E-49 | -1.69E-46 |
| MS.gene051265 | MS.gene061719 | 0.812435 | 4.25E-51 | -1.69E-46 |
| MS.gene051719 | MS.gene061719 | 0.805894 | 1.07E-49 | -1.69E-46 |
| MS.gene051789 | MS.gene061719 | 0.817586 | 3.05E-52 | -1.69E-46 |
| MS.gene052323 | MS.gene061719 | 0.819806 | 9.57E-53 | -1.69E-46 |
| MS.gene052333 | MS.gene061719 | 0.801892 | 7.27E-49 | -1.69E-46 |
| MS.gene052426 | MS.gene061719 | 0.808981 | 2.37E-50 | -1.69E-46 |
| MS.gene052582 | MS.gene061719 | 0.820056 | 8.39E-53 | -1.69E-46 |
| MS.gene052584 | MS.gene061719 | 0.804517 | 2.08E-49 | -1.69E-46 |
| MS.gene052665 | MS.gene061719 | 0.809098 | 2.24E-50 | -1.69E-46 |
| MS.gene052773 | MS.gene061719 | 0.812404 | 4.31E-51 | -1.69E-46 |
| MS.gene053074 | MS.gene061719 | 0.811259 | 7.66E-51 | -1.69E-46 |
| MS.gene053166 | MS.gene061719 | 0.820362 | 7.14E-53 | -1.69E-46 |
| MS.gene053221 | MS.gene061719 | 0.804581 | 2.02E-49 | -1.69E-46 |
| MS.gene053563 | MS.gene061719 | 0.808691 | 2.74E-50 | -1.69E-46 |
| MS.gene05414 | MS.gene061719 | 0.814733 | 1.33E-51 | -1.69E-46 |
| MS.gene05415 | MS.gene061719 | 0.854591 | 1.11E-61 | -1.69E-46 |
| MS.gene054291 | MS.gene061719 | -0.812718 | 3.68E-51 | -1.69E-46 |
| MS.gene054405 | MS.gene061719 | 0.81031 | 1.23E-50 | -1.69E-46 |
| MS.gene054468 | MS.gene061719 | 0.815735 | 7.94E-52 | -1.69E-46 |
| MS.gene054559 | MS.gene061719 | 0.814691 | 1.35E-51 | -1.69E-46 |
| MS.gene054657 | MS.gene061719 | 0.810929 | 9.03E-51 | -1.69E-46 |
| MS.gene05510 | MS.gene061719 | 0.812082 | 5.07E-51 | -1.69E-46 |
| MS.gene055227 | MS.gene061719 | 0.812075 | 5.09E-51 | -1.69E-46 |
| MS.gene055228 | MS.gene061719 | 0.802305 | 5.98E-49 | -1.69E-46 |
| MS.gene055357 | MS.gene061719 | 0.80229 | 6.02E-49 | -1.69E-46 |
| MS.gene055358 | MS.gene061719 | 0.802825 | 4.67E-49 | -1.69E-46 |
| MS.gene055466 | MS.gene061719 | 0.805546 | 1.27E-49 | -1.69E-46 |
| MS.gene055623 | MS.gene061719 | 0.838616 | 2.59E-57 | -1.69E-46 |
| MS.gene055701 | MS.gene061719 | 0.813725 | 2.21E-51 | -1.69E-46 |
| MS.gene055778 | MS.gene061719 | 0.811916 | 5.51E-51 | -1.69E-46 |
| MS.gene055818 | MS.gene061719 | 0.841029 | 6.09E-58 | -1.69E-46 |
| MS.gene055926 | MS.gene061719 | 0.806947 | 6.42E-50 | -1.69E-46 |
| MS.gene05604 | MS.gene061719 | 0.848499 | 5.90E-60 | -1.69E-46 |
| MS.gene056069 | MS.gene061719 | -0.803853 | 2.86E-49 | -1.69E-46 |
| MS.gene056173 | MS.gene061719 | 0.807253 | 5.53E-50 | -1.69E-46 |
| MS.gene056366 | MS.gene061719 | 0.810222 | 1.28E-50 | -1.69E-46 |
| MS.gene056506 | MS.gene061719 | 0.831162 | 1.95E-55 | -1.69E-46 |
| MS.gene056760 | MS.gene061719 | 0.803932 | 2.75E-49 | -1.69E-46 |
| MS.gene057026 | MS.gene061719 | 0.815113 | 1.09E-51 | -1.69E-46 |
