Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018517.01.T01 | XP_013454798.1 | 96.296 | 108 | 4 | 0 | 1 | 108 | 89 | 196 | 6.77E-72 | 222 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018517.01.T01 | Q9C523 | 73.148 | 108 | 29 | 0 | 1 | 108 | 78 | 185 | 1.18E-54 | 171 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018517.01.T01 | A0A072UGG3 | 96.296 | 108 | 4 | 0 | 1 | 108 | 89 | 196 | 3.23e-72 | 222 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0180006000.01 | MsG0480018517.01 | 0.800579 | 1.349183e-48 | 6.304653e-46 |
| MsG0280010779.01 | MsG0480018517.01 | 0.812966 | 3.248895e-51 | 2.094585e-48 |
| MsG0280010977.01 | MsG0480018517.01 | 0.809235 | 2.091622e-50 | 1.221469e-47 |
| MsG0480018517.01 | MsG0480020847.01 | 0.812178 | 4.831424e-51 | 3.050475e-48 |
| MsG0480018517.01 | MsG0480020965.01 | 0.819383 | 1.195146e-52 | 9.182468e-50 |
| MsG0480018517.01 | MsG0480021013.01 | 0.811253 | 7.678444e-51 | 4.729892e-48 |
| MsG0480018517.01 | MsG0480022331.01 | 0.813956 | 1.968814e-51 | 1.303869e-48 |
| MsG0480018517.01 | MsG0580024462.01 | 0.806735 | 7.121157e-50 | 3.894677e-47 |
| MsG0480018517.01 | MsG0580024722.01 | 0.861832 | 7.775190e-64 | 2.229180e-60 |
| MsG0480018517.01 | MsG0780041063.01 | 0.818015 | 2.443701e-52 | 1.807968e-49 |
| MsG0380015548.01 | MsG0480018517.01 | 0.801852 | 7.404968e-49 | 3.573670e-46 |
| MsG0380016703.01 | MsG0480018517.01 | 0.824471 | 7.930615e-54 | 7.030865e-51 |
| MsG0280006487.01 | MsG0480018517.01 | 0.816154 | 6.400572e-52 | 4.500401e-49 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018517.01.T01 | MTR_4g013345 | 96.296 | 108 | 4 | 0 | 1 | 108 | 89 | 196 | 8.20e-76 | 222 |
| MsG0480018517.01.T01 | MTR_4g013330 | 89.815 | 108 | 11 | 0 | 1 | 108 | 92 | 199 | 1.54e-70 | 209 |
| MsG0480018517.01.T01 | MTR_4g013350 | 89.815 | 108 | 11 | 0 | 1 | 108 | 90 | 197 | 3.46e-69 | 206 |
| MsG0480018517.01.T01 | MTR_4g013320 | 79.630 | 108 | 22 | 0 | 1 | 108 | 92 | 199 | 8.17e-63 | 189 |
| MsG0480018517.01.T01 | MTR_4g013325 | 75.926 | 108 | 26 | 0 | 1 | 108 | 92 | 199 | 3.71e-59 | 180 |
| MsG0480018517.01.T01 | MTR_7g070390 | 74.074 | 108 | 28 | 0 | 1 | 108 | 85 | 192 | 8.25e-59 | 179 |
| MsG0480018517.01.T01 | MTR_4g013335 | 75.000 | 108 | 27 | 0 | 1 | 108 | 89 | 196 | 1.90e-58 | 178 |
| MsG0480018517.01.T01 | MTR_4g013310 | 71.296 | 108 | 29 | 1 | 1 | 108 | 92 | 197 | 5.35e-52 | 162 |
| MsG0480018517.01.T01 | MTR_1g054525 | 71.296 | 108 | 29 | 1 | 1 | 108 | 87 | 192 | 3.11e-51 | 160 |
| MsG0480018517.01.T01 | MTR_4g013385 | 69.444 | 108 | 33 | 0 | 1 | 108 | 83 | 190 | 4.93e-51 | 159 |
