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.gene38444.t1 | KEH34477.1 | 90.2 | 133 | 13 | 0 | 1 | 133 | 29 | 161 | 5.50E-59 | 236.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38444.t1 | Q9FJK3 | 44.9 | 127 | 69 | 1 | 1 | 127 | 29 | 154 | 5.4e-23 | 108.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38444.t1 | A0A072UY35 | 90.2 | 133 | 13 | 0 | 1 | 133 | 29 | 161 | 3.9e-59 | 236.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene38444.t1 | TF | MADS-M-type |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049262 | MS.gene38444 | 0.810137 | 1.34E-50 | -1.69E-46 |
| MS.gene049541 | MS.gene38444 | 0.820185 | 7.84E-53 | -1.69E-46 |
| MS.gene049853 | MS.gene38444 | 0.832328 | 1.01E-55 | -1.69E-46 |
| MS.gene054484 | MS.gene38444 | 0.810906 | 9.13E-51 | -1.69E-46 |
| MS.gene055017 | MS.gene38444 | 0.816475 | 5.43E-52 | -1.69E-46 |
| MS.gene055952 | MS.gene38444 | 0.801686 | 8.01E-49 | -1.69E-46 |
| MS.gene058580 | MS.gene38444 | 0.821473 | 3.96E-53 | -1.69E-46 |
| MS.gene059276 | MS.gene38444 | 0.8271 | 1.88E-54 | -1.69E-46 |
| MS.gene060610 | MS.gene38444 | 0.834721 | 2.54E-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.gene38444.t1 | MTR_3g467080 | 90.226 | 133 | 13 | 0 | 1 | 133 | 29 | 161 | 7.62e-86 | 248 |
| MS.gene38444.t1 | MTR_4g063790 | 79.699 | 133 | 27 | 0 | 1 | 133 | 29 | 161 | 4.31e-73 | 216 |
| MS.gene38444.t1 | MTR_3g465410 | 78.947 | 133 | 28 | 0 | 1 | 133 | 1 | 133 | 1.91e-72 | 213 |
| MS.gene38444.t1 | MTR_3g466980 | 51.969 | 127 | 58 | 2 | 1 | 126 | 29 | 153 | 1.35e-39 | 132 |
| MS.gene38444.t1 | MTR_3g065100 | 45.968 | 124 | 66 | 1 | 4 | 127 | 32 | 154 | 4.09e-33 | 116 |
| MS.gene38444.t1 | MTR_3g031100 | 43.182 | 132 | 75 | 0 | 1 | 132 | 29 | 160 | 9.89e-32 | 113 |
| MS.gene38444.t1 | MTR_3g031240 | 44.275 | 131 | 69 | 2 | 1 | 129 | 29 | 157 | 3.13e-30 | 107 |
| MS.gene38444.t1 | MTR_2g016210 | 41.667 | 132 | 77 | 0 | 1 | 132 | 29 | 160 | 1.35e-29 | 107 |
| MS.gene38444.t1 | MTR_2g035580 | 45.238 | 126 | 68 | 1 | 2 | 127 | 30 | 154 | 2.70e-28 | 102 |
| MS.gene38444.t1 | MTR_2g035610 | 49.451 | 91 | 46 | 0 | 4 | 94 | 32 | 122 | 1.85e-27 | 98.6 |
| MS.gene38444.t1 | MTR_4g032290 | 41.406 | 128 | 75 | 0 | 6 | 133 | 34 | 161 | 7.03e-27 | 100 |
| MS.gene38444.t1 | MTR_5g075380 | 37.302 | 126 | 78 | 1 | 1 | 126 | 29 | 153 | 7.74e-27 | 98.2 |
| MS.gene38444.t1 | MTR_4g032260 | 37.398 | 123 | 77 | 0 | 6 | 128 | 34 | 156 | 9.87e-26 | 95.5 |
| MS.gene38444.t1 | MTR_4g032620 | 36.508 | 126 | 80 | 0 | 1 | 126 | 29 | 154 | 1.07e-25 | 97.1 |
| MS.gene38444.t1 | MTR_4g031910 | 40.000 | 125 | 75 | 0 | 4 | 128 | 32 | 156 | 4.85e-25 | 95.5 |
| MS.gene38444.t1 | MTR_3g466830 | 40.000 | 125 | 74 | 1 | 1 | 125 | 28 | 151 | 7.24e-24 | 90.5 |
| MS.gene38444.t1 | MTR_8g036130 | 39.231 | 130 | 77 | 1 | 1 | 128 | 29 | 158 | 1.07e-23 | 92.4 |
