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.gene32820.t1 | XP_003603145.1 | 93.6 | 140 | 9 | 0 | 1 | 140 | 91 | 230 | 8.90E-71 | 276.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32820.t1 | Q9LVS0 | 70.3 | 64 | 16 | 1 | 2 | 65 | 97 | 157 | 2.3e-19 | 96.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32820.t1 | G7J7M5 | 93.6 | 140 | 9 | 0 | 1 | 140 | 91 | 230 | 6.4e-71 | 276.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene32820.t1 | TF | MYB-related |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene32820.t1 | MTR_3g104370 | 93.571 | 140 | 9 | 0 | 1 | 140 | 91 | 230 | 4.07e-94 | 271 |
| MS.gene32820.t1 | MTR_4g100630 | 54.545 | 88 | 36 | 2 | 2 | 88 | 96 | 180 | 2.38e-26 | 101 |
| MS.gene32820.t1 | MTR_6g092540 | 58.333 | 84 | 31 | 2 | 1 | 83 | 97 | 177 | 2.00e-25 | 98.2 |
| MS.gene32820.t1 | MTR_8g101650 | 38.312 | 154 | 73 | 5 | 1 | 136 | 105 | 254 | 1.49e-24 | 95.5 |
| MS.gene32820.t1 | MTR_2g100930 | 66.154 | 65 | 19 | 1 | 1 | 65 | 109 | 170 | 1.16e-23 | 94.4 |
| MS.gene32820.t1 | MTR_5g069710 | 49.485 | 97 | 42 | 2 | 1 | 97 | 132 | 221 | 2.36e-23 | 92.8 |
| MS.gene32820.t1 | MTR_7g067080 | 67.797 | 59 | 19 | 0 | 1 | 59 | 140 | 198 | 1.42e-21 | 88.2 |
| MS.gene32820.t1 | MTR_3g462790 | 56.410 | 78 | 27 | 2 | 1 | 78 | 147 | 217 | 1.46e-21 | 88.6 |
| MS.gene32820.t1 | MTR_4g111975 | 57.353 | 68 | 26 | 1 | 1 | 68 | 138 | 202 | 2.68e-21 | 87.4 |
| MS.gene32820.t1 | MTR_1g111830 | 69.492 | 59 | 16 | 1 | 2 | 60 | 125 | 181 | 3.04e-21 | 86.3 |
| MS.gene32820.t1 | MTR_4g107230 | 74.468 | 47 | 12 | 0 | 1 | 47 | 84 | 130 | 4.57e-21 | 86.7 |
| MS.gene32820.t1 | MTR_5g037080 | 75.000 | 48 | 12 | 0 | 1 | 48 | 102 | 149 | 5.11e-21 | 87.0 |
| MS.gene32820.t1 | MTR_5g081860 | 39.130 | 138 | 63 | 4 | 1 | 129 | 125 | 250 | 1.01e-20 | 85.5 |
| MS.gene32820.t1 | MTR_5g088010 | 53.125 | 64 | 30 | 0 | 3 | 66 | 62 | 125 | 5.43e-20 | 83.2 |
| MS.gene32820.t1 | MTR_2g090305 | 59.322 | 59 | 24 | 0 | 1 | 59 | 28 | 86 | 1.40e-19 | 80.9 |
| MS.gene32820.t1 | MTR_1g048660 | 71.739 | 46 | 13 | 0 | 2 | 47 | 13 | 58 | 1.41e-19 | 78.2 |
| MS.gene32820.t1 | MTR_5g027570 | 56.250 | 64 | 27 | 1 | 3 | 66 | 94 | 156 | 2.45e-19 | 80.9 |
| MS.gene32820.t1 | MTR_5g088060 | 54.688 | 64 | 29 | 0 | 3 | 66 | 274 | 337 | 3.49e-19 | 82.8 |
| MS.gene32820.t1 | MTR_5g488160 | 54.688 | 64 | 29 | 0 | 3 | 66 | 274 | 337 | 3.49e-19 | 82.8 |
| MS.gene32820.t1 | MTR_0036s0260 | 59.322 | 59 | 24 | 0 | 1 | 59 | 28 | 86 | 4.31e-19 | 79.7 |
| MS.gene32820.t1 | MTR_8g063600 | 54.412 | 68 | 30 | 1 | 1 | 68 | 106 | 172 | 1.39e-16 | 74.7 |
