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.gene38442.t1 | KEH34477.1 | 88 | 133 | 16 | 0 | 1 | 133 | 29 | 161 | 7.90E-58 | 233 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38442.t1 | Q9FJK3 | 45.7 | 127 | 68 | 1 | 1 | 127 | 29 | 154 | 1.1e-23 | 110.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38442.t1 | A0A072UY35 | 88.0 | 133 | 16 | 0 | 1 | 133 | 29 | 161 | 5.7e-58 | 233.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene38442.t1 | TF | MADS-M-type |
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.gene38442.t1 | MTR_3g467080 | 87.970 | 133 | 16 | 0 | 1 | 133 | 29 | 161 | 6.54e-85 | 245 |
| MS.gene38442.t1 | MTR_4g063790 | 78.947 | 133 | 28 | 0 | 1 | 133 | 29 | 161 | 2.07e-73 | 216 |
| MS.gene38442.t1 | MTR_3g465410 | 78.195 | 133 | 29 | 0 | 1 | 133 | 1 | 133 | 1.29e-72 | 213 |
| MS.gene38442.t1 | MTR_3g466980 | 52.756 | 127 | 57 | 2 | 1 | 126 | 29 | 153 | 2.77e-40 | 134 |
| MS.gene38442.t1 | MTR_3g065100 | 46.774 | 124 | 65 | 1 | 4 | 127 | 32 | 154 | 3.71e-34 | 119 |
| MS.gene38442.t1 | MTR_3g031100 | 44.697 | 132 | 73 | 0 | 1 | 132 | 29 | 160 | 4.06e-34 | 119 |
| MS.gene38442.t1 | MTR_3g031240 | 44.961 | 129 | 71 | 0 | 1 | 129 | 29 | 157 | 1.03e-31 | 111 |
| MS.gene38442.t1 | MTR_2g016210 | 42.424 | 132 | 76 | 0 | 1 | 132 | 29 | 160 | 4.84e-31 | 111 |
| MS.gene38442.t1 | MTR_2g035580 | 46.825 | 126 | 66 | 1 | 2 | 127 | 30 | 154 | 1.43e-30 | 107 |
| MS.gene38442.t1 | MTR_4g032290 | 40.000 | 130 | 78 | 0 | 4 | 133 | 32 | 161 | 9.80e-28 | 102 |
| MS.gene38442.t1 | MTR_2g035610 | 48.352 | 91 | 47 | 0 | 4 | 94 | 32 | 122 | 1.57e-27 | 99.0 |
| MS.gene38442.t1 | MTR_5g075380 | 36.508 | 126 | 79 | 1 | 1 | 126 | 29 | 153 | 3.18e-27 | 99.4 |
| MS.gene38442.t1 | MTR_4g032620 | 36.508 | 126 | 80 | 0 | 1 | 126 | 29 | 154 | 4.78e-27 | 100 |
| MS.gene38442.t1 | MTR_4g032260 | 36.585 | 123 | 78 | 0 | 6 | 128 | 34 | 156 | 1.75e-26 | 97.4 |
| MS.gene38442.t1 | MTR_4g031910 | 39.200 | 125 | 76 | 0 | 4 | 128 | 32 | 156 | 7.47e-26 | 97.4 |
| MS.gene38442.t1 | MTR_8g036130 | 38.931 | 131 | 78 | 1 | 1 | 129 | 29 | 159 | 8.80e-25 | 95.1 |
| MS.gene38442.t1 | MTR_3g466830 | 37.600 | 125 | 77 | 1 | 1 | 125 | 28 | 151 | 2.39e-22 | 86.7 |
| MS.gene38442.t1 | MTR_3g466900 | 33.333 | 126 | 83 | 1 | 4 | 129 | 2 | 126 | 5.86e-19 | 77.4 |
| MS.gene38442.t1 | MTR_5g047580 | 34.884 | 129 | 82 | 2 | 1 | 129 | 29 | 155 | 9.64e-19 | 77.4 |
| MS.gene38442.t1 | MTR_1g077320 | 34.646 | 127 | 79 | 3 | 4 | 129 | 32 | 155 | 1.28e-18 | 77.0 |
| MS.gene38442.t1 | MTR_3g466890 | 33.600 | 125 | 82 | 1 | 2 | 126 | 29 | 152 | 2.60e-17 | 73.6 |
| MS.gene38442.t1 | MTR_1g077390 | 35.606 | 132 | 77 | 4 | 1 | 129 | 29 | 155 | 5.84e-17 | 72.8 |