| MS.gene38444.t1 | MTR_3g466900 | 34.921 | 126 | 81 | 1 | 4 | 129 | 2 | 126 | 2.02e-20 | 80.9 |
| MS.gene38444.t1 | MTR_3g466890 | 36.000 | 125 | 79 | 1 | 2 | 126 | 29 | 152 | 1.49e-18 | 77.0 |
| MS.gene38444.t1 | MTR_3g466930 | 35.772 | 123 | 78 | 1 | 4 | 126 | 2 | 123 | 1.62e-18 | 76.3 |
| MS.gene38444.t1 | MTR_1g077320 | 33.858 | 127 | 80 | 3 | 4 | 129 | 32 | 155 | 5.99e-18 | 75.5 |
| MS.gene38444.t1 | MTR_1g090783 | 31.008 | 129 | 87 | 2 | 1 | 129 | 28 | 154 | 2.25e-17 | 73.9 |
| MS.gene38444.t1 | MTR_5g047580 | 34.109 | 129 | 83 | 2 | 1 | 129 | 29 | 155 | 2.35e-17 | 73.6 |
| MS.gene38444.t1 | MTR_7g055800 | 42.857 | 84 | 33 | 1 | 3 | 86 | 18 | 86 | 9.39e-17 | 70.5 |
| MS.gene38444.t1 | MTR_1g077300 | 30.769 | 130 | 86 | 2 | 4 | 133 | 32 | 157 | 6.75e-16 | 70.1 |
| MS.gene38444.t1 | MTR_4g028720 | 31.746 | 126 | 84 | 2 | 4 | 129 | 32 | 155 | 6.89e-16 | 70.1 |
| MS.gene38444.t1 | MTR_7g011950 | 30.952 | 126 | 85 | 2 | 4 | 129 | 32 | 155 | 7.74e-16 | 69.7 |
| MS.gene38444.t1 | MTR_1g084950 | 29.921 | 127 | 85 | 3 | 4 | 129 | 32 | 155 | 3.17e-15 | 68.2 |
| MS.gene38444.t1 | MTR_1g077390 | 34.848 | 132 | 78 | 4 | 1 | 129 | 29 | 155 | 3.34e-15 | 68.2 |
| MS.gene38444.t1 | MTR_7g055940 | 42.105 | 76 | 29 | 1 | 3 | 78 | 18 | 78 | 2.61e-14 | 63.9 |
| MS.gene38444.t1 | MTR_1g090697 | 29.921 | 127 | 85 | 3 | 1 | 126 | 29 | 152 | 7.05e-13 | 62.0 |
| MS.gene38444.t1 | MTR_4g084780 | 55.556 | 54 | 24 | 0 | 46 | 99 | 1 | 54 | 7.27e-13 | 62.0 |
| MS.gene38444.t1 | MTR_1g090710 | 28.244 | 131 | 89 | 3 | 1 | 129 | 29 | 156 | 1.17e-11 | 58.9 |
| MS.gene38444.t1 | MTR_4g028800 | 48.889 | 45 | 23 | 0 | 1 | 45 | 27 | 71 | 2.49e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38444.t1 | AT5G27810 | 53.933 | 89 | 41 | 0 | 1 | 89 | 1 | 89 | 3.32e-29 | 103 |
| MS.gene38444.t1 | AT5G48670 | 44.800 | 125 | 66 | 2 | 4 | 127 | 32 | 154 | 1.72e-28 | 106 |
| MS.gene38444.t1 | AT1G65300 | 38.636 | 132 | 79 | 2 | 2 | 133 | 29 | 158 | 1.64e-21 | 87.0 |
| MS.gene38444.t1 | AT1G65330 | 37.705 | 122 | 75 | 1 | 1 | 122 | 28 | 148 | 2.35e-19 | 81.6 |
| MS.gene38444.t1 | AT3G05860 | 53.521 | 71 | 33 | 0 | 1 | 71 | 29 | 99 | 8.24e-19 | 78.6 |
| MS.gene38444.t1 | AT3G05860 | 53.521 | 71 | 33 | 0 | 1 | 71 | 29 | 99 | 1.56e-18 | 79.0 |
| MS.gene38444.t1 | AT3G05860 | 53.521 | 71 | 33 | 0 | 1 | 71 | 29 | 99 | 2.09e-18 | 78.6 |
| MS.gene38444.t1 | AT5G26650 | 43.902 | 82 | 46 | 0 | 1 | 82 | 27 | 108 | 3.73e-17 | 76.3 |
| MS.gene38444.t1 | AT5G27960 | 41.463 | 82 | 48 | 0 | 1 | 82 | 27 | 108 | 1.81e-15 | 71.2 |
| MS.gene38444.t1 | AT1G31640 | 36.364 | 132 | 70 | 4 | 2 | 127 | 29 | 152 | 2.26e-15 | 71.6 |
| MS.gene38444.t1 | AT5G26630 | 30.579 | 121 | 83 | 1 | 6 | 126 | 34 | 153 | 6.41e-15 | 68.6 |
