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.gene004940.t1 | XP_013468829.1 | 95 | 159 | 8 | 0 | 1 | 159 | 1 | 159 | 1.30E-75 | 292.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004940.t1 | Q9FJK3 | 46.2 | 156 | 83 | 1 | 1 | 155 | 1 | 156 | 1.0e-28 | 127.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004940.t1 | A0A072VMQ1 | 95.0 | 159 | 8 | 0 | 1 | 159 | 1 | 159 | 9.4e-76 | 292.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene004940.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.gene004940.t1 | MTR_1g077320 | 94.969 | 159 | 8 | 0 | 1 | 159 | 1 | 159 | 1.11e-101 | 288 |
| MS.gene004940.t1 | MTR_7g011950 | 89.937 | 159 | 16 | 0 | 1 | 159 | 1 | 159 | 6.43e-96 | 274 |
| MS.gene004940.t1 | MTR_4g028720 | 86.792 | 159 | 21 | 0 | 1 | 159 | 1 | 159 | 1.31e-93 | 268 |
| MS.gene004940.t1 | MTR_1g077390 | 70.701 | 157 | 46 | 0 | 1 | 157 | 1 | 157 | 1.04e-78 | 230 |
| MS.gene004940.t1 | MTR_5g047580 | 70.513 | 156 | 46 | 0 | 1 | 156 | 1 | 156 | 7.06e-77 | 226 |
| MS.gene004940.t1 | MTR_1g084950 | 74.359 | 156 | 40 | 0 | 1 | 156 | 1 | 156 | 2.20e-75 | 222 |
| MS.gene004940.t1 | MTR_1g077300 | 74.843 | 159 | 38 | 1 | 1 | 159 | 1 | 157 | 1.01e-74 | 220 |
| MS.gene004940.t1 | MTR_1g090697 | 56.129 | 155 | 68 | 0 | 1 | 155 | 1 | 155 | 4.07e-59 | 181 |
| MS.gene004940.t1 | MTR_5g047560 | 58.974 | 156 | 48 | 1 | 1 | 156 | 1 | 140 | 3.19e-58 | 178 |
| MS.gene004940.t1 | MTR_1g090710 | 55.128 | 156 | 69 | 1 | 1 | 155 | 1 | 156 | 1.47e-57 | 177 |
| MS.gene004940.t1 | MTR_1g090783 | 54.902 | 153 | 69 | 0 | 3 | 155 | 2 | 154 | 7.13e-56 | 172 |
| MS.gene004940.t1 | MTR_3g065100 | 51.592 | 157 | 75 | 1 | 1 | 156 | 1 | 157 | 2.19e-41 | 139 |
| MS.gene004940.t1 | MTR_3g466980 | 45.752 | 153 | 82 | 1 | 1 | 152 | 1 | 153 | 1.28e-38 | 131 |
| MS.gene004940.t1 | MTR_5g075380 | 39.103 | 156 | 94 | 1 | 1 | 155 | 1 | 156 | 3.50e-37 | 125 |
| MS.gene004940.t1 | MTR_4g032620 | 38.065 | 155 | 94 | 2 | 1 | 153 | 1 | 155 | 8.16e-37 | 126 |
| MS.gene004940.t1 | MTR_4g063790 | 40.252 | 159 | 93 | 2 | 1 | 157 | 1 | 159 | 4.94e-35 | 120 |
| MS.gene004940.t1 | MTR_3g466830 | 42.038 | 157 | 90 | 1 | 3 | 158 | 2 | 158 | 1.30e-33 | 116 |
| MS.gene004940.t1 | MTR_4g031910 | 44.667 | 150 | 81 | 2 | 1 | 148 | 1 | 150 | 3.59e-33 | 117 |
| MS.gene004940.t1 | MTR_8g036130 | 40.252 | 159 | 91 | 2 | 1 | 155 | 1 | 159 | 8.86e-33 | 117 |
| MS.gene004940.t1 | MTR_3g466890 | 40.260 | 154 | 91 | 1 | 3 | 155 | 2 | 155 | 9.98e-31 | 109 |
| MS.gene004940.t1 | MTR_4g032260 | 43.750 | 160 | 88 | 2 | 1 | 158 | 1 | 160 | 2.69e-30 | 108 |
| MS.gene004940.t1 | MTR_2g016210 | 42.038 | 157 | 87 | 3 | 1 | 154 | 1 | 156 | 2.51e-29 | 107 |
| MS.gene004940.t1 | MTR_4g032290 | 46.000 | 150 | 79 | 2 | 1 | 148 | 1 | 150 | 3.76e-29 | 107 |