| MS.gene057060 | MS.gene061719 | 0.855075 | 8.05E-62 | -1.69E-46 |
| MS.gene057208 | MS.gene061719 | 0.817095 | 3.94E-52 | -1.69E-46 |
| MS.gene057693 | MS.gene061719 | 0.833697 | 4.59E-56 | -1.69E-46 |
| MS.gene057869 | MS.gene061719 | 0.833224 | 6.03E-56 | -1.69E-46 |
| MS.gene058146 | MS.gene061719 | 0.814412 | 1.56E-51 | -1.69E-46 |
| MS.gene058168 | MS.gene061719 | 0.829672 | 4.52E-55 | -1.69E-46 |
| MS.gene05847 | MS.gene061719 | 0.802139 | 6.47E-49 | -1.69E-46 |
| MS.gene058625 | MS.gene061719 | 0.818983 | 1.47E-52 | -1.69E-46 |
| MS.gene058979 | MS.gene061719 | 0.802254 | 6.12E-49 | -1.69E-46 |
| MS.gene059006 | MS.gene061719 | 0.81619 | 6.28E-52 | -1.69E-46 |
| MS.gene059161 | MS.gene061719 | 0.814547 | 1.46E-51 | -1.69E-46 |
| MS.gene05954 | MS.gene061719 | 0.813392 | 2.62E-51 | -1.69E-46 |
| MS.gene059569 | MS.gene061719 | 0.813241 | 2.83E-51 | -1.69E-46 |
| MS.gene059607 | MS.gene061719 | 0.80113 | 1.04E-48 | -1.69E-46 |
| MS.gene059725 | MS.gene061719 | 0.815985 | 6.98E-52 | -1.69E-46 |
| MS.gene060137 | MS.gene061719 | -0.819122 | 1.37E-52 | -1.69E-46 |
| MS.gene060322 | MS.gene061719 | 0.835812 | 1.35E-56 | -1.69E-46 |
| MS.gene06052 | MS.gene061719 | 0.809259 | 2.07E-50 | -1.69E-46 |
| MS.gene060572 | MS.gene061719 | 0.834327 | 3.20E-56 | -1.69E-46 |
| MS.gene060634 | MS.gene061719 | -0.825686 | 4.09E-54 | -1.69E-46 |
| MS.gene060803 | MS.gene061719 | 0.836375 | 9.71E-57 | -1.69E-46 |
| MS.gene060998 | MS.gene061719 | 0.817286 | 3.57E-52 | -1.69E-46 |
| MS.gene061040 | MS.gene061719 | -0.816692 | 4.85E-52 | -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.gene061719.t1 | MTR_3g039810 | 70.270 | 74 | 15 | 3 | 1 | 71 | 1 | 70 | 1.51e-27 | 95.5 |
| MS.gene061719.t1 | MTR_6g012220 | 69.565 | 69 | 17 | 2 | 1 | 69 | 1 | 65 | 1.12e-26 | 93.2 |
| MS.gene061719.t1 | MTR_3g100650 | 62.264 | 53 | 17 | 1 | 22 | 71 | 78 | 130 | 1.43e-16 | 71.6 |
| MS.gene061719.t1 | MTR_8g467340 | 57.627 | 59 | 20 | 1 | 17 | 70 | 57 | 115 | 3.94e-16 | 71.2 |
| MS.gene061719.t1 | MTR_1g077020 | 60.000 | 55 | 17 | 2 | 21 | 71 | 6 | 59 | 6.93e-16 | 68.6 |
| MS.gene061719.t1 | MTR_5g065440 | 60.377 | 53 | 18 | 1 | 22 | 71 | 56 | 108 | 4.03e-15 | 67.4 |
| MS.gene061719.t1 | MTR_7g010300 | 55.556 | 54 | 19 | 1 | 22 | 70 | 86 | 139 | 4.50e-15 | 68.2 |
| MS.gene061719.t1 | MTR_2g076780 | 50.000 | 66 | 27 | 2 | 8 | 70 | 24 | 86 | 7.46e-15 | 66.6 |
| MS.gene061719.t1 | MTR_4g134580 | 59.649 | 57 | 18 | 2 | 24 | 76 | 113 | 168 | 3.82e-14 | 65.5 |
| MS.gene061719.t1 | MTR_8g069080 | 56.000 | 50 | 19 | 1 | 24 | 70 | 69 | 118 | 7.58e-14 | 64.3 |
| MS.gene061719.t1 | MTR_5g020510 | 52.459 | 61 | 24 | 2 | 17 | 73 | 92 | 151 | 1.07e-13 | 63.9 |
