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.gene000709.t1 | XP_013468829.1 | 91.2 | 159 | 14 | 0 | 1 | 159 | 1 | 159 | 5.20E-72 | 280.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene000709.t1 | Q9FJK3 | 44.2 | 156 | 86 | 1 | 1 | 155 | 1 | 156 | 1.3e-26 | 120.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene000709.t1 | A0A072VMQ1 | 91.2 | 159 | 14 | 0 | 1 | 159 | 1 | 159 | 3.7e-72 | 280.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene000709.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.gene000709.t1 | MTR_1g077320 | 91.195 | 159 | 14 | 0 | 1 | 159 | 1 | 159 | 5.57e-97 | 276 |
| MS.gene000709.t1 | MTR_4g028720 | 86.164 | 159 | 22 | 0 | 1 | 159 | 1 | 159 | 1.07e-93 | 268 |
| MS.gene000709.t1 | MTR_7g011950 | 88.050 | 159 | 19 | 0 | 1 | 159 | 1 | 159 | 1.34e-93 | 268 |
| MS.gene000709.t1 | MTR_1g077390 | 70.701 | 157 | 46 | 0 | 1 | 157 | 1 | 157 | 6.84e-78 | 228 |
| MS.gene000709.t1 | MTR_1g077300 | 74.843 | 159 | 38 | 1 | 1 | 159 | 1 | 157 | 5.41e-75 | 221 |
| MS.gene000709.t1 | MTR_5g047580 | 67.949 | 156 | 50 | 0 | 1 | 156 | 1 | 156 | 3.79e-73 | 216 |
| MS.gene000709.t1 | MTR_1g084950 | 72.436 | 156 | 43 | 0 | 1 | 156 | 1 | 156 | 3.01e-72 | 214 |
| MS.gene000709.t1 | MTR_1g090697 | 56.129 | 155 | 68 | 0 | 1 | 155 | 1 | 155 | 1.57e-57 | 177 |
| MS.gene000709.t1 | MTR_1g090710 | 54.487 | 156 | 70 | 1 | 1 | 155 | 1 | 156 | 1.20e-55 | 172 |
| MS.gene000709.t1 | MTR_5g047560 | 57.051 | 156 | 51 | 1 | 1 | 156 | 1 | 140 | 2.50e-55 | 171 |
| MS.gene000709.t1 | MTR_1g090783 | 54.248 | 153 | 70 | 0 | 3 | 155 | 2 | 154 | 9.41e-55 | 170 |
| MS.gene000709.t1 | MTR_3g065100 | 49.045 | 157 | 79 | 1 | 1 | 156 | 1 | 157 | 5.21e-38 | 130 |
| MS.gene000709.t1 | MTR_5g075380 | 38.462 | 156 | 95 | 1 | 1 | 155 | 1 | 156 | 1.62e-36 | 124 |
| MS.gene000709.t1 | MTR_3g466980 | 43.137 | 153 | 86 | 1 | 1 | 152 | 1 | 153 | 2.46e-36 | 125 |
| MS.gene000709.t1 | MTR_4g032620 | 38.065 | 155 | 94 | 2 | 1 | 153 | 1 | 155 | 1.11e-35 | 124 |
| MS.gene000709.t1 | MTR_3g466830 | 42.038 | 157 | 90 | 1 | 3 | 158 | 2 | 158 | 4.92e-33 | 115 |
| MS.gene000709.t1 | MTR_4g063790 | 37.736 | 159 | 97 | 2 | 1 | 157 | 1 | 159 | 2.57e-32 | 113 |
| MS.gene000709.t1 | MTR_4g031910 | 42.667 | 150 | 84 | 2 | 1 | 148 | 1 | 150 | 2.56e-31 | 112 |
| MS.gene000709.t1 | MTR_3g466890 | 40.260 | 154 | 91 | 1 | 3 | 155 | 2 | 155 | 3.54e-30 | 107 |