| MS.gene38442.t1 | MTR_3g466930 | 32.540 | 126 | 84 | 1 | 4 | 129 | 2 | 126 | 6.08e-17 | 72.0 |
| MS.gene38442.t1 | MTR_1g090783 | 31.008 | 129 | 87 | 2 | 1 | 129 | 28 | 154 | 1.30e-16 | 71.6 |
| MS.gene38442.t1 | MTR_7g055800 | 42.857 | 84 | 33 | 1 | 3 | 86 | 18 | 86 | 1.53e-16 | 69.7 |
| MS.gene38442.t1 | MTR_1g084950 | 31.496 | 127 | 83 | 3 | 4 | 129 | 32 | 155 | 1.61e-16 | 71.6 |
| MS.gene38442.t1 | MTR_1g077300 | 30.769 | 130 | 86 | 2 | 4 | 133 | 32 | 157 | 1.65e-16 | 71.6 |
| MS.gene38442.t1 | MTR_4g028720 | 31.746 | 126 | 84 | 2 | 4 | 129 | 32 | 155 | 1.74e-16 | 71.6 |
| MS.gene38442.t1 | MTR_7g011950 | 30.952 | 126 | 85 | 2 | 4 | 129 | 32 | 155 | 2.45e-16 | 71.2 |
| MS.gene38442.t1 | MTR_7g055940 | 42.105 | 76 | 29 | 1 | 3 | 78 | 18 | 78 | 4.73e-14 | 63.2 |
| MS.gene38442.t1 | MTR_4g084780 | 55.556 | 54 | 24 | 0 | 46 | 99 | 1 | 54 | 6.75e-13 | 62.0 |
| MS.gene38442.t1 | MTR_1g090697 | 29.134 | 127 | 86 | 3 | 1 | 126 | 29 | 152 | 2.26e-12 | 60.8 |
| MS.gene38442.t1 | MTR_4g028800 | 48.889 | 45 | 23 | 0 | 1 | 45 | 27 | 71 | 1.10e-11 | 57.0 |
| MS.gene38442.t1 | MTR_1g090710 | 28.125 | 128 | 87 | 3 | 1 | 126 | 29 | 153 | 2.57e-11 | 58.2 |
| MS.gene38442.t1 | MTR_4g019670 | 35.227 | 88 | 57 | 0 | 3 | 90 | 34 | 121 | 8.76e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38442.t1 | AT5G27810 | 55.056 | 89 | 40 | 0 | 1 | 89 | 1 | 89 | 7.37e-30 | 104 |
| MS.gene38442.t1 | AT5G48670 | 44.355 | 124 | 68 | 1 | 4 | 127 | 32 | 154 | 8.47e-30 | 109 |
| MS.gene38442.t1 | AT1G65300 | 39.394 | 132 | 78 | 2 | 2 | 133 | 29 | 158 | 5.44e-23 | 91.3 |
| MS.gene38442.t1 | AT1G65330 | 38.525 | 122 | 74 | 1 | 1 | 122 | 28 | 148 | 7.34e-20 | 82.8 |
| MS.gene38442.t1 | AT3G05860 | 47.191 | 89 | 43 | 1 | 1 | 85 | 29 | 117 | 1.48e-19 | 80.9 |
| MS.gene38442.t1 | AT3G05860 | 45.161 | 93 | 47 | 1 | 1 | 89 | 29 | 121 | 2.27e-19 | 80.9 |
| MS.gene38442.t1 | AT3G05860 | 45.161 | 93 | 47 | 1 | 1 | 89 | 29 | 121 | 3.41e-19 | 80.9 |
| MS.gene38442.t1 | AT5G26650 | 33.333 | 129 | 85 | 1 | 1 | 129 | 27 | 154 | 9.50e-18 | 78.2 |
| MS.gene38442.t1 | AT5G26630 | 31.405 | 121 | 82 | 1 | 6 | 126 | 34 | 153 | 9.44e-17 | 73.6 |
| MS.gene38442.t1 | AT1G31640 | 36.364 | 132 | 70 | 4 | 2 | 127 | 29 | 152 | 5.86e-16 | 73.2 |
| MS.gene38442.t1 | AT5G27960 | 41.975 | 81 | 47 | 0 | 2 | 82 | 28 | 108 | 8.09e-16 | 72.4 |
| MS.gene38442.t1 | AT1G22590 | 37.037 | 81 | 51 | 0 | 1 | 81 | 29 | 109 | 5.88e-13 | 62.4 |
| MS.gene38442.t1 | AT1G31630 | 40.698 | 86 | 44 | 3 | 3 | 85 | 30 | 111 | 7.32e-13 | 64.3 |
| MS.gene38442.t1 | AT2G28700 | 32.540 | 126 | 76 | 3 | 1 | 122 | 29 | 149 | 2.33e-12 | 62.8 |
