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.gene41507.t1 | XP_024634671.1 | 86.2 | 138 | 19 | 0 | 1 | 138 | 1 | 138 | 6.90E-57 | 229.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41507.t1 | Q9FJK3 | 43.8 | 130 | 72 | 1 | 3 | 132 | 26 | 154 | 1.9e-23 | 110.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41507.t1 | A0A072UY35 | 85.9 | 135 | 19 | 0 | 4 | 138 | 27 | 161 | 2.7e-55 | 224.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41507.t1 | TF | MADS-M-type |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049853 | MS.gene41507 | 0.818315 | 2.09E-52 | -1.69E-46 |
| MS.gene059276 | MS.gene41507 | 0.820824 | 5.59E-53 | -1.69E-46 |
| MS.gene060610 | MS.gene41507 | 0.80882 | 2.57E-50 | -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.gene41507.t1 | MTR_3g467080 | 85.926 | 135 | 19 | 0 | 4 | 138 | 27 | 161 | 3.85e-82 | 238 |
| MS.gene41507.t1 | MTR_4g063790 | 77.778 | 135 | 30 | 0 | 4 | 138 | 27 | 161 | 1.53e-74 | 219 |
| MS.gene41507.t1 | MTR_3g465410 | 76.692 | 133 | 31 | 0 | 6 | 138 | 1 | 133 | 3.82e-71 | 210 |
| MS.gene41507.t1 | MTR_3g466980 | 53.125 | 128 | 59 | 1 | 4 | 131 | 27 | 153 | 1.34e-43 | 142 |
| MS.gene41507.t1 | MTR_3g031100 | 45.522 | 134 | 73 | 0 | 4 | 137 | 27 | 160 | 2.30e-36 | 125 |
| MS.gene41507.t1 | MTR_3g065100 | 47.154 | 123 | 64 | 1 | 9 | 131 | 32 | 153 | 1.94e-35 | 122 |
| MS.gene41507.t1 | MTR_3g031240 | 48.092 | 131 | 68 | 0 | 4 | 134 | 27 | 157 | 6.67e-35 | 119 |
| MS.gene41507.t1 | MTR_2g016210 | 41.791 | 134 | 78 | 0 | 4 | 137 | 27 | 160 | 1.46e-32 | 115 |
| MS.gene41507.t1 | MTR_4g032290 | 42.308 | 130 | 75 | 0 | 9 | 138 | 32 | 161 | 5.87e-32 | 113 |
| MS.gene41507.t1 | MTR_4g032620 | 37.984 | 129 | 80 | 0 | 3 | 131 | 26 | 154 | 4.20e-31 | 111 |
| MS.gene41507.t1 | MTR_2g035580 | 46.875 | 128 | 67 | 1 | 4 | 131 | 27 | 153 | 2.75e-30 | 107 |
| MS.gene41507.t1 | MTR_4g032260 | 39.344 | 122 | 74 | 0 | 11 | 132 | 34 | 155 | 2.87e-30 | 107 |
| MS.gene41507.t1 | MTR_4g031910 | 41.935 | 124 | 72 | 0 | 9 | 132 | 32 | 155 | 5.18e-30 | 108 |
| MS.gene41507.t1 | MTR_8g036130 | 40.458 | 131 | 76 | 1 | 3 | 131 | 26 | 156 | 3.82e-28 | 103 |
| MS.gene41507.t1 | MTR_5g075380 | 36.154 | 130 | 82 | 1 | 2 | 131 | 25 | 153 | 5.82e-28 | 101 |
| MS.gene41507.t1 | MTR_2g035610 | 47.253 | 91 | 48 | 0 | 9 | 99 | 32 | 122 | 2.57e-26 | 95.9 |
| MS.gene41507.t1 | MTR_3g466830 | 39.370 | 127 | 76 | 1 | 4 | 130 | 26 | 151 | 2.25e-25 | 94.7 |
| MS.gene41507.t1 | MTR_3g466900 | 34.921 | 126 | 81 | 1 | 9 | 134 | 2 | 126 | 7.64e-22 | 84.7 |