| MS.gene32820.t1 | MTR_5g027550 | 65.217 | 46 | 16 | 0 | 3 | 48 | 79 | 124 | 1.49e-16 | 73.6 |
| MS.gene32820.t1 | MTR_4g015130 | 62.745 | 51 | 19 | 0 | 9 | 59 | 1 | 51 | 1.69e-16 | 70.1 |
| MS.gene32820.t1 | MTR_8g063870 | 50.000 | 68 | 32 | 1 | 3 | 68 | 94 | 161 | 2.10e-15 | 71.2 |
| MS.gene32820.t1 | MTR_1g083180 | 49.231 | 65 | 32 | 1 | 3 | 67 | 63 | 126 | 2.65e-14 | 67.0 |
| MS.gene32820.t1 | MTR_3g070110 | 48.571 | 70 | 32 | 1 | 3 | 68 | 97 | 166 | 4.33e-13 | 64.3 |
| MS.gene32820.t1 | MTR_5g075790 | 64.583 | 48 | 16 | 1 | 3 | 50 | 115 | 161 | 7.02e-13 | 63.5 |
| MS.gene32820.t1 | MTR_5g075760 | 64.583 | 48 | 16 | 1 | 3 | 50 | 107 | 153 | 8.21e-13 | 63.5 |
| MS.gene32820.t1 | MTR_7g110040 | 78.378 | 37 | 7 | 1 | 14 | 50 | 11 | 46 | 8.42e-13 | 59.7 |
| MS.gene32820.t1 | MTR_1g033620 | 52.830 | 53 | 22 | 1 | 16 | 68 | 20 | 69 | 1.95e-12 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32820.t1 | AT5G56840 | 46.617 | 133 | 67 | 2 | 1 | 133 | 91 | 219 | 3.39e-26 | 99.0 |
| MS.gene32820.t1 | AT5G47390 | 55.952 | 84 | 25 | 2 | 2 | 85 | 97 | 168 | 4.81e-25 | 98.6 |
| MS.gene32820.t1 | AT5G58900 | 52.941 | 85 | 39 | 1 | 1 | 85 | 141 | 224 | 1.82e-22 | 90.5 |
| MS.gene32820.t1 | AT2G38090 | 66.102 | 59 | 20 | 0 | 1 | 59 | 141 | 199 | 4.70e-22 | 89.4 |
| MS.gene32820.t1 | AT5G61620 | 60.000 | 70 | 25 | 1 | 2 | 71 | 109 | 175 | 1.05e-21 | 89.0 |
| MS.gene32820.t1 | AT5G01200 | 64.407 | 59 | 21 | 0 | 1 | 59 | 146 | 204 | 1.07e-21 | 87.8 |
| MS.gene32820.t1 | AT1G70000 | 78.723 | 47 | 10 | 0 | 2 | 48 | 99 | 145 | 1.57e-21 | 87.4 |
| MS.gene32820.t1 | AT1G70000 | 78.723 | 47 | 10 | 0 | 2 | 48 | 99 | 145 | 1.57e-21 | 87.4 |
| MS.gene32820.t1 | AT1G49010 | 60.294 | 68 | 24 | 2 | 1 | 68 | 134 | 198 | 2.49e-21 | 87.8 |
| MS.gene32820.t1 | AT3G16350 | 75.000 | 48 | 12 | 0 | 1 | 48 | 137 | 184 | 3.67e-21 | 88.2 |
| MS.gene32820.t1 | AT5G08520 | 57.353 | 68 | 26 | 2 | 1 | 68 | 118 | 182 | 3.23e-20 | 84.7 |
| MS.gene32820.t1 | AT5G04760 | 66.102 | 59 | 18 | 1 | 2 | 60 | 100 | 156 | 3.35e-20 | 82.8 |
| MS.gene32820.t1 | AT3G11280 | 64.407 | 59 | 21 | 0 | 1 | 59 | 127 | 185 | 9.78e-20 | 82.8 |
| MS.gene32820.t1 | AT3G11280 | 64.407 | 59 | 21 | 0 | 1 | 59 | 127 | 185 | 9.78e-20 | 82.8 |
| MS.gene32820.t1 | AT5G05790 | 64.407 | 59 | 21 | 0 | 1 | 59 | 131 | 189 | 1.77e-19 | 82.4 |
| MS.gene32820.t1 | AT5G05790 | 64.407 | 59 | 21 | 0 | 1 | 59 | 131 | 189 | 1.77e-19 | 82.4 |
| MS.gene32820.t1 | AT1G74840 | 70.213 | 47 | 14 | 0 | 1 | 47 | 96 | 142 | 2.81e-19 | 80.9 |
| MS.gene32820.t1 | AT1G74840 | 70.213 | 47 | 14 | 0 | 1 | 47 | 96 | 142 | 3.90e-19 | 81.3 |