| MS.gene004940.t1 | MTR_3g467080 | 35.625 | 160 | 99 | 3 | 1 | 157 | 1 | 159 | 3.37e-28 | 102 |
| MS.gene004940.t1 | MTR_3g031240 | 34.356 | 163 | 97 | 3 | 1 | 157 | 1 | 159 | 4.51e-28 | 103 |
| MS.gene004940.t1 | MTR_2g035610 | 44.068 | 118 | 65 | 1 | 1 | 117 | 1 | 118 | 6.38e-27 | 98.2 |
| MS.gene004940.t1 | MTR_3g031100 | 35.443 | 158 | 98 | 3 | 1 | 155 | 1 | 157 | 8.33e-27 | 101 |
| MS.gene004940.t1 | MTR_3g465410 | 35.878 | 131 | 82 | 2 | 29 | 157 | 1 | 131 | 4.31e-22 | 86.7 |
| MS.gene004940.t1 | MTR_2g035580 | 32.258 | 155 | 104 | 1 | 1 | 154 | 1 | 155 | 2.02e-21 | 85.1 |
| MS.gene004940.t1 | MTR_3g466900 | 36.800 | 125 | 78 | 1 | 32 | 155 | 2 | 126 | 1.05e-19 | 80.1 |
| MS.gene004940.t1 | MTR_4g028800 | 46.575 | 73 | 37 | 1 | 1 | 73 | 1 | 71 | 6.09e-19 | 76.3 |
| MS.gene004940.t1 | MTR_3g466930 | 35.200 | 125 | 80 | 1 | 32 | 155 | 2 | 126 | 2.66e-18 | 76.3 |
| MS.gene004940.t1 | MTR_4g019670 | 35.833 | 120 | 73 | 2 | 1 | 116 | 1 | 120 | 2.49e-17 | 78.2 |
| MS.gene004940.t1 | MTR_7g106510 | 36.283 | 113 | 68 | 2 | 1 | 109 | 1 | 113 | 1.57e-16 | 75.9 |
| MS.gene004940.t1 | MTR_7g055800 | 33.333 | 117 | 51 | 2 | 1 | 117 | 1 | 90 | 2.58e-15 | 67.4 |
| MS.gene004940.t1 | MTR_7g055790 | 36.697 | 109 | 50 | 2 | 1 | 108 | 59 | 149 | 1.29e-13 | 64.7 |
| MS.gene004940.t1 | MTR_1g033370 | 41.489 | 94 | 54 | 1 | 64 | 156 | 28 | 121 | 1.72e-13 | 63.5 |
| MS.gene004940.t1 | MTR_1g033930 | 38.776 | 98 | 59 | 1 | 62 | 158 | 20 | 117 | 1.85e-13 | 63.5 |
| MS.gene004940.t1 | MTR_1g033790 | 39.796 | 98 | 58 | 1 | 62 | 158 | 20 | 117 | 6.41e-13 | 62.0 |
| MS.gene004940.t1 | MTR_7g055940 | 34.286 | 105 | 42 | 2 | 1 | 105 | 1 | 78 | 8.22e-13 | 60.8 |
| MS.gene004940.t1 | MTR_6g005450 | 31.250 | 112 | 71 | 3 | 1 | 106 | 1 | 112 | 2.00e-12 | 63.9 |
| MS.gene004940.t1 | MTR_3g093900 | 26.974 | 152 | 106 | 2 | 3 | 151 | 6 | 155 | 1.21e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004940.t1 | AT5G48670 | 46.154 | 156 | 83 | 1 | 1 | 155 | 1 | 156 | 3.47e-35 | 125 |
| MS.gene004940.t1 | AT3G05860 | 40.268 | 149 | 88 | 1 | 1 | 148 | 1 | 149 | 2.17e-32 | 114 |
| MS.gene004940.t1 | AT3G05860 | 40.268 | 149 | 88 | 1 | 1 | 148 | 1 | 149 | 1.05e-31 | 114 |
| MS.gene004940.t1 | AT3G05860 | 40.268 | 149 | 88 | 1 | 1 | 148 | 1 | 149 | 1.81e-31 | 114 |
| MS.gene004940.t1 | AT5G26630 | 40.000 | 160 | 95 | 1 | 1 | 159 | 1 | 160 | 4.00e-31 | 112 |
| MS.gene004940.t1 | AT1G65300 | 35.374 | 147 | 94 | 1 | 3 | 148 | 2 | 148 | 5.62e-27 | 102 |
| MS.gene004940.t1 | AT1G65330 | 36.054 | 147 | 93 | 1 | 3 | 148 | 2 | 148 | 2.46e-26 | 100 |
| MS.gene004940.t1 | AT5G26650 | 34.641 | 153 | 99 | 1 | 4 | 155 | 2 | 154 | 2.45e-23 | 94.4 |
| MS.gene004940.t1 | AT5G27960 | 41.026 | 117 | 66 | 2 | 4 | 119 | 2 | 116 | 1.70e-22 | 91.7 |
| MS.gene004940.t1 | AT5G27810 | 43.750 | 96 | 53 | 1 | 29 | 123 | 1 | 96 | 4.08e-21 | 83.2 |