| MS.gene000709.t1 | MTR_3g031240 | 35.220 | 159 | 101 | 2 | 1 | 157 | 1 | 159 | 9.59e-30 | 107 |
| MS.gene000709.t1 | MTR_8g036130 | 37.107 | 159 | 96 | 2 | 1 | 155 | 1 | 159 | 4.54e-29 | 107 |
| MS.gene000709.t1 | MTR_4g032260 | 41.250 | 160 | 92 | 2 | 1 | 158 | 1 | 160 | 6.76e-29 | 104 |
| MS.gene000709.t1 | MTR_2g016210 | 37.736 | 159 | 97 | 2 | 1 | 157 | 1 | 159 | 2.45e-27 | 102 |
| MS.gene000709.t1 | MTR_4g032290 | 39.752 | 161 | 95 | 2 | 1 | 159 | 1 | 161 | 4.29e-27 | 101 |
| MS.gene000709.t1 | MTR_3g467080 | 32.298 | 161 | 107 | 2 | 1 | 159 | 1 | 161 | 1.07e-25 | 96.3 |
| MS.gene000709.t1 | MTR_3g031100 | 34.810 | 158 | 99 | 3 | 1 | 155 | 1 | 157 | 2.78e-25 | 97.4 |
| MS.gene000709.t1 | MTR_2g035610 | 41.880 | 117 | 67 | 1 | 1 | 116 | 1 | 117 | 2.29e-24 | 91.7 |
| MS.gene000709.t1 | MTR_2g035580 | 32.903 | 155 | 103 | 1 | 1 | 154 | 1 | 155 | 2.47e-22 | 87.4 |
| MS.gene000709.t1 | MTR_4g028800 | 49.315 | 73 | 35 | 1 | 1 | 73 | 1 | 71 | 1.35e-20 | 80.5 |
| MS.gene000709.t1 | MTR_3g465410 | 33.588 | 131 | 85 | 2 | 29 | 157 | 1 | 131 | 5.05e-20 | 81.3 |
| MS.gene000709.t1 | MTR_3g466930 | 36.000 | 125 | 79 | 1 | 32 | 155 | 2 | 126 | 1.52e-18 | 77.0 |
| MS.gene000709.t1 | MTR_3g466900 | 37.302 | 126 | 76 | 2 | 32 | 155 | 2 | 126 | 6.34e-18 | 75.5 |
| MS.gene000709.t1 | MTR_4g019670 | 32.237 | 152 | 96 | 3 | 1 | 148 | 1 | 149 | 6.35e-17 | 77.0 |
| MS.gene000709.t1 | MTR_7g106510 | 34.259 | 108 | 70 | 1 | 3 | 109 | 6 | 113 | 1.09e-15 | 73.6 |
| MS.gene000709.t1 | MTR_7g055800 | 32.456 | 114 | 50 | 2 | 1 | 114 | 1 | 87 | 1.93e-13 | 62.8 |
| MS.gene000709.t1 | MTR_7g055790 | 37.615 | 109 | 51 | 2 | 1 | 109 | 59 | 150 | 1.44e-12 | 62.0 |
| MS.gene000709.t1 | MTR_1g033370 | 41.489 | 94 | 54 | 1 | 64 | 156 | 28 | 121 | 2.89e-12 | 60.5 |
| MS.gene000709.t1 | MTR_3g093900 | 26.974 | 152 | 106 | 2 | 3 | 151 | 6 | 155 | 3.00e-12 | 63.5 |
| MS.gene000709.t1 | MTR_1g033930 | 38.542 | 96 | 58 | 1 | 64 | 158 | 22 | 117 | 3.31e-12 | 60.1 |
| MS.gene000709.t1 | MTR_1g033790 | 39.583 | 96 | 57 | 1 | 64 | 158 | 22 | 117 | 1.43e-11 | 58.5 |
| MS.gene000709.t1 | MTR_7g055940 | 33.333 | 105 | 43 | 3 | 1 | 105 | 1 | 78 | 2.92e-11 | 56.6 |
| MS.gene000709.t1 | MTR_6g005450 | 29.464 | 112 | 73 | 3 | 1 | 106 | 1 | 112 | 4.71e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene000709.t1 | AT5G48670 | 44.231 | 156 | 86 | 1 | 1 | 155 | 1 | 156 | 7.00e-32 | 116 |
