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.gene032007.t1 | XP_003600854.2 | 82.9 | 216 | 37 | 0 | 30 | 245 | 1 | 216 | 7.40E-94 | 353.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene032007.t1 | Q8S9H7 | 50.0 | 80 | 33 | 1 | 121 | 200 | 129 | 201 | 8.7e-11 | 68.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene032007.t1 | G7JAP1 | 82.9 | 216 | 37 | 0 | 30 | 245 | 1 | 216 | 5.3e-94 | 353.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene032007.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.gene032007.t1 | MTR_3g070110 | 92.130 | 216 | 17 | 0 | 30 | 245 | 1 | 216 | 3.55e-140 | 392 |
| MS.gene032007.t1 | MTR_5g081860 | 41.401 | 157 | 78 | 6 | 50 | 200 | 48 | 196 | 1.13e-20 | 88.6 |
| MS.gene032007.t1 | MTR_5g069710 | 37.209 | 129 | 68 | 2 | 78 | 200 | 80 | 201 | 3.59e-17 | 79.3 |
| MS.gene032007.t1 | MTR_5g088010 | 57.143 | 77 | 27 | 4 | 121 | 196 | 57 | 128 | 4.02e-17 | 78.2 |
| MS.gene032007.t1 | MTR_3g462790 | 33.516 | 182 | 98 | 4 | 19 | 200 | 58 | 216 | 1.06e-16 | 78.2 |
| MS.gene032007.t1 | MTR_8g063600 | 33.735 | 166 | 94 | 6 | 38 | 196 | 17 | 173 | 1.72e-16 | 77.4 |
| MS.gene032007.t1 | MTR_5g027570 | 36.567 | 134 | 75 | 3 | 67 | 196 | 32 | 159 | 3.20e-16 | 75.5 |
| MS.gene032007.t1 | MTR_7g067080 | 31.443 | 194 | 92 | 8 | 26 | 200 | 38 | 209 | 1.09e-15 | 75.5 |
| MS.gene032007.t1 | MTR_5g027550 | 43.023 | 86 | 43 | 2 | 90 | 169 | 37 | 122 | 1.82e-15 | 73.6 |
| MS.gene032007.t1 | MTR_5g088060 | 58.904 | 73 | 24 | 4 | 125 | 196 | 273 | 340 | 6.58e-15 | 73.9 |
| MS.gene032007.t1 | MTR_5g488160 | 58.904 | 73 | 24 | 4 | 125 | 196 | 273 | 340 | 6.58e-15 | 73.9 |
| MS.gene032007.t1 | MTR_3g104370 | 38.462 | 117 | 56 | 2 | 79 | 195 | 58 | 158 | 1.06e-14 | 71.2 |
| MS.gene032007.t1 | MTR_8g063870 | 39.007 | 141 | 64 | 6 | 61 | 199 | 42 | 162 | 1.14e-14 | 72.0 |
| MS.gene032007.t1 | MTR_1g048660 | 59.259 | 54 | 22 | 0 | 116 | 169 | 4 | 57 | 1.36e-14 | 67.8 |
| MS.gene032007.t1 | MTR_1g111830 | 29.240 | 171 | 94 | 4 | 29 | 199 | 49 | 192 | 1.47e-13 | 68.6 |
| MS.gene032007.t1 | MTR_4g107230 | 33.333 | 117 | 66 | 2 | 53 | 169 | 25 | 129 | 2.36e-13 | 68.6 |
| MS.gene032007.t1 | MTR_2g100930 | 39.759 | 83 | 43 | 1 | 115 | 197 | 100 | 175 | 2.48e-12 | 65.9 |
| MS.gene032007.t1 | MTR_2g090305 | 46.667 | 75 | 33 | 2 | 123 | 197 | 27 | 94 | 3.23e-12 | 63.9 |
| MS.gene032007.t1 | MTR_6g092540 | 37.692 | 130 | 57 | 6 | 112 | 241 | 87 | 192 | 4.06e-12 | 65.1 |
