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.gene45616.t1 | XP_013457515.1 | 100 | 177 | 0 | 0 | 1 | 177 | 1 | 177 | 2.60E-88 | 334.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45616.t1 | P46604 | 54.3 | 188 | 63 | 7 | 1 | 177 | 1 | 176 | 5.0e-32 | 139.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45616.t1 | A0A072UQB3 | 100.0 | 177 | 0 | 0 | 1 | 177 | 1 | 177 | 1.8e-88 | 334.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene45616.t1 | TF | HB-other |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051541 | MS.gene45616 | 0.803671 | 3.12E-49 | -1.69E-46 |
| MS.gene052493 | MS.gene45616 | 0.806391 | 8.41E-50 | -1.69E-46 |
| MS.gene052674 | MS.gene45616 | 0.820797 | 5.67E-53 | -1.69E-46 |
| MS.gene052675 | MS.gene45616 | 0.821996 | 3.00E-53 | -1.69E-46 |
| MS.gene052677 | MS.gene45616 | 0.815796 | 7.70E-52 | -1.69E-46 |
| MS.gene054479 | MS.gene45616 | 0.801707 | 7.93E-49 | -1.69E-46 |
| MS.gene054641 | MS.gene45616 | 0.811622 | 6.39E-51 | -1.69E-46 |
| MS.gene057155 | MS.gene45616 | 0.803528 | 3.34E-49 | -1.69E-46 |
| MS.gene060850 | MS.gene45616 | 0.84544 | 4.06E-59 | -1.69E-46 |
| MS.gene060851 | MS.gene45616 | 0.838714 | 2.44E-57 | -1.69E-46 |
| MS.gene060852 | MS.gene45616 | 0.836152 | 1.11E-56 | -1.69E-46 |
| MS.gene060932 | MS.gene45616 | 0.832471 | 9.28E-56 | -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.gene45616.t1 | MTR_4g097600 | 100.000 | 177 | 0 | 0 | 1 | 177 | 1 | 177 | 5.68e-129 | 363 |
| MS.gene45616.t1 | MTR_5g014890 | 57.979 | 188 | 53 | 6 | 1 | 177 | 1 | 173 | 8.26e-47 | 154 |
| MS.gene45616.t1 | MTR_2g061030 | 76.056 | 71 | 16 | 1 | 108 | 177 | 180 | 250 | 3.01e-29 | 110 |
| MS.gene45616.t1 | MTR_1g054285 | 56.364 | 110 | 27 | 3 | 68 | 177 | 116 | 204 | 4.86e-29 | 108 |
| MS.gene45616.t1 | MTR_5g013010 | 62.000 | 100 | 29 | 3 | 79 | 177 | 95 | 186 | 1.64e-28 | 105 |
| MS.gene45616.t1 | MTR_1g017090 | 43.316 | 187 | 84 | 6 | 5 | 177 | 2 | 180 | 1.09e-27 | 105 |
| MS.gene45616.t1 | MTR_5g013010 | 62.000 | 100 | 29 | 3 | 79 | 177 | 95 | 186 | 1.40e-27 | 105 |
| MS.gene45616.t1 | MTR_4g100550 | 59.184 | 98 | 28 | 1 | 80 | 177 | 85 | 170 | 1.67e-27 | 104 |
| MS.gene45616.t1 | MTR_7g093430 | 76.190 | 63 | 13 | 1 | 115 | 177 | 150 | 210 | 6.67e-26 | 100 |
| MS.gene45616.t1 | MTR_3g103590 | 59.091 | 88 | 27 | 2 | 90 | 177 | 117 | 195 | 1.13e-24 | 97.8 |
| MS.gene45616.t1 | MTR_8g006705 | 82.692 | 52 | 9 | 0 | 126 | 177 | 145 | 196 | 5.46e-24 | 95.9 |
| MS.gene45616.t1 | MTR_4g084750 | 75.000 | 52 | 13 | 0 | 126 | 177 | 64 | 115 | 1.01e-20 | 85.1 |