| MS.gene000709.t1 | AT3G05860 | 38.255 | 149 | 91 | 1 | 1 | 148 | 1 | 149 | 1.06e-29 | 107 |
| MS.gene000709.t1 | AT5G26630 | 39.375 | 160 | 96 | 1 | 1 | 159 | 1 | 160 | 1.40e-29 | 107 |
| MS.gene000709.t1 | AT3G05860 | 38.255 | 149 | 91 | 1 | 1 | 148 | 1 | 149 | 4.56e-29 | 107 |
| MS.gene000709.t1 | AT3G05860 | 38.255 | 149 | 91 | 1 | 1 | 148 | 1 | 149 | 7.85e-29 | 107 |
| MS.gene000709.t1 | AT1G65300 | 36.054 | 147 | 93 | 1 | 3 | 148 | 2 | 148 | 3.53e-27 | 103 |
| MS.gene000709.t1 | AT1G65330 | 36.735 | 147 | 92 | 1 | 3 | 148 | 2 | 148 | 1.17e-26 | 101 |
| MS.gene000709.t1 | AT5G26650 | 35.294 | 153 | 98 | 1 | 4 | 155 | 2 | 154 | 3.65e-24 | 96.7 |
| MS.gene000709.t1 | AT5G27960 | 43.925 | 107 | 59 | 1 | 4 | 109 | 2 | 108 | 1.52e-23 | 94.4 |
| MS.gene000709.t1 | AT1G31630 | 29.677 | 155 | 107 | 2 | 3 | 156 | 2 | 155 | 2.22e-20 | 85.9 |
| MS.gene000709.t1 | AT1G22590 | 29.012 | 162 | 99 | 3 | 1 | 155 | 1 | 153 | 3.06e-20 | 82.4 |
| MS.gene000709.t1 | AT2G28700 | 35.252 | 139 | 87 | 2 | 1 | 138 | 1 | 137 | 4.76e-19 | 82.4 |
| MS.gene000709.t1 | AT5G27810 | 41.667 | 96 | 55 | 1 | 29 | 123 | 1 | 96 | 5.60e-19 | 77.8 |
| MS.gene000709.t1 | AT1G31640 | 38.739 | 111 | 66 | 2 | 3 | 112 | 2 | 111 | 6.06e-18 | 80.1 |
| MS.gene000709.t1 | AT5G26580 | 40.367 | 109 | 52 | 1 | 1 | 109 | 1 | 96 | 9.58e-18 | 79.0 |
| MS.gene000709.t1 | AT2G40210 | 39.806 | 103 | 57 | 2 | 1 | 100 | 1 | 101 | 3.08e-14 | 69.3 |
| MS.gene000709.t1 | AT5G58890 | 35.135 | 111 | 64 | 3 | 1 | 104 | 1 | 110 | 1.29e-13 | 67.0 |
| MS.gene000709.t1 | AT5G06500 | 34.906 | 106 | 65 | 2 | 1 | 102 | 1 | 106 | 2.55e-11 | 60.1 |
Find 26 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGTCTTTCTTGTTGAATCAT+TGG | 0.331175 | 7.1:-48907475 | None:intergenic |
| GTTGCAAAAGGAAACTTTCC+TGG | 0.331570 | 7.1:-48907692 | None:intergenic |
| AACAAAGGTGTGGCCAAATC+TGG | 0.333286 | 7.1:+48907602 | MS.gene000709:CDS |
| TGTTGAATCATTGGAGATAA+AGG | 0.341938 | 7.1:-48907466 | None:intergenic |
| CTTGTCTTTGCTTTCTCAGT+TGG | 0.347479 | 7.1:-48907734 | None:intergenic |
| AAATCTGGAGGAAGCAAAAC+AGG | 0.418438 | 7.1:+48907617 | MS.gene000709:CDS |
| CTTTAGTAATCTGTTGCAAA+AGG | 0.444882 | 7.1:-48907704 | None:intergenic |
| CAGAACTCATATATGAAAGA+TGG | 0.456034 | 7.1:+48907654 | MS.gene000709:CDS |