| MS.gene004940.t1 | AT2G28700 | 34.868 | 152 | 92 | 2 | 1 | 148 | 1 | 149 | 1.58e-20 | 86.3 |
| MS.gene004940.t1 | AT1G31630 | 31.429 | 140 | 94 | 2 | 3 | 141 | 2 | 140 | 7.91e-20 | 84.3 |
| MS.gene004940.t1 | AT1G22590 | 32.174 | 115 | 77 | 1 | 1 | 114 | 1 | 115 | 4.10e-19 | 79.3 |
| MS.gene004940.t1 | AT1G31640 | 35.294 | 136 | 86 | 2 | 3 | 137 | 2 | 136 | 1.88e-18 | 81.6 |
| MS.gene004940.t1 | AT5G26580 | 36.975 | 119 | 60 | 2 | 1 | 119 | 1 | 104 | 3.19e-17 | 77.4 |
| MS.gene004940.t1 | AT2G40210 | 38.835 | 103 | 58 | 2 | 1 | 100 | 1 | 101 | 1.53e-13 | 67.4 |
| MS.gene004940.t1 | AT5G58890 | 33.333 | 111 | 66 | 3 | 1 | 104 | 1 | 110 | 2.59e-12 | 63.5 |
| MS.gene004940.t1 | AT5G06500 | 32.877 | 146 | 85 | 5 | 1 | 141 | 1 | 138 | 7.08e-12 | 61.6 |
Find 23 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTGAATCATTAGTGATAA+AGG | 0.307446 | 1.4:+63367387 | None:intergenic |
| AGCTGAACATTCGTATGATT+TGG | 0.323437 | 1.4:-63367081 | MS.gene004940:CDS |
| GTTGCAAAAGGAAACTTTCC+TGG | 0.331570 | 1.4:+63367161 | None:intergenic |
| CACTAATGATTCAGCAAGAA+AGG | 0.401894 | 1.4:-63367380 | MS.gene004940:CDS |
| AAATCTGAAGGAAGCAAAAC+AGG | 0.418438 | 1.4:-63367236 | MS.gene004940:CDS |
| TCTCAGTTGATCCCTAGCTT+TGG | 0.420289 | 1.4:+63367132 | None:intergenic |
| CTTTGGTAATCTGTTGCAAA+AGG | 0.444012 | 1.4:+63367149 | None:intergenic |
| TGTTTCTGATTTGAAAGACT+TGG | 0.473410 | 1.4:-63367023 | MS.gene004940:CDS |
| TTTCACCTTCTTCCTCGTCA+TGG | 0.482331 | 1.4:+63367414 | None:intergenic |
| TCAGAAACAGTCATATCATC+TGG | 0.489973 | 1.4:+63367037 | None:intergenic |
| AACAGGTGATTGAGAGGTAT+CGG | 0.521473 | 1.4:-63367219 | MS.gene004940:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 1.4:-63367316 | MS.gene004940:CDS |
| GCAACAGATTACCAAAGCTA+GGG | 0.531580 | 1.4:-63367143 | MS.gene004940:CDS |
| TGCAACAGATTACCAAAGCT+AGG | 0.533275 | 1.4:-63367144 | MS.gene004940:CDS |
| CGAAGCCATGACGAGGAAGA+AGG | 0.536524 | 1.4:-63367419 | None:intergenic |
| GAAGAAAAGTATCATCAAGA+AGG | 0.556586 | 1.4:-63367341 | MS.gene004940:CDS |
| TCGGAAATTATAGCACATGC+TGG | 0.559487 | 1.4:+63367289 | None:intergenic |
| AGAGGTGTGGCCAAATCTGA+AGG | 0.570010 | 1.4:-63367248 | MS.gene004940:CDS |
| GAAAGGCTTCCTACAAGAAG+AGG | 0.572219 | 1.4:-63367363 | MS.gene004940:CDS |
| GAAGGACATTGATGACAAGA+TGG | 0.586320 | 1.4:-63366978 | MS.gene004940:CDS |
| AAGCAAAACAGGTGATTGAG+AGG | 0.611042 | 1.4:-63367225 | MS.gene004940:CDS |
| TTGATTCTAAAACAGAGGTG+TGG | 0.633348 | 1.4:-63367261 | MS.gene004940:CDS |
| TACAGCGCGAAGCCATGACG+AGG | 0.667555 | 1.4:-63367426 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTAATTGCAAAAAATATGA+AGG | - | chr1.4:63367371-63367390 | MS.gene004940:CDS | 20.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | + | chr1.4:63367100-63367119 | None:intergenic | 25.0% |