| MS.gene41507.t1 | MTR_5g047580 | 36.434 | 129 | 80 | 2 | 3 | 131 | 26 | 152 | 3.42e-21 | 84.0 |
| MS.gene41507.t1 | MTR_3g466890 | 34.091 | 132 | 86 | 1 | 3 | 134 | 25 | 155 | 2.20e-20 | 82.0 |
| MS.gene41507.t1 | MTR_1g077390 | 35.659 | 129 | 81 | 2 | 3 | 131 | 26 | 152 | 1.28e-19 | 79.7 |
| MS.gene41507.t1 | MTR_3g466930 | 34.127 | 126 | 82 | 1 | 9 | 134 | 2 | 126 | 2.58e-19 | 78.2 |
| MS.gene41507.t1 | MTR_1g077320 | 34.677 | 124 | 77 | 3 | 9 | 131 | 32 | 152 | 6.64e-19 | 77.8 |
| MS.gene41507.t1 | MTR_1g090783 | 31.783 | 129 | 86 | 2 | 3 | 131 | 25 | 151 | 6.08e-18 | 75.5 |
| MS.gene41507.t1 | MTR_1g077300 | 30.769 | 130 | 86 | 2 | 9 | 138 | 32 | 157 | 2.55e-17 | 73.9 |
| MS.gene41507.t1 | MTR_4g028720 | 31.746 | 126 | 84 | 2 | 9 | 134 | 32 | 155 | 3.41e-17 | 73.6 |
| MS.gene41507.t1 | MTR_7g055800 | 42.857 | 84 | 33 | 1 | 8 | 91 | 18 | 86 | 5.84e-17 | 71.2 |
| MS.gene41507.t1 | MTR_7g011950 | 31.707 | 123 | 82 | 2 | 9 | 131 | 32 | 152 | 6.62e-17 | 72.8 |
| MS.gene41507.t1 | MTR_1g084950 | 32.258 | 124 | 80 | 3 | 9 | 131 | 32 | 152 | 2.30e-16 | 71.2 |
| MS.gene41507.t1 | MTR_1g090697 | 29.231 | 130 | 88 | 3 | 3 | 131 | 26 | 152 | 3.17e-15 | 68.6 |
| MS.gene41507.t1 | MTR_7g055940 | 42.105 | 76 | 29 | 1 | 8 | 83 | 18 | 78 | 1.70e-14 | 64.3 |
| MS.gene41507.t1 | MTR_4g028800 | 47.917 | 48 | 25 | 0 | 3 | 50 | 24 | 71 | 1.40e-13 | 62.0 |
| MS.gene41507.t1 | MTR_1g090710 | 27.481 | 131 | 90 | 3 | 3 | 131 | 26 | 153 | 3.67e-13 | 63.2 |
| MS.gene41507.t1 | MTR_4g084780 | 55.556 | 54 | 24 | 0 | 51 | 104 | 1 | 54 | 2.13e-12 | 60.8 |
| MS.gene41507.t1 | MTR_4g019670 | 34.409 | 93 | 61 | 0 | 3 | 95 | 29 | 121 | 2.47e-12 | 63.2 |
| MS.gene41507.t1 | MTR_7g106510 | 29.412 | 136 | 88 | 4 | 3 | 135 | 29 | 159 | 1.49e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41507.t1 | AT5G48670 | 44.000 | 125 | 67 | 2 | 9 | 132 | 32 | 154 | 7.58e-29 | 107 |
| MS.gene41507.t1 | AT5G27810 | 52.809 | 89 | 42 | 0 | 6 | 94 | 1 | 89 | 4.84e-28 | 100 |
| MS.gene41507.t1 | AT1G65300 | 38.971 | 136 | 81 | 2 | 3 | 138 | 25 | 158 | 4.50e-26 | 99.4 |
| MS.gene41507.t1 | AT1G65330 | 37.600 | 125 | 77 | 1 | 3 | 127 | 25 | 148 | 9.78e-22 | 88.2 |
| MS.gene41507.t1 | AT3G05860 | 38.931 | 131 | 67 | 3 | 3 | 127 | 26 | 149 | 1.09e-21 | 86.3 |
| MS.gene41507.t1 | AT3G05860 | 38.931 | 131 | 67 | 3 | 3 | 127 | 26 | 149 | 3.24e-21 | 86.3 |
| MS.gene41507.t1 | AT3G05860 | 38.931 | 131 | 67 | 3 | 3 | 127 | 26 | 149 | 4.74e-21 | 85.9 |
| MS.gene41507.t1 | AT5G26650 | 32.824 | 131 | 87 | 1 | 4 | 134 | 25 | 154 | 3.36e-18 | 79.3 |
| MS.gene41507.t1 | AT5G26630 | 32.231 | 121 | 81 | 1 | 11 | 131 | 34 | 153 | 6.26e-18 | 77.0 |