| TCTTTCTGATTTGAAAGACT+TGG | 0.461416 | 7.1:+48907830 | MS.gene000709:CDS |
| TCAGAAAGAGTGATATCATC+TGG | 0.482942 | 7.1:-48907816 | None:intergenic |
| TTTCACCTTCTTCCTAGTCA+TGG | 0.490416 | 7.1:-48907439 | None:intergenic |
| AGCTGAACATTCGTATGAGC+TGG | 0.525005 | 7.1:+48907772 | MS.gene000709:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 7.1:+48907537 | MS.gene000709:CDS |
| TGCAACAGATTACTAAAGCT+AGG | 0.531119 | 7.1:+48907709 | MS.gene000709:CDS |
| GCAACAGATTACTAAAGCTA+GGG | 0.532673 | 7.1:+48907710 | MS.gene000709:CDS |
| GAAAGACTTCCTACAAGAAG+AGG | 0.537052 | 7.1:+48907490 | MS.gene000709:CDS |
| AGAACTCATATATGAAAGAT+GGG | 0.538835 | 7.1:+48907655 | MS.gene000709:CDS |
| GAAGGAAATTGATGACAAGA+TGG | 0.550366 | 7.1:+48907875 | MS.gene000709:CDS |
| TCGGAAATTATAGCACAAGC+TGG | 0.550429 | 7.1:-48907564 | None:intergenic |
| CGAAGCCATGACTAGGAAGA+AGG | 0.551367 | 7.1:+48907434 | None:intergenic |
| GAAGAAAAGTATCATCAAGA+AGG | 0.556586 | 7.1:+48907512 | MS.gene000709:CDS |
| TTGATTCTAAAACAAAGGTG+TGG | 0.589806 | 7.1:+48907592 | MS.gene000709:CDS |
| TACATTGCGAAGCCATGACT+AGG | 0.618148 | 7.1:+48907427 | None:intergenic |
| AAAGGTGTGGCCAAATCTGG+AGG | 0.627738 | 7.1:+48907605 | MS.gene000709:CDS |
| AAGCAAAACAGGTGATTGAG+AGG | 0.635256 | 7.1:+48907628 | MS.gene000709:CDS |
| CTGGTACCTGCAAAACAACA+CGG | 0.672567 | 7.1:+48907791 | MS.gene000709:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGAACTCATATATGAAAGAT+GGG | + | chr7.1:48907655-48907674 | MS.gene000709:CDS | 25.0% |
| !! | GTTAATTGCAAAAAGTATGA+AGG | + | chr7.1:48907857-48907876 | MS.gene000709:CDS | 25.0% |
| !!! | ACCTTTGTTTTAGAATCAAA+AGG | - | chr7.1:48907591-48907610 | None:intergenic | 25.0% |
| !!! | TCCTTTTGATTCTAAAACAA+AGG | + | chr7.1:48907587-48907606 | MS.gene000709:CDS | 25.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | - | chr7.1:48907586-48907605 | None:intergenic | 25.0% |
| AGTCTTTCTTGTTGAATCAT+TGG | - | chr7.1:48907478-48907497 | None:intergenic | 30.0% | |
| CAGAACTCATATATGAAAGA+TGG | + | chr7.1:48907654-48907673 | MS.gene000709:CDS | 30.0% | |
| CTTTAGTAATCTGTTGCAAA+AGG | - | chr7.1:48907707-48907726 | None:intergenic | 30.0% | |
| TGTTGAATCATTGGAGATAA+AGG | - | chr7.1:48907469-48907488 | None:intergenic | 30.0% | |
| ! | TCTTTCTGATTTGAAAGACT+TGG | + | chr7.1:48907830-48907849 | MS.gene000709:CDS | 30.0% |