| MS.gene032007.t1 | MTR_4g100630 | 36.607 | 112 | 52 | 2 | 88 | 199 | 71 | 163 | 6.11e-12 | 64.7 |
| MS.gene032007.t1 | MTR_5g075760 | 45.833 | 96 | 43 | 5 | 93 | 187 | 77 | 164 | 7.60e-12 | 63.2 |
| MS.gene032007.t1 | MTR_4g111975 | 44.304 | 79 | 37 | 2 | 121 | 199 | 135 | 206 | 8.93e-12 | 63.9 |
| MS.gene032007.t1 | MTR_5g037080 | 50.000 | 54 | 27 | 0 | 116 | 169 | 94 | 147 | 9.08e-12 | 63.9 |
| MS.gene032007.t1 | MTR_4g015130 | 47.826 | 69 | 29 | 1 | 132 | 200 | 1 | 62 | 1.65e-11 | 59.3 |
| MS.gene032007.t1 | MTR_8g101650 | 44.000 | 75 | 34 | 1 | 121 | 195 | 102 | 168 | 2.10e-11 | 62.8 |
| MS.gene032007.t1 | MTR_0036s0260 | 45.333 | 75 | 34 | 2 | 123 | 197 | 27 | 94 | 7.13e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene032007.t1 | AT5G05790 | 41.406 | 128 | 63 | 3 | 78 | 201 | 82 | 201 | 7.83e-20 | 86.3 |
| MS.gene032007.t1 | AT5G05790 | 41.406 | 128 | 63 | 3 | 78 | 201 | 82 | 201 | 7.83e-20 | 86.3 |
| MS.gene032007.t1 | AT3G11280 | 35.870 | 184 | 90 | 9 | 25 | 201 | 35 | 197 | 5.66e-19 | 83.6 |
| MS.gene032007.t1 | AT3G11280 | 35.870 | 184 | 90 | 9 | 25 | 201 | 35 | 197 | 5.66e-19 | 83.6 |
| MS.gene032007.t1 | AT5G01200 | 45.299 | 117 | 50 | 4 | 85 | 200 | 112 | 215 | 4.41e-18 | 81.3 |
| MS.gene032007.t1 | AT2G38090 | 37.069 | 116 | 63 | 2 | 88 | 200 | 102 | 210 | 2.76e-16 | 77.0 |
| MS.gene032007.t1 | AT5G58900 | 44.681 | 94 | 45 | 1 | 107 | 200 | 124 | 210 | 6.31e-16 | 75.9 |
| MS.gene032007.t1 | AT5G08520 | 36.207 | 174 | 84 | 9 | 41 | 198 | 23 | 185 | 1.90e-15 | 74.3 |
| MS.gene032007.t1 | AT4G09450 | 39.837 | 123 | 61 | 4 | 99 | 215 | 66 | 181 | 5.40e-14 | 68.9 |
| MS.gene032007.t1 | AT5G04760 | 49.367 | 79 | 33 | 2 | 121 | 199 | 96 | 167 | 2.57e-13 | 67.4 |
| MS.gene032007.t1 | AT1G19000 | 50.877 | 57 | 28 | 0 | 113 | 169 | 91 | 147 | 7.77e-13 | 67.0 |
| MS.gene032007.t1 | AT1G19000 | 50.877 | 57 | 28 | 0 | 113 | 169 | 91 | 147 | 7.77e-13 | 67.0 |
| MS.gene032007.t1 | AT5G47390 | 35.878 | 131 | 66 | 3 | 115 | 245 | 87 | 199 | 8.61e-13 | 67.4 |
| MS.gene032007.t1 | AT1G70000 | 41.096 | 73 | 41 | 1 | 99 | 169 | 71 | 143 | 1.93e-12 | 65.5 |
| MS.gene032007.t1 | AT1G70000 | 41.096 | 73 | 41 | 1 | 99 | 169 | 71 | 143 | 1.93e-12 | 65.5 |
| MS.gene032007.t1 | AT3G10580 | 46.835 | 79 | 33 | 1 | 121 | 199 | 92 | 161 | 5.23e-12 | 64.7 |
| MS.gene032007.t1 | AT3G10580 | 46.835 | 79 | 33 | 1 | 121 | 199 | 92 | 161 | 5.35e-12 | 64.3 |