| MS.gene41507.t1 | AT1G31640 | 37.143 | 140 | 73 | 5 | 4 | 137 | 26 | 156 | 7.37e-18 | 79.0 |
| MS.gene41507.t1 | AT5G27960 | 41.667 | 84 | 49 | 0 | 4 | 87 | 25 | 108 | 2.77e-16 | 73.9 |
| MS.gene41507.t1 | AT2G28700 | 33.594 | 128 | 76 | 3 | 4 | 127 | 27 | 149 | 1.19e-14 | 69.3 |
| MS.gene41507.t1 | AT1G31630 | 32.867 | 143 | 76 | 6 | 4 | 138 | 26 | 156 | 2.82e-14 | 68.6 |
| MS.gene41507.t1 | AT1G22590 | 36.145 | 83 | 53 | 0 | 4 | 86 | 27 | 109 | 3.04e-13 | 63.5 |
| MS.gene41507.t1 | AT5G06500 | 34.524 | 84 | 51 | 1 | 4 | 87 | 27 | 106 | 1.38e-11 | 60.1 |
| MS.gene41507.t1 | AT5G26865 | 42.647 | 68 | 38 | 1 | 5 | 71 | 6 | 73 | 3.23e-11 | 57.4 |
Find 29 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGGTCATTTCCTCCTTTC+TGG | 0.057843 | 3.1:+51413234 | None:intergenic |
| ATTCATACCACAGAATTTAA+TGG | 0.196701 | 3.1:-51413196 | MS.gene41507:CDS |
| CAGGTTTGGCCATCAGATTC+AGG | 0.224706 | 3.1:-51413391 | MS.gene41507:CDS |
| TATTCTTGAGGCAAAGTATT+GGG | 0.351669 | 3.1:-51413294 | MS.gene41507:CDS |
| GTTCAAGAGTTTGCATGAAC+TGG | 0.380322 | 3.1:-51413347 | MS.gene41507:CDS |
| GATGAAATTAGCACTCTTTG+TGG | 0.382102 | 3.1:-51413460 | MS.gene41507:CDS |
| CTGAATCTGATGGCCAAACC+TGG | 0.394792 | 3.1:+51413392 | None:intergenic |
| TTTGTTTCATCAACTGCTCA+TGG | 0.410143 | 3.1:+51413266 | None:intergenic |
| AATGAAATGATGAATGATAT+TGG | 0.442815 | 3.1:+51413216 | None:intergenic |
| AGGTTTGGCCATCAGATTCA+GGG | 0.444978 | 3.1:-51413390 | MS.gene41507:CDS |
| ACAATCCTCAAGCCCAGGTT+TGG | 0.451431 | 3.1:-51413405 | MS.gene41507:CDS |
| GGGTTAGAAGTGTGATATCC+AGG | 0.506627 | 3.1:-51413369 | MS.gene41507:CDS |
| GTATTCTTGAGGCAAAGTAT+TGG | 0.524622 | 3.1:-51413295 | MS.gene41507:CDS |
| ACTCTTTGTGGAATAGAAGC+TGG | 0.543874 | 3.1:-51413448 | MS.gene41507:CDS |
| TAAATATCCATTAAATTCTG+TGG | 0.554522 | 3.1:+51413189 | None:intergenic |
| GATGGCCAAACCTGGGCTTG+AGG | 0.558655 | 3.1:+51413400 | None:intergenic |
| GCAAAACAATCCTCAAGCCC+AGG | 0.573782 | 3.1:-51413410 | MS.gene41507:CDS |
| ACAAAGGAAGGAAACCAGAA+AGG | 0.579534 | 3.1:-51413248 | MS.gene41507:CDS |
| TTCATGCAAACTCTTGAACC+TGG | 0.581655 | 3.1:+51413351 | None:intergenic |
| CAAATTCTCATCAATAAAAG+CGG | 0.585206 | 3.1:+51413138 | None:intergenic |
| TGAATCTGATGGCCAAACCT+GGG | 0.592740 | 3.1:+51413393 | None:intergenic |
| CTTCTAACCCCTGAATCTGA+TGG | 0.608216 | 3.1:+51413382 | None:intergenic |
| AAGGAAGGAAACCAGAAAGG+AGG | 0.615022 | 3.1:-51413245 | MS.gene41507:CDS |
| ATGAGCAGTTGATGAAACAA+AGG | 0.621497 | 3.1:-51413264 | MS.gene41507:CDS |