| MS.gene45616.t1 | MTR_2g038625 | 40.157 | 127 | 64 | 3 | 54 | 177 | 15 | 132 | 4.00e-17 | 75.9 |
| MS.gene45616.t1 | MTR_2g038580 | 40.157 | 127 | 64 | 3 | 54 | 177 | 15 | 132 | 4.00e-17 | 75.9 |
| MS.gene45616.t1 | MTR_4g126900 | 71.429 | 49 | 14 | 0 | 129 | 177 | 90 | 138 | 5.31e-17 | 75.5 |
| MS.gene45616.t1 | MTR_5g039000 | 53.030 | 66 | 29 | 1 | 114 | 177 | 62 | 127 | 6.68e-14 | 68.2 |
| MS.gene45616.t1 | MTR_3g080100 | 41.000 | 100 | 55 | 2 | 80 | 177 | 12 | 109 | 1.68e-13 | 66.6 |
| MS.gene45616.t1 | MTR_3g080100 | 50.746 | 67 | 31 | 1 | 113 | 177 | 4 | 70 | 2.65e-13 | 65.9 |
| MS.gene45616.t1 | MTR_6g007647 | 60.784 | 51 | 20 | 0 | 127 | 177 | 33 | 83 | 2.75e-13 | 66.2 |
| MS.gene45616.t1 | MTR_6g007647 | 60.784 | 51 | 20 | 0 | 127 | 177 | 67 | 117 | 3.12e-13 | 66.2 |
| MS.gene45616.t1 | MTR_7g103340 | 45.714 | 70 | 38 | 0 | 108 | 177 | 44 | 113 | 4.97e-13 | 65.1 |
| MS.gene45616.t1 | MTR_4g107650 | 50.000 | 62 | 31 | 0 | 116 | 177 | 84 | 145 | 1.82e-12 | 64.7 |
| MS.gene45616.t1 | MTR_8g468210 | 44.737 | 76 | 39 | 1 | 102 | 177 | 55 | 127 | 3.20e-12 | 63.5 |
| MS.gene45616.t1 | MTR_5g038280 | 40.860 | 93 | 46 | 2 | 86 | 177 | 53 | 137 | 3.92e-12 | 63.5 |
| MS.gene45616.t1 | MTR_8g089895 | 51.613 | 62 | 28 | 1 | 118 | 177 | 43 | 104 | 6.52e-12 | 62.8 |
| MS.gene45616.t1 | MTR_7g010020 | 46.667 | 60 | 32 | 0 | 118 | 177 | 71 | 130 | 9.32e-12 | 62.0 |
| MS.gene45616.t1 | MTR_1g061660 | 54.902 | 51 | 23 | 0 | 127 | 177 | 59 | 109 | 9.39e-12 | 61.6 |
| MS.gene45616.t1 | MTR_3g086790 | 44.737 | 76 | 37 | 1 | 107 | 177 | 35 | 110 | 5.42e-11 | 60.1 |
| MS.gene45616.t1 | MTR_8g469430 | 54.902 | 51 | 23 | 0 | 127 | 177 | 89 | 139 | 7.19e-11 | 59.7 |
| MS.gene45616.t1 | MTR_6g011610 | 34.459 | 148 | 69 | 6 | 52 | 177 | 5 | 146 | 8.72e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45616.t1 | AT4G37790 | 54.255 | 188 | 63 | 7 | 1 | 177 | 1 | 176 | 2.73e-39 | 135 |
| MS.gene45616.t1 | AT2G22800 | 55.978 | 184 | 53 | 10 | 1 | 177 | 1 | 163 | 7.10e-34 | 121 |
| MS.gene45616.t1 | AT5G47370 | 56.757 | 111 | 43 | 2 | 72 | 177 | 70 | 180 | 1.02e-30 | 113 |
| MS.gene45616.t1 | AT5G06710 | 58.929 | 112 | 29 | 4 | 76 | 177 | 136 | 240 | 3.31e-30 | 111 |
| MS.gene45616.t1 | AT5G06710 | 59.649 | 114 | 25 | 5 | 76 | 177 | 136 | 240 | 1.05e-29 | 111 |
| MS.gene45616.t1 | AT4G17460 | 54.310 | 116 | 46 | 4 | 68 | 177 | 71 | 185 | 1.23e-28 | 107 |
| MS.gene45616.t1 | AT3G60390 | 51.240 | 121 | 45 | 5 | 69 | 177 | 94 | 212 | 5.77e-26 | 101 |
| MS.gene45616.t1 | AT4G16780 | 74.242 | 66 | 16 | 1 | 112 | 177 | 115 | 179 | 2.89e-25 | 99.0 |