| MS.gene32820.t1 | AT1G19000 | 70.213 | 47 | 14 | 0 | 1 | 47 | 102 | 148 | 6.82e-19 | 80.9 |
| MS.gene32820.t1 | AT1G19000 | 70.213 | 47 | 14 | 0 | 1 | 47 | 102 | 148 | 6.82e-19 | 80.9 |
| MS.gene32820.t1 | AT3G10580 | 53.030 | 66 | 26 | 1 | 1 | 66 | 95 | 155 | 2.01e-18 | 79.0 |
| MS.gene32820.t1 | AT3G10580 | 53.030 | 66 | 26 | 1 | 1 | 66 | 95 | 155 | 2.81e-18 | 79.3 |
| MS.gene32820.t1 | AT4G09450 | 50.633 | 79 | 36 | 2 | 1 | 77 | 91 | 168 | 7.64e-18 | 76.6 |
| MS.gene32820.t1 | AT3G10590 | 41.758 | 91 | 52 | 1 | 2 | 91 | 112 | 202 | 3.56e-13 | 64.3 |
| MS.gene32820.t1 | AT5G23650 | 63.830 | 47 | 17 | 0 | 1 | 47 | 120 | 166 | 3.72e-13 | 65.5 |
Find 35 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGGAGTCAAATTTATTTC+TGG | 0.179125 | 3.1:-82294607 | None:intergenic |
| AGAAGCTTGGGAAGGGTAAC+TGG | 0.328316 | 3.1:+82294333 | MS.gene32820:CDS |
| CATGCCTCTGTTAGCTCTAA+TGG | 0.334233 | 3.1:-82294796 | None:intergenic |
| CTTATGCAGCTGATATCATT+TGG | 0.348494 | 3.1:-82294625 | None:intergenic |
| TTTGTGCATGACTAGCTACC+TGG | 0.362976 | 3.1:-82294397 | None:intergenic |
| AATTTCTACTTCCACTTAGT+TGG | 0.375503 | 3.1:-82294648 | None:intergenic |
| CTCAACATTCAATAATGAAA+TGG | 0.410094 | 3.1:+82294695 | MS.gene32820:CDS |
| CTTAGAGGACTTGAGAAGCT+TGG | 0.418302 | 3.1:+82294320 | MS.gene32820:CDS |
| TCCGTTGATGTTGAAGAGTT+AGG | 0.422454 | 3.1:-82294718 | None:intergenic |
| TTAGAGGACTTGAGAAGCTT+GGG | 0.428690 | 3.1:+82294321 | MS.gene32820:CDS |
| GCAAGTTTGAGTTCTAAATC+AGG | 0.432705 | 3.1:-82294763 | None:intergenic |
| GAGCACATGATATTTCTTAG+AGG | 0.438938 | 3.1:+82294305 | MS.gene32820:CDS |
| CTCTGTTAGCTCTAATGGCA+TGG | 0.487511 | 3.1:-82294791 | None:intergenic |
| TTACATAATGGAGGCTAAGA+TGG | 0.500282 | 3.1:-82294469 | None:intergenic |
| GTTGAGGATGAGAAAGCCAC+TGG | 0.522676 | 3.1:-82294678 | None:intergenic |
| AAATCAGGTGCTGCACTATG+AGG | 0.523156 | 3.1:-82294748 | None:intergenic |
| TCTGTTAGCTCTAATGGCAT+GGG | 0.534114 | 3.1:-82294790 | None:intergenic |
| TGATCAAGCTATTCTGAGAC+TGG | 0.538315 | 3.1:-82294433 | None:intergenic |
| ACACTACTGGTTAGCTTAAG+GGG | 0.538405 | 3.1:-82294821 | None:intergenic |
| TTGTGCATGACTAGCTACCT+GGG | 0.547274 | 3.1:-82294396 | None:intergenic |
| CATTTCATTATTGAATGTTG+AGG | 0.554274 | 3.1:-82294694 | None:intergenic |
| TTAATTTACTTACATAATGG+AGG | 0.564586 | 3.1:-82294478 | None:intergenic |
| GGACTTGAGAAGCTTGGGAA+GGG | 0.571874 | 3.1:+82294326 | MS.gene32820:CDS |
| ATGTGCTCCTCCTCAGTCCA+CGG | 0.574773 | 3.1:-82294290 | None:intergenic |