| GGTTTGGCCATCAGATTCAG+GGG | 0.621539 | 3.1:-51413389 | MS.gene41507:CDS |
| GCAGTTGATGAAACAAAGGA+AGG | 0.627441 | 3.1:-51413260 | MS.gene41507:CDS |
| TATTGATGAGAATTTGAGGG+AGG | 0.643852 | 3.1:-51413131 | MS.gene41507:CDS |
| ATCCTCACTATCATGGCTAG+AGG | 0.659018 | 3.1:-51413760 | None:intergenic |
| TGGATCAAGAGGTATTCTTG+AGG | 0.709854 | 3.1:-51413306 | MS.gene41507:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATGGATTTTTTTTATTA+GGG | - | chr3.1:51413343-51413362 | MS.gene41507:CDS | 10.0% |
| !! | TATAGGTTATATATTGTTTA+TGG | - | chr3.1:51413327-51413346 | MS.gene41507:CDS | 15.0% |
| !!! | GTTTATGGATTTTTTTTATT+AGG | - | chr3.1:51413342-51413361 | MS.gene41507:CDS | 15.0% |
| !!! | TAAATTTGGAATTTTACTAT+AGG | - | chr3.1:51413310-51413329 | MS.gene41507:CDS | 15.0% |
| !! | AATGAAATGATGAATGATAT+TGG | + | chr3.1:51413628-51413647 | None:intergenic | 20.0% |
| !! | TAAATATCCATTAAATTCTG+TGG | + | chr3.1:51413655-51413674 | None:intergenic | 20.0% |
| !!! | TTTTATTGATGAGAATTTGA+GGG | - | chr3.1:51413707-51413726 | MS.gene41507:intron | 20.0% |
| ! | ATTCATACCACAGAATTTAA+TGG | - | chr3.1:51413645-51413664 | MS.gene41507:intron | 25.0% |
| ! | CAAATTCTCATCAATAAAAG+CGG | + | chr3.1:51413706-51413725 | None:intergenic | 25.0% |
| !! | CTTTTATTGATGAGAATTTG+AGG | - | chr3.1:51413706-51413725 | MS.gene41507:intron | 25.0% |
| ACATTCAGAAAGAGGAAAAA+TGG | - | chr3.1:51413150-51413169 | MS.gene41507:CDS | 30.0% | |
| ACTGGAACAAAGTAAAAAGA+TGG | - | chr3.1:51413512-51413531 | MS.gene41507:intron | 30.0% | |
| TATGTATGATATGCAAAGAG+AGG | + | chr3.1:51413186-51413205 | None:intergenic | 30.0% | |
| ! | TATTCTTGAGGCAAAGTATT+GGG | - | chr3.1:51413547-51413566 | MS.gene41507:intron | 30.0% |
| GATGAAATTAGCACTCTTTG+TGG | - | chr3.1:51413381-51413400 | MS.gene41507:CDS | 35.0% | |
| GGAACAAAGTAAAAAGATGG+TGG | - | chr3.1:51413515-51413534 | MS.gene41507:intron | 35.0% | |
| GTATTCTTGAGGCAAAGTAT+TGG | - | chr3.1:51413546-51413565 | MS.gene41507:intron | 35.0% | |
| TATTGATGAGAATTTGAGGG+AGG | - | chr3.1:51413710-51413729 | MS.gene41507:intron | 35.0% | |
| TTTGTTTCATCAACTGCTCA+TGG | + | chr3.1:51413578-51413597 | None:intergenic | 35.0% | |
| !! | ATGAGCAGTTGATGAAACAA+AGG | - | chr3.1:51413577-51413596 | MS.gene41507:intron | 35.0% |
| !! | TAAAAAGATGGTGGATCAAG+AGG | - | chr3.1:51413524-51413543 | MS.gene41507:intron | 35.0% |
| ACAAAGGAAGGAAACCAGAA+AGG | - | chr3.1:51413593-51413612 | MS.gene41507:intron | 40.0% | |
| ACTCTTTGTGGAATAGAAGC+TGG | - | chr3.1:51413393-51413412 | MS.gene41507:CDS | 40.0% | |