| MS.gene032007.t1 | AT1G49010 | 45.570 | 79 | 36 | 2 | 121 | 199 | 131 | 202 | 5.73e-12 | 64.7 |
| MS.gene032007.t1 | AT5G56840 | 52.632 | 57 | 27 | 0 | 121 | 177 | 88 | 144 | 3.50e-11 | 61.6 |
| MS.gene032007.t1 | AT5G61620 | 45.570 | 79 | 36 | 1 | 121 | 199 | 105 | 176 | 6.86e-11 | 61.6 |
| MS.gene032007.t1 | AT1G74840 | 55.102 | 49 | 22 | 0 | 121 | 169 | 93 | 141 | 7.78e-11 | 60.8 |
| MS.gene032007.t1 | AT1G74840 | 55.102 | 49 | 22 | 0 | 121 | 169 | 93 | 141 | 9.14e-11 | 60.8 |
Find 33 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAACCAATAATCATCTTCT+TGG | 0.216049 | 3.1:-57453697 | None:intergenic |
| CATGATCTTTATCACATTCT+TGG | 0.225450 | 3.1:-57454362 | None:intergenic |
| ATTTCCAAGAAGATGATTAT+TGG | 0.238910 | 3.1:+57453693 | MS.gene032007:CDS |
| GACTCATATGCGTGGTTATT+TGG | 0.243758 | 3.1:+57454279 | MS.gene032007:CDS |
| ATAACTACTCTTGATCTTCT+TGG | 0.251399 | 3.1:+57454249 | MS.gene032007:CDS |
| AGTTCTATTGTTATTATTAT+CGG | 0.281602 | 3.1:-57453864 | None:intergenic |
| TTTGAGCATGGCTTGCTACT+TGG | 0.356659 | 3.1:-57454146 | None:intergenic |
| AAAATATCAAAAGGAAACTT+AGG | 0.373972 | 3.1:+57454211 | MS.gene032007:CDS |
| CATTCAAGAAAGTGGTTCAT+TGG | 0.387227 | 3.1:+57453915 | MS.gene032007:CDS |
| AGAATGGTAGAGAATATTCT+AGG | 0.388611 | 3.1:+57453644 | MS.gene032007:CDS |
| TTGAGCATGGCTTGCTACTT+GGG | 0.417939 | 3.1:-57454145 | None:intergenic |
| TATTTGTAGGCGTTTCTTGA+AGG | 0.450413 | 3.1:+57454053 | MS.gene032007:intron |
| TCAAACTCAAATAATAGTTA+TGG | 0.460594 | 3.1:+57453590 | MS.gene032007:CDS |
| AAATATCAAAAGGAAACTTA+GGG | 0.461487 | 3.1:+57454212 | MS.gene032007:CDS |
| AGATGATTATTGGTTGATGA+AGG | 0.467158 | 3.1:+57453703 | MS.gene032007:CDS |
| AAAGTGGAAAGAAATCTCTA+AGG | 0.472931 | 3.1:+57454098 | MS.gene032007:CDS |
| AAAGAAATCATTCAAGAAAG+TGG | 0.476326 | 3.1:+57453907 | MS.gene032007:CDS |
| ATTTGTAGGCGTTTCTTGAA+GGG | 0.494586 | 3.1:+57454054 | MS.gene032007:intron |
| GATCAAGAGTAGTTATATCA+TGG | 0.499404 | 3.1:-57454242 | None:intergenic |
| TACACGGCAAAGACGGAAAG+TGG | 0.504210 | 3.1:+57454082 | MS.gene032007:CDS |
| GCATGGCTTGCTACTTGGGA+TGG | 0.505418 | 3.1:-57454141 | None:intergenic |
| TGTTGTCGTCTTCAATCACT+TGG | 0.511632 | 3.1:-57454305 | None:intergenic |
| CATCGAAGAAAGTAGTAGAA+TGG | 0.523965 | 3.1:+57453628 | MS.gene032007:CDS |
| GGACTTCTACACGGCAAAGA+CGG | 0.559413 | 3.1:+57454075 | MS.gene032007:CDS |
| ACTCAGCATTAACAATGGAA+TGG | 0.588865 | 3.1:+57453546 | None:intergenic |
| ATACATATGAACATATCAAG+TGG | 0.590413 | 3.1:-57454397 | None:intergenic |