| GCCTAACTCTTCAACATCAA+CGG | 0.576928 | 3.1:+82294717 | MS.gene32820:CDS |
| AGCTGCATAAGCCAACTAAG+TGG | 0.584599 | 3.1:+82294637 | MS.gene32820:CDS |
| AGGACTTGAGAAGCTTGGGA+AGG | 0.598172 | 3.1:+82294325 | MS.gene32820:CDS |
| TTGAGGATGAGAAAGCCACT+GGG | 0.600136 | 3.1:-82294677 | None:intergenic |
| ATCAGGTATGCCGTGGACTG+AGG | 0.606067 | 3.1:+82294280 | None:intergenic |
| GCATGACTAGCTACCTGGGT+TGG | 0.613754 | 3.1:-82294392 | None:intergenic |
| AGGTATGCCGTGGACTGAGG+AGG | 0.644436 | 3.1:+82294283 | None:intergenic |
| CTTGGGAAGGGTAACTGGAG+AGG | 0.645821 | 3.1:+82294338 | MS.gene32820:CDS |
| TCAAGCTATTCTGAGACTGG+CGG | 0.679211 | 3.1:-82294430 | None:intergenic |
| CATGCCATTAGAGCTAACAG+AGG | 0.740508 | 3.1:+82294792 | MS.gene32820:CDS |
| TGAGGATGAGAAAGCCACTG+GGG | 0.761973 | 3.1:-82294676 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCTTATTCTATATTTAATT+TGG | + | chr3.1:82294566-82294585 | MS.gene32820:intron | 10.0% |
| !!! | ATTTTAATTTACTTACATAA+TGG | - | chr3.1:82294484-82294503 | None:intergenic | 10.0% |
| !!! | AATTAAAGAAGTTTAAAGTA+AGG | - | chr3.1:82294540-82294559 | None:intergenic | 15.0% |
| !! | TTAATTTACTTACATAATGG+AGG | - | chr3.1:82294481-82294500 | None:intergenic | 20.0% |
| !!! | TATTCTATATTTAATTTGGC+AGG | + | chr3.1:82294570-82294589 | MS.gene32820:intron | 20.0% |
| ! | CATTTCATTATTGAATGTTG+AGG | - | chr3.1:82294697-82294716 | None:intergenic | 25.0% |
| ! | CTCAACATTCAATAATGAAA+TGG | + | chr3.1:82294695-82294714 | MS.gene32820:CDS | 25.0% |
| !! | TTTGGAGTCAAATTTATTTC+TGG | - | chr3.1:82294610-82294629 | None:intergenic | 25.0% |
| !!! | TGCACGTAACTATTTTTATA+TGG | - | chr3.1:82294513-82294532 | None:intergenic | 25.0% |
| AATTTCTACTTCCACTTAGT+TGG | - | chr3.1:82294651-82294670 | None:intergenic | 30.0% | |
| !! | CTATATTTAATTTGGCAGGT+GGG | + | chr3.1:82294574-82294593 | MS.gene32820:intron | 30.0% |
| !! | TCTATATTTAATTTGGCAGG+TGG | + | chr3.1:82294573-82294592 | MS.gene32820:intron | 30.0% |
| CTTATGCAGCTGATATCATT+TGG | - | chr3.1:82294628-82294647 | None:intergenic | 35.0% | |
| GAGCACATGATATTTCTTAG+AGG | + | chr3.1:82294305-82294324 | MS.gene32820:CDS | 35.0% | |
| ! | TTACATAATGGAGGCTAAGA+TGG | - | chr3.1:82294472-82294491 | None:intergenic | 35.0% |
| !! | GCAAGTTTGAGTTCTAAATC+AGG | - | chr3.1:82294766-82294785 | None:intergenic | 35.0% |
| AACAACAAAAACACCAACCC+AGG | + | chr3.1:82294379-82294398 | MS.gene32820:CDS | 40.0% | |
| GCCTAACTCTTCAACATCAA+CGG | + | chr3.1:82294717-82294736 | MS.gene32820:CDS | 40.0% | |
| TCCGTTGATGTTGAAGAGTT+AGG | - | chr3.1:82294721-82294740 | None:intergenic | 40.0% | |