| ATTGGTCATTTCCTCCTTTC+TGG | + | chr3.1:51413610-51413629 | None:intergenic | 40.0% | |
| CTGAATGTTATCCTCCTCTT+CGG | + | chr3.1:51413138-51413157 | None:intergenic | 40.0% | |
| GGAGGATAACATTCAGAAAG+AGG | - | chr3.1:51413142-51413161 | MS.gene41507:CDS | 40.0% | |
| GTTCAAGAGTTTGCATGAAC+TGG | - | chr3.1:51413494-51413513 | MS.gene41507:intron | 40.0% | |
| TGAATGTTATCCTCCTCTTC+GGG | + | chr3.1:51413137-51413156 | None:intergenic | 40.0% | |
| TTCATGCAAACTCTTGAACC+TGG | + | chr3.1:51413493-51413512 | None:intergenic | 40.0% | |
| !! | GCAGTTGATGAAACAAAGGA+AGG | - | chr3.1:51413581-51413600 | MS.gene41507:intron | 40.0% |
| !! | TGGATCAAGAGGTATTCTTG+AGG | - | chr3.1:51413535-51413554 | MS.gene41507:intron | 40.0% |
| AAGGAAGGAAACCAGAAAGG+AGG | - | chr3.1:51413596-51413615 | MS.gene41507:intron | 45.0% | |
| ACATAACATGTGACCCGAAG+AGG | - | chr3.1:51413121-51413140 | MS.gene41507:CDS | 45.0% | |
| AGGTTTGGCCATCAGATTCA+GGG | - | chr3.1:51413451-51413470 | MS.gene41507:CDS | 45.0% | |
| CTTCTAACCCCTGAATCTGA+TGG | + | chr3.1:51413462-51413481 | None:intergenic | 45.0% | |
| TGAATCTGATGGCCAAACCT+GGG | + | chr3.1:51413451-51413470 | None:intergenic | 45.0% | |
| ! | GGGTTAGAAGTGTGATATCC+AGG | - | chr3.1:51413472-51413491 | MS.gene41507:CDS | 45.0% |
| !!! | TAACTTTTATTTAATAAATT+TGG | - | chr3.1:51413296-51413315 | MS.gene41507:CDS | 5.0% |
| ACAATCCTCAAGCCCAGGTT+TGG | - | chr3.1:51413436-51413455 | MS.gene41507:CDS | 50.0% | |
| CAGGTTTGGCCATCAGATTC+AGG | - | chr3.1:51413450-51413469 | MS.gene41507:CDS | 50.0% | |
| CTGAATCTGATGGCCAAACC+TGG | + | chr3.1:51413452-51413471 | None:intergenic | 50.0% | |
| GCAAAACAATCCTCAAGCCC+AGG | - | chr3.1:51413431-51413450 | MS.gene41507:CDS | 50.0% | |
| GGTTTGGCCATCAGATTCAG+GGG | - | chr3.1:51413452-51413471 | MS.gene41507:CDS | 50.0% | |
| TAACATGTGACCCGAAGAGG+AGG | - | chr3.1:51413124-51413143 | MS.gene41507:CDS | 50.0% | |
| GATGGCCAAACCTGGGCTTG+AGG | + | chr3.1:51413444-51413463 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 51413093 | 51413770 | 51413093 | ID=MS.gene41507 |
| chr3.1 | mRNA | 51413093 | 51413770 | 51413093 | ID=MS.gene41507.t1;Parent=MS.gene41507 |
| chr3.1 | exon | 51413761 | 51413770 | 51413761 | ID=MS.gene41507.t1.exon1;Parent=MS.gene41507.t1 |
| chr3.1 | CDS | 51413761 | 51413770 | 51413761 | ID=cds.MS.gene41507.t1;Parent=MS.gene41507.t1 |
| chr3.1 | exon | 51413093 | 51413499 | 51413093 | ID=MS.gene41507.t1.exon2;Parent=MS.gene41507.t1 |
| chr3.1 | CDS | 51413093 | 51413499 | 51413093 | ID=cds.MS.gene41507.t1;Parent=MS.gene41507.t1 |
| Gene Sequence |
| Protein sequence |