Find 26 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCATACCACTGAGTTTAA+TGG | 0.186768 | 3.4:-63312368 | MS.gene38442:CDS |
| CAAGTTTGGCCATCAGATTC+AGG | 0.220253 | 3.4:-63312563 | MS.gene38442:CDS |
| CTGAATCTGATGGCCAAACT+TGG | 0.325423 | 3.4:+63312564 | None:intergenic |
| ACAATCCTCAAGCCCAAGTT+TGG | 0.383140 | 3.4:-63312577 | MS.gene38442:CDS |
| GTTCAGAAGTTTGCCTGGAC+TGG | 0.390262 | 3.4:-63312519 | MS.gene38442:CDS |
| GATGAAATTAGCACTCTTTG+CGG | 0.413383 | 3.4:-63312632 | MS.gene38442:CDS |
| AATGAAATGATGAATGATAT+TGG | 0.442815 | 3.4:+63312388 | None:intergenic |
| TCCAGGTTCAGAAGTTTGCC+TGG | 0.467504 | 3.4:-63312524 | MS.gene38442:CDS |
| AAGTTTGGCCATCAGATTCA+GGG | 0.495031 | 3.4:-63312562 | MS.gene38442:CDS |
| GGGTTAGAAGTGTGATATCC+AGG | 0.506627 | 3.4:-63312541 | MS.gene38442:CDS |
| GATGGCCAAACTTGGGCTTG+AGG | 0.508320 | 3.4:+63312572 | None:intergenic |
| CAAATTATCAGCAATAAAAG+AGG | 0.516368 | 3.4:+63312310 | None:intergenic |
| TCCAGGCAAACTTCTGAACC+TGG | 0.543284 | 3.4:+63312523 | None:intergenic |
| ACAAAGGAAGGAAACTAGAA+AGG | 0.548624 | 3.4:-63312420 | MS.gene38442:CDS |
| TGAATCTGATGGCCAAACTT+GGG | 0.554413 | 3.4:+63312565 | None:intergenic |
| TTGCTCGTAAATTATTGCAC+CGG | 0.562136 | 3.4:+63312601 | None:intergenic |
| GAGGTTGATCAAAAGATGAA+AGG | 0.567708 | 3.4:-63312284 | MS.gene38442:CDS |
| CTTCTAACCCCTGAATCTGA+TGG | 0.608216 | 3.4:+63312554 | None:intergenic |
| ATGAGCAGTTGATGAAACAA+AGG | 0.608842 | 3.4:-63312436 | MS.gene38442:CDS |
| ACTCTTTGCGGAATAGAAGC+CGG | 0.612299 | 3.4:-63312620 | MS.gene38442:CDS |
| TATTGCTGATAATTTGAGGG+AGG | 0.619791 | 3.4:-63312303 | MS.gene38442:CDS |
| GCAGTTGATGAAACAAAGGA+AGG | 0.627441 | 3.4:-63312432 | MS.gene38442:CDS |
| AAGGAAGGAAACTAGAAAGG+AGG | 0.627516 | 3.4:-63312417 | MS.gene38442:CDS |
| AGTTTGGCCATCAGATTCAG+GGG | 0.628974 | 3.4:-63312561 | MS.gene38442:CDS |
| TAAATATCCATTAAACTCAG+TGG | 0.639536 | 3.4:+63312361 | None:intergenic |
| TGGATCAAGAGGTATTCTTG+AGG | 0.709854 | 3.4:-63312478 | MS.gene38442:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGAAATGATGAATGATAT+TGG | + | chr3.4:63312524-63312543 | None:intergenic | 20.0% |
| !!! | TTTTATTGCTGATAATTTGA+GGG | - | chr3.4:63312603-63312622 | MS.gene38442:CDS | 20.0% |
| ! | CAAATTATCAGCAATAAAAG+AGG | + | chr3.4:63312602-63312621 | None:intergenic | 25.0% |
| ! | TAAATATCCATTAAACTCAG+TGG | + | chr3.4:63312551-63312570 | None:intergenic | 25.0% |
| !! | CTTTTATTGCTGATAATTTG+AGG | - | chr3.4:63312602-63312621 | MS.gene38442:CDS | 25.0% |
| ACTGGAACAAAGTAAAAAGA+TGG | - | chr3.4:63312408-63312427 | MS.gene38442:CDS | 30.0% | |
| ATTCATACCACTGAGTTTAA+TGG | - | chr3.4:63312541-63312560 | MS.gene38442:CDS | 30.0% | |
| GAGGAAAAATCATTAAGATC+AGG | + | chr3.4:63312583-63312602 | None:intergenic | 30.0% | |