| TGCTGAATCATTAGTGATAA+AGG | + | chr1.4:63366983-63367002 | None:intergenic | 30.0% | |
| ! | TGTTTCTGATTTGAAAGACT+TGG | - | chr1.4:63367344-63367363 | MS.gene004940:CDS | 30.0% |
| !! | GAAGAAAAGTATCATCAAGA+AGG | - | chr1.4:63367026-63367045 | MS.gene004940:CDS | 30.0% |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | + | chr1.4:63367105-63367124 | None:intergenic | 30.0% |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | - | chr1.4:63367101-63367120 | MS.gene004940:CDS | 30.0% |
| AAATCTGAAGGAAGCAAAAC+AGG | - | chr1.4:63367131-63367150 | MS.gene004940:CDS | 35.0% | |
| AGAGAACTCACTATTCTTTG+TGG | - | chr1.4:63367051-63367070 | MS.gene004940:CDS | 35.0% | |
| AGCTGAACATTCGTATGATT+TGG | - | chr1.4:63367286-63367305 | MS.gene004940:CDS | 35.0% | |
| CACTAATGATTCAGCAAGAA+AGG | - | chr1.4:63366987-63367006 | MS.gene004940:CDS | 35.0% | |
| TCAGAAACAGTCATATCATC+TGG | + | chr1.4:63367333-63367352 | None:intergenic | 35.0% | |
| TGAGAGAAAAAATGTGAACC+AGG | - | chr1.4:63367188-63367207 | MS.gene004940:CDS | 35.0% | |
| ! | ACTTTTCTTCCTCTTCTTGT+AGG | + | chr1.4:63367016-63367035 | None:intergenic | 35.0% |
| ! | CTTTGGTAATCTGTTGCAAA+AGG | + | chr1.4:63367221-63367240 | None:intergenic | 35.0% |
| ! | TGTTTTGCTTCCTTCAGATT+TGG | + | chr1.4:63367132-63367151 | None:intergenic | 35.0% |
| !! | TTGATTCTAAAACAGAGGTG+TGG | - | chr1.4:63367106-63367125 | MS.gene004940:CDS | 35.0% |
| AAGCAAAACAGGTGATTGAG+AGG | - | chr1.4:63367142-63367161 | MS.gene004940:CDS | 40.0% | |
| GCAACAGATTACCAAAGCTA+GGG | - | chr1.4:63367224-63367243 | MS.gene004940:CDS | 40.0% | |
| GTTGCAAAAGGAAACTTTCC+TGG | + | chr1.4:63367209-63367228 | None:intergenic | 40.0% | |
| TCGGAAATTATAGCACATGC+TGG | + | chr1.4:63367081-63367100 | None:intergenic | 40.0% | |
| TGCAACAGATTACCAAAGCT+AGG | - | chr1.4:63367223-63367242 | MS.gene004940:CDS | 40.0% | |
| ! | AACAGGTGATTGAGAGGTAT+CGG | - | chr1.4:63367148-63367167 | MS.gene004940:CDS | 40.0% |
| ! | GAAGGACATTGATGACAAGA+TGG | - | chr1.4:63367389-63367408 | MS.gene004940:CDS | 40.0% |
| GAAAGGCTTCCTACAAGAAG+AGG | - | chr1.4:63367004-63367023 | MS.gene004940:CDS | 45.0% | |
| TCTCAGTTGATCCCTAGCTT+TGG | + | chr1.4:63367238-63367257 | None:intergenic | 45.0% | |
| ! | AGAGGTGTGGCCAAATCTGA+AGG | - | chr1.4:63367119-63367138 | MS.gene004940:CDS | 50.0% |
| !!! | CTGGCACTGTGTTGTTTTGC+AGG | + | chr1.4:63367314-63367333 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 63366955 | 63367434 | 63366955 | ID=MS.gene004940 |
| chr1.4 | mRNA | 63366955 | 63367434 | 63366955 | ID=MS.gene004940.t1;Parent=MS.gene004940 |
| chr1.4 | exon | 63366955 | 63367434 | 63366955 | ID=MS.gene004940.t1.exon1;Parent=MS.gene004940.t1 |
| chr1.4 | CDS | 63366955 | 63367434 | 63366955 | ID=cds.MS.gene004940.t1;Parent=MS.gene004940.t1 |
| Gene Sequence |
| Protein sequence |