| !! | GAAGAAAAGTATCATCAAGA+AGG | + | chr7.1:48907512-48907531 | MS.gene000709:CDS | 30.0% |
| !! | TTGATTCTAAAACAAAGGTG+TGG | + | chr7.1:48907592-48907611 | MS.gene000709:CDS | 30.0% |
| AGAGAACTCACTATTCTTTG+TGG | + | chr7.1:48907537-48907556 | MS.gene000709:CDS | 35.0% | |
| GCAACAGATTACTAAAGCTA+GGG | + | chr7.1:48907710-48907729 | MS.gene000709:CDS | 35.0% | |
| TCAGAAAGAGTGATATCATC+TGG | - | chr7.1:48907819-48907838 | None:intergenic | 35.0% | |
| TGCAACAGATTACTAAAGCT+AGG | + | chr7.1:48907709-48907728 | MS.gene000709:CDS | 35.0% | |
| ! | ACTTTTCTTCCTCTTCTTGT+AGG | - | chr7.1:48907502-48907521 | None:intergenic | 35.0% |
| ! | GAAGGAAATTGATGACAAGA+TGG | + | chr7.1:48907875-48907894 | MS.gene000709:CDS | 35.0% |
| AAATCTGGAGGAAGCAAAAC+AGG | + | chr7.1:48907617-48907636 | MS.gene000709:CDS | 40.0% | |
| AAGCAAAACAGGTGATTGAG+AGG | + | chr7.1:48907628-48907647 | MS.gene000709:CDS | 40.0% | |
| CTTGTCTTTGCTTTCTCAGT+TGG | - | chr7.1:48907737-48907756 | None:intergenic | 40.0% | |
| GAAAGACTTCCTACAAGAAG+AGG | + | chr7.1:48907490-48907509 | MS.gene000709:CDS | 40.0% | |
| GTTGCAAAAGGAAACTTTCC+TGG | - | chr7.1:48907695-48907714 | None:intergenic | 40.0% | |
| TCGGAAATTATAGCACAAGC+TGG | - | chr7.1:48907567-48907586 | None:intergenic | 40.0% | |
| TGGGAGAAAAAATGTGAACC+AGG | + | chr7.1:48907674-48907693 | MS.gene000709:CDS | 40.0% | |
| ! | TGTTTTGCTTCCTCCAGATT+TGG | - | chr7.1:48907618-48907637 | None:intergenic | 40.0% |
| AGCTGAACATTCGTATGAGC+TGG | + | chr7.1:48907772-48907791 | MS.gene000709:CDS | 45.0% | |
| CTGGTACCTGCAAAACAACA+CGG | + | chr7.1:48907791-48907810 | MS.gene000709:CDS | 45.0% | |
| ! | AACAAAGGTGTGGCCAAATC+TGG | + | chr7.1:48907602-48907621 | MS.gene000709:CDS | 45.0% |
| ! | AAAGGTGTGGCCAAATCTGG+AGG | + | chr7.1:48907605-48907624 | MS.gene000709:CDS | 50.0% |
| !!! | CTGGCACCGTGTTGTTTTGC+AGG | - | chr7.1:48907800-48907819 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.1 | gene | 48907441 | 48907920 | 48907441 | ID=MS.gene000709 |
| chr7.1 | mRNA | 48907441 | 48907920 | 48907441 | ID=MS.gene000709.t1;Parent=MS.gene000709 |
| chr7.1 | exon | 48907441 | 48907920 | 48907441 | ID=MS.gene000709.t1.exon1;Parent=MS.gene000709.t1 |
| chr7.1 | CDS | 48907441 | 48907920 | 48907441 | ID=cds.MS.gene000709.t1;Parent=MS.gene000709.t1 |
| Gene Sequence |
| Protein sequence |