| ACAAAGGAAGGAAACTAGAA+AGG | - | chr3.4:63312489-63312508 | MS.gene38442:CDS | 35.0% | |
| GATGAAATTAGCACTCTTTG+CGG | - | chr3.4:63312277-63312296 | MS.gene38442:CDS | 35.0% | |
| GGAACAAAGTAAAAAGATGG+TGG | - | chr3.4:63312411-63312430 | MS.gene38442:CDS | 35.0% | |
| TATTGCTGATAATTTGAGGG+AGG | - | chr3.4:63312606-63312625 | MS.gene38442:CDS | 35.0% | |
| TTGCTCGTAAATTATTGCAC+CGG | + | chr3.4:63312311-63312330 | None:intergenic | 35.0% | |
| ! | GAGGTTGATCAAAAGATGAA+AGG | - | chr3.4:63312625-63312644 | MS.gene38442:CDS | 35.0% |
| ! | TTTTTACTTTGTTCCAGTCC+AGG | + | chr3.4:63312406-63312425 | None:intergenic | 35.0% |
| !! | ATGAGCAGTTGATGAAACAA+AGG | - | chr3.4:63312473-63312492 | MS.gene38442:CDS | 35.0% |
| !! | TAAAAAGATGGTGGATCAAG+AGG | - | chr3.4:63312420-63312439 | MS.gene38442:CDS | 35.0% |
| AAGGAAGGAAACTAGAAAGG+AGG | - | chr3.4:63312492-63312511 | MS.gene38442:CDS | 40.0% | |
| AAGTTTGGCCATCAGATTCA+GGG | - | chr3.4:63312347-63312366 | MS.gene38442:CDS | 40.0% | |
| TGAATCTGATGGCCAAACTT+GGG | + | chr3.4:63312347-63312366 | None:intergenic | 40.0% | |
| !! | GCAGTTGATGAAACAAAGGA+AGG | - | chr3.4:63312477-63312496 | MS.gene38442:CDS | 40.0% |
| !! | TGGATCAAGAGGTATTCTTG+AGG | - | chr3.4:63312431-63312450 | MS.gene38442:CDS | 40.0% |
| ACAATCCTCAAGCCCAAGTT+TGG | - | chr3.4:63312332-63312351 | MS.gene38442:CDS | 45.0% | |
| ACTCTTTGCGGAATAGAAGC+CGG | - | chr3.4:63312289-63312308 | MS.gene38442:CDS | 45.0% | |
| AGTTTGGCCATCAGATTCAG+GGG | - | chr3.4:63312348-63312367 | MS.gene38442:CDS | 45.0% | |
| CAAGTTTGGCCATCAGATTC+AGG | - | chr3.4:63312346-63312365 | MS.gene38442:CDS | 45.0% | |
| CTGAATCTGATGGCCAAACT+TGG | + | chr3.4:63312348-63312367 | None:intergenic | 45.0% | |
| CTTCTAACCCCTGAATCTGA+TGG | + | chr3.4:63312358-63312377 | None:intergenic | 45.0% | |
| ! | GGGTTAGAAGTGTGATATCC+AGG | - | chr3.4:63312368-63312387 | MS.gene38442:CDS | 45.0% |
| GTTCAGAAGTTTGCCTGGAC+TGG | - | chr3.4:63312390-63312409 | MS.gene38442:CDS | 50.0% | |
| TCCAGGCAAACTTCTGAACC+TGG | + | chr3.4:63312389-63312408 | None:intergenic | 50.0% | |
| TCCAGGTTCAGAAGTTTGCC+TGG | - | chr3.4:63312385-63312404 | MS.gene38442:CDS | 50.0% | |
| GATGGCCAAACTTGGGCTTG+AGG | + | chr3.4:63312340-63312359 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 63312265 | 63312666 | 63312265 | ID=MS.gene38442 |
| chr3.4 | mRNA | 63312265 | 63312666 | 63312265 | ID=MS.gene38442.t1;Parent=MS.gene38442 |
| chr3.4 | exon | 63312265 | 63312666 | 63312265 | ID=MS.gene38442.t1.exon1;Parent=MS.gene38442.t1 |
| chr3.4 | CDS | 63312265 | 63312666 | 63312265 | ID=cds.MS.gene38442.t1;Parent=MS.gene38442.t1 |
| Gene Sequence |
| Protein sequence |