| MS.gene38444.t1 | AT1G22590 | 35.294 | 85 | 55 | 0 | 1 | 85 | 29 | 113 | 1.22e-12 | 61.6 |
| MS.gene38444.t1 | AT1G31630 | 40.698 | 86 | 44 | 3 | 3 | 85 | 30 | 111 | 1.59e-12 | 63.2 |
| MS.gene38444.t1 | AT2G28700 | 36.364 | 88 | 53 | 1 | 1 | 85 | 29 | 116 | 8.31e-12 | 61.2 |
Find 26 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGGTCATTTCCTGCTTTC+TGG | 0.066665 | 3.4:-63304817 | None:intergenic |
| ATTCATACCACAGAATTTAA+TGG | 0.196701 | 3.4:+63304855 | MS.gene38444:CDS |
| CAAGTTTGGCCATCAGATTC+AGG | 0.229946 | 3.4:+63304660 | MS.gene38444:CDS |
| GTTCAGAAGTTTGCCTGGAC+TGG | 0.390262 | 3.4:+63304704 | MS.gene38444:CDS |
| ACAATCCTCAAGTACAAGTT+TGG | 0.397151 | 3.4:+63304646 | MS.gene38444:CDS |
| GATGAAATTAGCACTCTTTG+CGG | 0.413383 | 3.4:+63304591 | MS.gene38444:CDS |
| GAGGACAAATCATTAAGAAC+AGG | 0.438643 | 3.4:-63304894 | None:intergenic |
| AATGAAATGATGAATGATAT+TGG | 0.442815 | 3.4:-63304835 | None:intergenic |
| TATTCTTGAGGCAAAGCATT+GGG | 0.452810 | 3.4:+63304757 | MS.gene38444:CDS |
| TCCAGGTTCAGAAGTTTGCC+TGG | 0.467504 | 3.4:+63304699 | MS.gene38444:CDS |
| AAGTTTGGCCATCAGATTCA+GGG | 0.498747 | 3.4:+63304661 | MS.gene38444:CDS |
| GGGTTAGAAGTGTGATATCC+AGG | 0.506627 | 3.4:+63304682 | MS.gene38444:CDS |
| AAGGAAGGAAACCAGAAAGC+AGG | 0.520416 | 3.4:+63304806 | MS.gene38444:CDS |
| CAAATTCTCAGCAATAAAAG+AGG | 0.520681 | 3.4:-63304913 | None:intergenic |
| TCCAGGCAAACTTCTGAACC+TGG | 0.543284 | 3.4:-63304700 | None:intergenic |
| TAAATATCCATTAAATTCTG+TGG | 0.554522 | 3.4:-63304862 | None:intergenic |
| GTATTCTTGAGGCAAAGCAT+TGG | 0.555152 | 3.4:+63304756 | MS.gene38444:CDS |
| GATGGCCAAACTTGTACTTG+AGG | 0.565092 | 3.4:-63304651 | None:intergenic |
| ACTCTTTGCGGAATAGAAGC+TGG | 0.567915 | 3.4:+63304603 | MS.gene38444:CDS |
| GAGGTCGATCAAAAGATGAA+AGG | 0.605953 | 3.4:+63304939 | MS.gene38444:CDS |
| CTTCTAACCCCTGAATCTGA+TGG | 0.608216 | 3.4:-63304669 | None:intergenic |
| ATGAGCAGTTGATGAAACAA+AGG | 0.608842 | 3.4:+63304787 | MS.gene38444:CDS |
| GCAGTTGATGAAACAAAGGA+AGG | 0.627441 | 3.4:+63304791 | MS.gene38444:CDS |
| AGTTTGGCCATCAGATTCAG+GGG | 0.628974 | 3.4:+63304662 | MS.gene38444:CDS |
| TATTGCTGAGAATTTGAGGG+AGG | 0.639350 | 3.4:+63304920 | MS.gene38444:CDS |
| TGGATCAAGAGGTATTCTTG+AGG | 0.709854 | 3.4:+63304745 | MS.gene38444:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGAAATGATGAATGATAT+TGG | - | chr3.4:63304838-63304857 | None:intergenic | 20.0% |
| !! | TAAATATCCATTAAATTCTG+TGG | - | chr3.4:63304865-63304884 | None:intergenic | 20.0% |
| ! | ATTCATACCACAGAATTTAA+TGG | + | chr3.4:63304855-63304874 | MS.gene38444:CDS | 25.0% |
| !! | TTTTATTGCTGAGAATTTGA+GGG | + | chr3.4:63304917-63304936 | MS.gene38444:CDS | 25.0% |
| ACTGGAACAAAGTAAAAAGA+TGG | + | chr3.4:63304722-63304741 | MS.gene38444:CDS | 30.0% | |
| CAAATTCTCAGCAATAAAAG+AGG | - | chr3.4:63304916-63304935 | None:intergenic | 30.0% | |