| TTCTTGAAGGGACTTCTACA+CGG | 0.594579 | 3.1:+57454066 | MS.gene032007:CDS |
| GAAGACGACAACAATAACAA+TGG | 0.605151 | 3.1:+57454315 | MS.gene032007:CDS |
| TCAGCACAACATCGATGAAG+TGG | 0.609150 | 3.1:+57453757 | MS.gene032007:CDS |
| TTATTATTATCGGTTGCATG+AGG | 0.632701 | 3.1:-57453854 | None:intergenic |
| GCACAACATCGATGAAGTGG+TGG | 0.668571 | 3.1:+57453760 | MS.gene032007:CDS |
| AATATCAAAAGGAAACTTAG+GGG | 0.670754 | 3.1:+57454213 | MS.gene032007:CDS |
| GAAGTGATGACTCATATGCG+TGG | 0.764866 | 3.1:+57454271 | MS.gene032007:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTCTATTGTTATTATTAT+CGG | - | chr3.1:57453867-57453886 | None:intergenic | 15.0% |
| !! | AAAATATCAAAAGGAAACTT+AGG | + | chr3.1:57454211-57454230 | MS.gene032007:CDS | 20.0% |
| !! | AAATATCAAAAGGAAACTTA+GGG | + | chr3.1:57454212-57454231 | MS.gene032007:CDS | 20.0% |
| !! | ATGATAGCAAAAATATCAAA+AGG | + | chr3.1:57454202-57454221 | MS.gene032007:CDS | 20.0% |
| !! | TCAAACTCAAATAATAGTTA+TGG | + | chr3.1:57453590-57453609 | MS.gene032007:CDS | 20.0% |
| !!! | TTTCTTGAATGATTTCTTTT+TGG | - | chr3.1:57453906-57453925 | None:intergenic | 20.0% |
| ! | AAAGAAATCATTCAAGAAAG+TGG | + | chr3.1:57453907-57453926 | MS.gene032007:CDS | 25.0% |
| ! | AATATCAAAAGGAAACTTAG+GGG | + | chr3.1:57454213-57454232 | MS.gene032007:CDS | 25.0% |
| ! | ATTTCCAAGAAGATGATTAT+TGG | + | chr3.1:57453693-57453712 | MS.gene032007:CDS | 25.0% |
| ! | GAAACAATAAACGATGAAAA+AGG | - | chr3.1:57453964-57453983 | None:intergenic | 25.0% |
| !!! | GACATGGATTTTTTATTTGT+AGG | + | chr3.1:57454040-57454059 | MS.gene032007:intron | 25.0% |
| AAAGTGGAAAGAAATCTCTA+AGG | + | chr3.1:57454098-57454117 | MS.gene032007:CDS | 30.0% | |
| AGAATGGTAGAGAATATTCT+AGG | + | chr3.1:57453644-57453663 | MS.gene032007:CDS | 30.0% | |
| ATAACTACTCTTGATCTTCT+TGG | + | chr3.1:57454249-57454268 | MS.gene032007:CDS | 30.0% | |
| CATGATCTTTATCACATTCT+TGG | - | chr3.1:57454365-57454384 | None:intergenic | 30.0% | |
| GATCAAGAGTAGTTATATCA+TGG | - | chr3.1:57454245-57454264 | None:intergenic | 30.0% | |
| TCAACCAATAATCATCTTCT+TGG | - | chr3.1:57453700-57453719 | None:intergenic | 30.0% | |
| ! | TTATTATTATCGGTTGCATG+AGG | - | chr3.1:57453857-57453876 | None:intergenic | 30.0% |
| !! | AGATGATTATTGGTTGATGA+AGG | + | chr3.1:57453703-57453722 | MS.gene032007:CDS | 30.0% |
| !! | ATGCTCAAAAGTACCAAAAA+AGG | + | chr3.1:57454160-57454179 | MS.gene032007:CDS | 30.0% |