| MS.gene061719.t1 | MTR_5g032600 | 58.000 | 50 | 18 | 1 | 24 | 70 | 78 | 127 | 1.72e-13 | 63.2 |
| MS.gene061719.t1 | MTR_6g012280 | 59.615 | 52 | 16 | 2 | 24 | 70 | 91 | 142 | 1.96e-13 | 63.5 |
| MS.gene061719.t1 | MTR_6g073013 | 56.000 | 50 | 18 | 1 | 24 | 69 | 19 | 68 | 2.15e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene061719.t1 | AT1G18835 | 64.384 | 73 | 24 | 1 | 1 | 71 | 1 | 73 | 4.71e-26 | 91.7 |
| MS.gene061719.t1 | AT3G28917 | 55.952 | 84 | 24 | 2 | 1 | 71 | 1 | 84 | 4.93e-23 | 84.3 |
| MS.gene061719.t1 | AT1G74660 | 69.811 | 53 | 13 | 1 | 22 | 71 | 37 | 89 | 4.10e-19 | 74.7 |
| MS.gene061719.t1 | AT1G74660 | 69.811 | 53 | 13 | 1 | 22 | 71 | 37 | 89 | 5.89e-19 | 73.9 |
| MS.gene061719.t1 | AT3G50890 | 52.778 | 72 | 27 | 3 | 6 | 71 | 40 | 110 | 1.91e-16 | 70.9 |
| MS.gene061719.t1 | AT1G14440 | 59.649 | 57 | 18 | 2 | 19 | 71 | 85 | 140 | 6.69e-16 | 70.1 |
| MS.gene061719.t1 | AT1G14440 | 59.649 | 57 | 18 | 2 | 19 | 71 | 85 | 140 | 6.69e-16 | 70.1 |
| MS.gene061719.t1 | AT2G18350 | 60.784 | 51 | 17 | 1 | 24 | 71 | 82 | 132 | 1.18e-15 | 68.9 |
| MS.gene061719.t1 | AT2G02540 | 61.111 | 54 | 16 | 2 | 21 | 70 | 84 | 136 | 1.65e-15 | 68.9 |
| MS.gene061719.t1 | AT2G02540 | 61.111 | 54 | 16 | 2 | 21 | 70 | 84 | 136 | 1.65e-15 | 68.9 |
| MS.gene061719.t1 | AT5G15210 | 56.364 | 55 | 19 | 1 | 21 | 70 | 53 | 107 | 2.54e-15 | 68.2 |
| MS.gene061719.t1 | AT5G42780 | 60.000 | 50 | 19 | 1 | 24 | 72 | 64 | 113 | 6.32e-15 | 66.6 |
| MS.gene061719.t1 | AT4G24660 | 61.111 | 54 | 16 | 2 | 22 | 71 | 47 | 99 | 7.21e-15 | 66.2 |
| MS.gene061719.t1 | AT5G39760 | 50.000 | 66 | 28 | 1 | 9 | 69 | 41 | 106 | 9.51e-15 | 67.0 |
| MS.gene061719.t1 | AT4G24660 | 61.111 | 54 | 16 | 2 | 22 | 71 | 47 | 99 | 1.07e-14 | 65.9 |
| MS.gene061719.t1 | AT1G69600 | 58.491 | 53 | 17 | 1 | 22 | 69 | 29 | 81 | 2.27e-14 | 65.5 |
| MS.gene061719.t1 | AT3G28920 | 55.932 | 59 | 21 | 1 | 22 | 75 | 50 | 108 | 3.18e-14 | 65.5 |
| MS.gene061719.t1 | AT5G60480 | 51.852 | 54 | 21 | 1 | 21 | 69 | 34 | 87 | 8.32e-14 | 63.5 |
| MS.gene061719.t1 | AT5G65410 | 56.863 | 51 | 19 | 1 | 24 | 71 | 75 | 125 | 1.06e-13 | 63.9 |
| MS.gene061719.t1 | AT1G75240 | 52.542 | 59 | 25 | 1 | 16 | 71 | 68 | 126 | 1.82e-13 | 63.5 |
| MS.gene061719.t1 | AT1G14687 | 52.174 | 46 | 20 | 1 | 24 | 69 | 7 | 50 | 8.58e-11 | 54.7 |
Find 15 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAAGAAATATTGTTGGATA+TGG | 0.243499 | 8.1:-16702829 | MS.gene061719:CDS |
| ATGGAATTCATGGCATGTTC+AGG | 0.335777 | 8.1:-16702751 | MS.gene061719:CDS |
| TCATCTTCAAGAAATATTGT+TGG | 0.392599 | 8.1:-16702835 | MS.gene061719:CDS |
| GTGCTGCTTGCGGTTGTCAT+AGG | 0.419461 | 8.1:-16702711 | MS.gene061719:CDS |
| GTCATAGGAACTTCCACAAA+AGG | 0.480871 | 8.1:-16702696 | MS.gene061719:CDS |