| ! | CTTTTATTGCTGAGAATTTG+AGG | + | chr3.4:63304916-63304935 | MS.gene38444:CDS | 30.0% |
| ACAATCCTCAAGTACAAGTT+TGG | + | chr3.4:63304646-63304665 | MS.gene38444:CDS | 35.0% | |
| GAGGACAAATCATTAAGAAC+AGG | - | chr3.4:63304897-63304916 | None:intergenic | 35.0% | |
| GATGAAATTAGCACTCTTTG+CGG | + | chr3.4:63304591-63304610 | MS.gene38444:CDS | 35.0% | |
| GGAACAAAGTAAAAAGATGG+TGG | + | chr3.4:63304725-63304744 | MS.gene38444:CDS | 35.0% | |
| ! | TATTCTTGAGGCAAAGCATT+GGG | + | chr3.4:63304757-63304776 | MS.gene38444:CDS | 35.0% |
| ! | TTTTTACTTTGTTCCAGTCC+AGG | - | chr3.4:63304720-63304739 | None:intergenic | 35.0% |
| !! | ATGAGCAGTTGATGAAACAA+AGG | + | chr3.4:63304787-63304806 | MS.gene38444:CDS | 35.0% |
| !! | TAAAAAGATGGTGGATCAAG+AGG | + | chr3.4:63304734-63304753 | MS.gene38444:CDS | 35.0% |
| AAGTTTGGCCATCAGATTCA+GGG | + | chr3.4:63304661-63304680 | MS.gene38444:CDS | 40.0% | |
| ATTGGTCATTTCCTGCTTTC+TGG | - | chr3.4:63304820-63304839 | None:intergenic | 40.0% | |
| GAGGTCGATCAAAAGATGAA+AGG | + | chr3.4:63304939-63304958 | MS.gene38444:CDS | 40.0% | |
| GTATTCTTGAGGCAAAGCAT+TGG | + | chr3.4:63304756-63304775 | MS.gene38444:CDS | 40.0% | |
| TATTGCTGAGAATTTGAGGG+AGG | + | chr3.4:63304920-63304939 | MS.gene38444:CDS | 40.0% | |
| !! | GCAGTTGATGAAACAAAGGA+AGG | + | chr3.4:63304791-63304810 | MS.gene38444:CDS | 40.0% |
| !! | TGGATCAAGAGGTATTCTTG+AGG | + | chr3.4:63304745-63304764 | MS.gene38444:CDS | 40.0% |
| AAGGAAGGAAACCAGAAAGC+AGG | + | chr3.4:63304806-63304825 | MS.gene38444:CDS | 45.0% | |
| ACTCTTTGCGGAATAGAAGC+TGG | + | chr3.4:63304603-63304622 | MS.gene38444:CDS | 45.0% | |
| AGTTTGGCCATCAGATTCAG+GGG | + | chr3.4:63304662-63304681 | MS.gene38444:CDS | 45.0% | |
| CAAGTTTGGCCATCAGATTC+AGG | + | chr3.4:63304660-63304679 | MS.gene38444:CDS | 45.0% | |
| CTTCTAACCCCTGAATCTGA+TGG | - | chr3.4:63304672-63304691 | None:intergenic | 45.0% | |
| GATGGCCAAACTTGTACTTG+AGG | - | chr3.4:63304654-63304673 | None:intergenic | 45.0% | |
| ! | GGGTTAGAAGTGTGATATCC+AGG | + | chr3.4:63304682-63304701 | MS.gene38444:CDS | 45.0% |
| GTTCAGAAGTTTGCCTGGAC+TGG | + | chr3.4:63304704-63304723 | MS.gene38444:CDS | 50.0% | |
| TCCAGGCAAACTTCTGAACC+TGG | - | chr3.4:63304703-63304722 | None:intergenic | 50.0% | |
| TCCAGGTTCAGAAGTTTGCC+TGG | + | chr3.4:63304699-63304718 | MS.gene38444:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 63304579 | 63304980 | 63304579 | ID=MS.gene38444 |
| chr3.4 | mRNA | 63304579 | 63304980 | 63304579 | ID=MS.gene38444.t1;Parent=MS.gene38444 |
| chr3.4 | exon | 63304579 | 63304980 | 63304579 | ID=MS.gene38444.t1.exon1;Parent=MS.gene38444.t1 |
| chr3.4 | CDS | 63304579 | 63304980 | 63304579 | ID=cds.MS.gene38444.t1;Parent=MS.gene38444.t1 |
| Gene Sequence |
| Protein sequence |