| MS.gene45616.t1 | AT2G01430 | 55.844 | 77 | 29 | 1 | 106 | 177 | 113 | 189 | 2.29e-22 | 89.7 |
| MS.gene45616.t1 | AT2G44910 | 80.769 | 52 | 10 | 0 | 126 | 177 | 162 | 213 | 3.33e-22 | 91.3 |
| MS.gene45616.t1 | AT2G01430 | 55.844 | 77 | 29 | 1 | 106 | 177 | 113 | 189 | 1.33e-21 | 89.0 |
| MS.gene45616.t1 | AT1G70920 | 59.375 | 64 | 26 | 0 | 114 | 177 | 26 | 89 | 6.82e-18 | 77.0 |
| MS.gene45616.t1 | AT1G70920 | 59.375 | 64 | 26 | 0 | 114 | 177 | 56 | 119 | 8.50e-18 | 77.4 |
| MS.gene45616.t1 | AT5G06710 | 51.163 | 86 | 25 | 4 | 76 | 151 | 136 | 214 | 1.30e-12 | 64.3 |
| MS.gene45616.t1 | AT5G06710 | 51.163 | 86 | 25 | 4 | 76 | 151 | 136 | 214 | 1.30e-12 | 64.3 |
| MS.gene45616.t1 | AT1G69780 | 46.774 | 62 | 33 | 0 | 116 | 177 | 74 | 135 | 5.38e-12 | 63.2 |
| MS.gene45616.t1 | AT3G01470 | 56.863 | 51 | 22 | 0 | 127 | 177 | 68 | 118 | 1.44e-11 | 61.6 |
| MS.gene45616.t1 | AT5G65310 | 53.571 | 56 | 26 | 0 | 122 | 177 | 67 | 122 | 1.50e-11 | 62.0 |
| MS.gene45616.t1 | AT5G65310 | 53.571 | 56 | 26 | 0 | 122 | 177 | 49 | 104 | 1.57e-11 | 61.6 |
| MS.gene45616.t1 | AT4G36740 | 51.724 | 58 | 28 | 0 | 120 | 177 | 49 | 106 | 2.04e-11 | 60.5 |
| MS.gene45616.t1 | AT4G36740 | 51.724 | 58 | 28 | 0 | 120 | 177 | 48 | 105 | 2.12e-11 | 60.5 |
| MS.gene45616.t1 | AT5G03790 | 58.824 | 51 | 21 | 0 | 127 | 177 | 77 | 127 | 3.32e-11 | 59.7 |
| MS.gene45616.t1 | AT5G03790 | 58.824 | 51 | 21 | 0 | 127 | 177 | 77 | 127 | 3.33e-11 | 60.5 |
| MS.gene45616.t1 | AT4G40060 | 54.717 | 53 | 24 | 0 | 125 | 177 | 57 | 109 | 5.31e-11 | 60.1 |
Find 33 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAGGCCTTCAACTTATTCT+AGG | 0.257483 | 8.4:-24906771 | MS.gene45616:CDS |
| GGTACCTGGCTCTACGGTTC+TGG | 0.335278 | 8.4:+24906192 | None:intergenic |
| TTATGATTACTTGAGGAATA+AGG | 0.345806 | 8.4:+24906690 | None:intergenic |
| AAGCATAGCAGATTGATCTT+TGG | 0.351274 | 8.4:+24906410 | None:intergenic |
| GGATGGTGGTGTGTCTTGTT+TGG | 0.360529 | 8.4:+24906731 | None:intergenic |
| TGTTAGCAGTGAATTAGAAA+TGG | 0.445208 | 8.4:-24906520 | MS.gene45616:CDS |
| AGGCTTTGTAACGTTGTTGT+TGG | 0.454137 | 8.4:+24906710 | None:intergenic |
| GCTGAACCATCTTTAACGTT+GGG | 0.469771 | 8.4:-24906657 | MS.gene45616:CDS |
| AGCTGAACCATCTTTAACGT+TGG | 0.482898 | 8.4:-24906658 | MS.gene45616:CDS |
| CTAAGCCTAGAATAAGTTGA+AGG | 0.488952 | 8.4:+24906766 | None:intergenic |
| TTGTTTCATCTTTCTCTAGT+GGG | 0.496061 | 8.4:-24906563 | MS.gene45616:CDS |
| TTCTTCATAGTAACTCTTGG+TGG | 0.498912 | 8.4:+24906629 | None:intergenic |
| AGGTGTTAGATTTAACTCTC+TGG | 0.498987 | 8.4:+24906235 | None:intergenic |
| TTCATCTTTCTCTAGTGGGA+GGG | 0.505690 | 8.4:-24906559 | MS.gene45616:CDS |