| CTATGCTGTTGATGGATGTA+TGG | 0.485307 | 8.1:-16702770 | MS.gene061719:CDS |
| AAGAATCATGCAGCATATAG+TGG | 0.485623 | 8.1:-16702796 | MS.gene061719:CDS |
| AGTGGAGGCTATGCTGTTGA+TGG | 0.489516 | 8.1:-16702778 | MS.gene061719:CDS |
| TGATGGATGTATGGAATTCA+TGG | 0.495255 | 8.1:-16702761 | MS.gene061719:CDS |
| TGGAATTCATGGCATGTTCA+GGG | 0.512543 | 8.1:-16702750 | MS.gene061719:CDS |
| AAAACGGCAAGTGGTGGTGG+TGG | 0.605250 | 8.1:-16702875 | MS.gene061719:CDS |
| GCACTTACATGTGCTGCTTG+CGG | 0.620281 | 8.1:-16702721 | MS.gene061719:CDS |
| GGAATTCATGGCATGTTCAG+GGG | 0.647724 | 8.1:-16702749 | MS.gene061719:CDS |
| AATCATGCAGCATATAGTGG+AGG | 0.667408 | 8.1:-16702793 | MS.gene061719:CDS |
| GTATTGCAAAGTACAGACTG+AGG | 0.757439 | 8.1:-16702670 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TCAAGAAATATTGTTGGATA+TGG | - | chr8.1:16702723-16702742 | MS.gene061719:CDS | 25.0% |
| ! | TCATCTTCAAGAAATATTGT+TGG | - | chr8.1:16702717-16702736 | MS.gene061719:CDS | 25.0% |
| ! | TTTGCAATACTTTCCTTTTG+TGG | + | chr8.1:16702872-16702891 | None:intergenic | 30.0% |
| AAGAATCATGCAGCATATAG+TGG | - | chr8.1:16702756-16702775 | MS.gene061719:CDS | 35.0% | |
| ! | TGATGGATGTATGGAATTCA+TGG | - | chr8.1:16702791-16702810 | MS.gene061719:CDS | 35.0% |
| AATCATGCAGCATATAGTGG+AGG | - | chr8.1:16702759-16702778 | MS.gene061719:CDS | 40.0% | |
| ATGGAATTCATGGCATGTTC+AGG | - | chr8.1:16702801-16702820 | MS.gene061719:CDS | 40.0% | |
| GTCATAGGAACTTCCACAAA+AGG | - | chr8.1:16702856-16702875 | MS.gene061719:CDS | 40.0% | |
| TGGAATTCATGGCATGTTCA+GGG | - | chr8.1:16702802-16702821 | MS.gene061719:CDS | 40.0% | |
| ! | CTATGCTGTTGATGGATGTA+TGG | - | chr8.1:16702782-16702801 | MS.gene061719:CDS | 40.0% |
| GGAATTCATGGCATGTTCAG+GGG | - | chr8.1:16702803-16702822 | MS.gene061719:CDS | 45.0% | |
| AGTGGAGGCTATGCTGTTGA+TGG | - | chr8.1:16702774-16702793 | MS.gene061719:CDS | 50.0% | |
| GAAAAAACGGCAAGTGGTGG+TGG | - | chr8.1:16702674-16702693 | MS.gene061719:CDS | 50.0% | |
| !! | GCACTTACATGTGCTGCTTG+CGG | - | chr8.1:16702831-16702850 | MS.gene061719:CDS | 50.0% |
| !! | AAAACGGCAAGTGGTGGTGG+TGG | - | chr8.1:16702677-16702696 | MS.gene061719:CDS | 55.0% |
| !! | GTGCTGCTTGCGGTTGTCAT+AGG | - | chr8.1:16702841-16702860 | MS.gene061719:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.1 | gene | 16702672 | 16702902 | 16702672 | ID=MS.gene061719 |
| chr8.1 | mRNA | 16702672 | 16702902 | 16702672 | ID=MS.gene061719.t1;Parent=MS.gene061719 |
| chr8.1 | exon | 16702672 | 16702902 | 16702672 | ID=MS.gene061719.t1.exon1;Parent=MS.gene061719.t1 |
| chr8.1 | CDS | 16702672 | 16702902 | 16702672 | ID=cds.MS.gene061719.t1;Parent=MS.gene061719.t1 |
| Gene Sequence |
| Protein sequence |