| !!! | TTTTTTGGTACTTTTGAGCA+TGG | - | chr3.1:57454161-57454180 | None:intergenic | 30.0% |
| ATTTGTAGGCGTTTCTTGAA+GGG | + | chr3.1:57454054-57454073 | MS.gene032007:intron | 35.0% | |
| CATCGAAGAAAGTAGTAGAA+TGG | + | chr3.1:57453628-57453647 | MS.gene032007:CDS | 35.0% | |
| CATTCAAGAAAGTGGTTCAT+TGG | + | chr3.1:57453915-57453934 | MS.gene032007:CDS | 35.0% | |
| GAAGACGACAACAATAACAA+TGG | + | chr3.1:57454315-57454334 | MS.gene032007:CDS | 35.0% | |
| TATTTGTAGGCGTTTCTTGA+AGG | + | chr3.1:57454053-57454072 | MS.gene032007:intron | 35.0% | |
| !! | GTCTTTGCTTTTGCCTTTTT+TGG | - | chr3.1:57454176-57454195 | None:intergenic | 35.0% |
| GACTCATATGCGTGGTTATT+TGG | + | chr3.1:57454279-57454298 | MS.gene032007:CDS | 40.0% | |
| TGTTGTCGTCTTCAATCACT+TGG | - | chr3.1:57454308-57454327 | None:intergenic | 40.0% | |
| TTCTTGAAGGGACTTCTACA+CGG | + | chr3.1:57454066-57454085 | MS.gene032007:CDS | 40.0% | |
| GAAGTGATGACTCATATGCG+TGG | + | chr3.1:57454271-57454290 | MS.gene032007:CDS | 45.0% | |
| TCAGCACAACATCGATGAAG+TGG | + | chr3.1:57453757-57453776 | MS.gene032007:CDS | 45.0% | |
| !! | TCGACGAGCGTTTCACTTTT+TGG | + | chr3.1:57453800-57453819 | MS.gene032007:CDS | 45.0% |
| !! | TTGAGCATGGCTTGCTACTT+GGG | - | chr3.1:57454148-57454167 | None:intergenic | 45.0% |
| !! | TTTGAGCATGGCTTGCTACT+TGG | - | chr3.1:57454149-57454168 | None:intergenic | 45.0% |
| GCACAACATCGATGAAGTGG+TGG | + | chr3.1:57453760-57453779 | MS.gene032007:CDS | 50.0% | |
| GCGCACACATGTGTTTGACA+TGG | + | chr3.1:57454024-57454043 | MS.gene032007:intron | 50.0% | |
| GGACTTCTACACGGCAAAGA+CGG | + | chr3.1:57454075-57454094 | MS.gene032007:CDS | 50.0% | |
| TACACGGCAAAGACGGAAAG+TGG | + | chr3.1:57454082-57454101 | MS.gene032007:CDS | 50.0% | |
| !! | GCATGGCTTGCTACTTGGGA+TGG | - | chr3.1:57454144-57454163 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 57453560 | 57454404 | 57453560 | ID=MS.gene032007 |
| chr3.1 | mRNA | 57453560 | 57454404 | 57453560 | ID=MS.gene032007.t1;Parent=MS.gene032007 |
| chr3.1 | exon | 57453560 | 57453954 | 57453560 | ID=MS.gene032007.t1.exon1;Parent=MS.gene032007.t1 |
| chr3.1 | CDS | 57453560 | 57453954 | 57453560 | ID=cds.MS.gene032007.t1;Parent=MS.gene032007.t1 |
| chr3.1 | exon | 57454062 | 57454404 | 57454062 | ID=MS.gene032007.t1.exon2;Parent=MS.gene032007.t1 |
| chr3.1 | CDS | 57454062 | 57454404 | 57454062 | ID=cds.MS.gene032007.t1;Parent=MS.gene032007.t1 |
| Gene Sequence |
| Protein sequence |