| CACCTCGACAAGTTGAGGTC+TGG | 0.514656 | 8.4:-24906217 | MS.gene45616:CDS |
| GTTGTTTCATCTTTCTCTAG+TGG | 0.516924 | 8.4:-24906564 | MS.gene45616:CDS |
| AGGTTCTTCATAGTAACTCT+TGG | 0.520099 | 8.4:+24906626 | None:intergenic |
| GGTTCCAGAACCGTAGAGCC+AGG | 0.526669 | 8.4:-24906196 | None:intergenic |
| TTTCATCTTTCTCTAGTGGG+AGG | 0.528407 | 8.4:-24906560 | MS.gene45616:CDS |
| TTTGTAACGTTGTTGTTGGA+TGG | 0.545023 | 8.4:+24906714 | None:intergenic |
| GATAAACCCAACGTTAAAGA+TGG | 0.545369 | 8.4:+24906651 | None:intergenic |
| AGAAATGGAAACGACGGAGA+TGG | 0.553541 | 8.4:-24906505 | MS.gene45616:CDS |
| TGTATAGGTACCTGGCTCTA+CGG | 0.565795 | 8.4:+24906186 | None:intergenic |
| TCTAACACCTCGACAAGTTG+AGG | 0.578186 | 8.4:-24906222 | MS.gene45616:CDS |
| ATAGTTGTTATGATTACTTG+AGG | 0.592747 | 8.4:+24906683 | None:intergenic |
| AAGACGGTGCCACTGCAGCT+AGG | 0.595899 | 8.4:-24906449 | MS.gene45616:CDS |
| AAGCTTCTTCCTAGCTGCAG+TGG | 0.601402 | 8.4:+24906440 | None:intergenic |
| CAAGATGCTAGTAACAACTC+AGG | 0.601537 | 8.4:-24906789 | MS.gene45616:CDS |
| GTAACGTTGTTGTTGGATGG+TGG | 0.602624 | 8.4:+24906717 | None:intergenic |
| AACCAGACCTCAACTTGTCG+AGG | 0.626268 | 8.4:+24906215 | None:intergenic |
| TGAATTAGAAATGGAAACGA+CGG | 0.634393 | 8.4:-24906511 | MS.gene45616:CDS |
| GATGAAACAACGCTGTGATG+AGG | 0.669037 | 8.4:+24906576 | None:intergenic |
| ATCAGCGATGAAGATGAAGA+CGG | 0.672472 | 8.4:-24906465 | MS.gene45616:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATTTGATAAATAAATG+AGG | + | chr8.4:24906712-24906731 | None:intergenic | 10.0% |
| !!! | TATTTATCAAATTTTTGTGA+TGG | - | chr8.4:24906716-24906735 | MS.gene45616:CDS | 15.0% |
| ! | ATAGTTGTTATGATTACTTG+AGG | + | chr8.4:24906321-24906340 | None:intergenic | 25.0% |
| ! | GAGATTATGATTATGATTAC+AGG | + | chr8.4:24906650-24906669 | None:intergenic | 25.0% |
| ! | TTATGATTACTTGAGGAATA+AGG | + | chr8.4:24906314-24906333 | None:intergenic | 25.0% |
| GTTTGTGTAGAAAAATCAAG+AGG | + | chr8.4:24906398-24906417 | None:intergenic | 30.0% | |
| TGAATTAGAAATGGAAACGA+CGG | - | chr8.4:24906490-24906509 | MS.gene45616:CDS | 30.0% | |
| TGTTAGCAGTGAATTAGAAA+TGG | - | chr8.4:24906481-24906500 | MS.gene45616:CDS | 30.0% | |
| TTGTTTCATCTTTCTCTAGT+GGG | - | chr8.4:24906438-24906457 | MS.gene45616:CDS | 30.0% | |
| AAGCATAGCAGATTGATCTT+TGG | + | chr8.4:24906594-24906613 | None:intergenic | 35.0% | |
| AGGTGTTAGATTTAACTCTC+TGG | + | chr8.4:24906769-24906788 | None:intergenic | 35.0% | |
| AGGTTCTTCATAGTAACTCT+TGG | + | chr8.4:24906378-24906397 | None:intergenic | 35.0% | |