| TTAGAGGACTTGAGAAGCTT+GGG | + | chr3.1:82294321-82294340 | MS.gene32820:CDS | 40.0% | |
| ! | GTAGAAATTTTCTTCCCCAG+TGG | + | chr3.1:82294662-82294681 | MS.gene32820:CDS | 40.0% |
| !! | TCTGTTAGCTCTAATGGCAT+GGG | - | chr3.1:82294793-82294812 | None:intergenic | 40.0% |
| !! | TGATCAAGCTATTCTGAGAC+TGG | - | chr3.1:82294436-82294455 | None:intergenic | 40.0% |
| AGCTGCATAAGCCAACTAAG+TGG | + | chr3.1:82294637-82294656 | MS.gene32820:CDS | 45.0% | |
| CATGCCATTAGAGCTAACAG+AGG | + | chr3.1:82294792-82294811 | MS.gene32820:CDS | 45.0% | |
| CTTAGAGGACTTGAGAAGCT+TGG | + | chr3.1:82294320-82294339 | MS.gene32820:CDS | 45.0% | |
| TTGAGGATGAGAAAGCCACT+GGG | - | chr3.1:82294680-82294699 | None:intergenic | 45.0% | |
| ! | AAATCAGGTGCTGCACTATG+AGG | - | chr3.1:82294751-82294770 | None:intergenic | 45.0% |
| ! | TTGTGCATGACTAGCTACCT+GGG | - | chr3.1:82294399-82294418 | None:intergenic | 45.0% |
| ! | TTTGTGCATGACTAGCTACC+TGG | - | chr3.1:82294400-82294419 | None:intergenic | 45.0% |
| !! | CATGCCTCTGTTAGCTCTAA+TGG | - | chr3.1:82294799-82294818 | None:intergenic | 45.0% |
| !! | CTCTGTTAGCTCTAATGGCA+TGG | - | chr3.1:82294794-82294813 | None:intergenic | 45.0% |
| !! | TCAAGCTATTCTGAGACTGG+CGG | - | chr3.1:82294433-82294452 | None:intergenic | 45.0% |
| AGAAGCTTGGGAAGGGTAAC+TGG | + | chr3.1:82294333-82294352 | MS.gene32820:CDS | 50.0% | |
| AGGACTTGAGAAGCTTGGGA+AGG | + | chr3.1:82294325-82294344 | MS.gene32820:CDS | 50.0% | |
| GGACTTGAGAAGCTTGGGAA+GGG | + | chr3.1:82294326-82294345 | MS.gene32820:CDS | 50.0% | |
| GTTGAGGATGAGAAAGCCAC+TGG | - | chr3.1:82294681-82294700 | None:intergenic | 50.0% | |
| TGAGGATGAGAAAGCCACTG+GGG | - | chr3.1:82294679-82294698 | None:intergenic | 50.0% | |
| ATGTGCTCCTCCTCAGTCCA+CGG | - | chr3.1:82294293-82294312 | None:intergenic | 55.0% | |
| CTTGGGAAGGGTAACTGGAG+AGG | + | chr3.1:82294338-82294357 | MS.gene32820:CDS | 55.0% | |
| ! | GCATGACTAGCTACCTGGGT+TGG | - | chr3.1:82294395-82294414 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 82294287 | 82294828 | 82294287 | ID=MS.gene32820 |
| chr3.1 | mRNA | 82294287 | 82294828 | 82294287 | ID=MS.gene32820.t1;Parent=MS.gene32820 |
| chr3.1 | exon | 82294287 | 82294487 | 82294287 | ID=MS.gene32820.t1.exon1;Parent=MS.gene32820.t1 |
| chr3.1 | CDS | 82294287 | 82294487 | 82294287 | ID=cds.MS.gene32820.t1;Parent=MS.gene32820.t1 |
| chr3.1 | exon | 82294592 | 82294828 | 82294592 | ID=MS.gene32820.t1.exon2;Parent=MS.gene32820.t1 |
| chr3.1 | CDS | 82294592 | 82294828 | 82294592 | ID=cds.MS.gene32820.t1;Parent=MS.gene32820.t1 |
| Gene Sequence |
| Protein sequence |