| GATAAACCCAACGTTAAAGA+TGG | + | chr8.4:24906353-24906372 | None:intergenic | 35.0% | |
| TTCTTCATAGTAACTCTTGG+TGG | + | chr8.4:24906375-24906394 | None:intergenic | 35.0% | |
| ! | CTAAGCCTAGAATAAGTTGA+AGG | + | chr8.4:24906238-24906257 | None:intergenic | 35.0% |
| ! | GTTGTTTCATCTTTCTCTAG+TGG | - | chr8.4:24906437-24906456 | MS.gene45616:CDS | 35.0% |
| ! | TTTGTAACGTTGTTGTTGGA+TGG | + | chr8.4:24906290-24906309 | None:intergenic | 35.0% |
| AGCTGAACCATCTTTAACGT+TGG | - | chr8.4:24906343-24906362 | MS.gene45616:intron | 40.0% | |
| ATCAGCGATGAAGATGAAGA+CGG | - | chr8.4:24906536-24906555 | MS.gene45616:CDS | 40.0% | |
| CAAGATGCTAGTAACAACTC+AGG | - | chr8.4:24906212-24906231 | MS.gene45616:CDS | 40.0% | |
| GCTGAACCATCTTTAACGTT+GGG | - | chr8.4:24906344-24906363 | MS.gene45616:intron | 40.0% | |
| TCAGGCCTTCAACTTATTCT+AGG | - | chr8.4:24906230-24906249 | MS.gene45616:CDS | 40.0% | |
| TTCATCTTTCTCTAGTGGGA+GGG | - | chr8.4:24906442-24906461 | MS.gene45616:CDS | 40.0% | |
| TTTCATCTTTCTCTAGTGGG+AGG | - | chr8.4:24906441-24906460 | MS.gene45616:CDS | 40.0% | |
| ! | AGGCTTTGTAACGTTGTTGT+TGG | + | chr8.4:24906294-24906313 | None:intergenic | 40.0% |
| AGAAATGGAAACGACGGAGA+TGG | - | chr8.4:24906496-24906515 | MS.gene45616:CDS | 45.0% | |
| GATGAAACAACGCTGTGATG+AGG | + | chr8.4:24906428-24906447 | None:intergenic | 45.0% | |
| TCTAACACCTCGACAAGTTG+AGG | - | chr8.4:24906779-24906798 | MS.gene45616:CDS | 45.0% | |
| ! | GTAACGTTGTTGTTGGATGG+TGG | + | chr8.4:24906287-24906306 | None:intergenic | 45.0% |
| AACCAGACCTCAACTTGTCG+AGG | + | chr8.4:24906789-24906808 | None:intergenic | 50.0% | |
| AAGCTTCTTCCTAGCTGCAG+TGG | + | chr8.4:24906564-24906583 | None:intergenic | 50.0% | |
| ! | GGATGGTGGTGTGTCTTGTT+TGG | + | chr8.4:24906273-24906292 | None:intergenic | 50.0% |
| ! | CACCTCGACAAGTTGAGGTC+TGG | - | chr8.4:24906784-24906803 | MS.gene45616:CDS | 55.0% |
| !! | AAGACGGTGCCACTGCAGCT+AGG | - | chr8.4:24906552-24906571 | MS.gene45616:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 24906197 | 24906826 | 24906197 | ID=MS.gene45616 |
| chr8.4 | mRNA | 24906197 | 24906826 | 24906197 | ID=MS.gene45616.t1;Parent=MS.gene45616 |
| chr8.4 | exon | 24906374 | 24906826 | 24906374 | ID=MS.gene45616.t1.exon1;Parent=MS.gene45616.t1 |
| chr8.4 | CDS | 24906374 | 24906826 | 24906374 | ID=cds.MS.gene45616.t1;Parent=MS.gene45616.t1 |
| chr8.4 | exon | 24906197 | 24906276 | 24906197 | ID=MS.gene45616.t1.exon2;Parent=MS.gene45616.t1 |
| chr8.4 | CDS | 24906197 | 24906276 | 24906197 | ID=cds.MS.gene45616.t1;Parent=MS.gene45616.t1 |
| Gene Sequence |
| Protein sequence |