| MsG0480018517.01.T01 | MTR_0433s0040 | 69.444 | 108 | 33 | 0 | 1 | 108 | 83 | 190 | 4.93e-51 | 159 |
| MsG0480018517.01.T01 | MTR_4g013770 | 68.519 | 108 | 34 | 0 | 1 | 108 | 84 | 191 | 1.66e-49 | 155 |
| MsG0480018517.01.T01 | MTR_4g073950 | 60.185 | 108 | 43 | 0 | 1 | 108 | 85 | 192 | 4.33e-45 | 144 |
| MsG0480018517.01.T01 | MTR_4g013355 | 65.741 | 108 | 27 | 1 | 1 | 108 | 82 | 179 | 1.03e-44 | 143 |
| MsG0480018517.01.T01 | MTR_7g093870 | 56.757 | 111 | 45 | 1 | 1 | 108 | 83 | 193 | 3.30e-43 | 140 |
| MsG0480018517.01.T01 | MTR_7g093820 | 59.259 | 108 | 43 | 1 | 2 | 108 | 87 | 194 | 3.21e-42 | 137 |
| MsG0480018517.01.T01 | MTR_7g093850 | 58.333 | 108 | 44 | 1 | 2 | 108 | 87 | 194 | 6.66e-42 | 136 |
| MsG0480018517.01.T01 | MTR_7g093790 | 56.481 | 108 | 46 | 1 | 2 | 108 | 84 | 191 | 2.52e-41 | 135 |
| MsG0480018517.01.T01 | MTR_7g093830 | 56.481 | 108 | 46 | 1 | 2 | 108 | 86 | 193 | 1.17e-40 | 133 |
| MsG0480018517.01.T01 | MTR_1g056370 | 53.704 | 108 | 49 | 1 | 1 | 107 | 78 | 185 | 4.21e-37 | 124 |
| MsG0480018517.01.T01 | MTR_5g096120 | 51.852 | 108 | 51 | 1 | 2 | 108 | 82 | 189 | 8.18e-35 | 118 |
| MsG0480018517.01.T01 | MTR_3g105640 | 50.926 | 108 | 52 | 1 | 2 | 108 | 81 | 188 | 1.14e-33 | 115 |
| MsG0480018517.01.T01 | MTR_4g078885 | 47.222 | 108 | 57 | 0 | 1 | 108 | 78 | 185 | 2.05e-32 | 112 |
| MsG0480018517.01.T01 | MTR_3g034030 | 47.222 | 108 | 57 | 0 | 1 | 108 | 78 | 185 | 1.98e-31 | 109 |
| MsG0480018517.01.T01 | MTR_3g105630 | 46.296 | 108 | 57 | 1 | 2 | 108 | 82 | 189 | 1.71e-29 | 104 |
| MsG0480018517.01.T01 | MTR_4g122110 | 38.889 | 108 | 66 | 0 | 1 | 108 | 73 | 180 | 3.25e-21 | 83.2 |
| MsG0480018517.01.T01 | MTR_4g122130 | 37.037 | 108 | 68 | 0 | 1 | 108 | 73 | 180 | 3.39e-19 | 78.2 |
| MsG0480018517.01.T01 | MTR_4g049570 | 32.039 | 103 | 70 | 0 | 1 | 103 | 71 | 173 | 1.89e-14 | 65.9 |
| MsG0480018517.01.T01 | MTR_4g049550 | 32.039 | 103 | 70 | 0 | 1 | 103 | 71 | 173 | 7.46e-14 | 64.3 |
| MsG0480018517.01.T01 | MTR_8g099115 | 36.782 | 87 | 54 | 1 | 1 | 87 | 83 | 168 | 4.57e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018517.01.T01 | AT1G58170 | 73.148 | 108 | 29 | 0 | 1 | 108 | 78 | 185 | 1.21e-55 | 171 |
| MsG0480018517.01.T01 | AT1G55210 | 67.593 | 108 | 35 | 0 | 1 | 108 | 80 | 187 | 2.84e-49 | 155 |
| MsG0480018517.01.T01 | AT1G55210 | 67.593 | 108 | 35 | 0 | 1 | 108 | 80 | 187 | 2.84e-49 | 155 |
| MsG0480018517.01.T01 | AT3G13660 | 65.741 | 108 | 37 | 0 | 1 | 108 | 18 | 125 | 5.78e-48 | 149 |
| MsG0480018517.01.T01 | AT5G49040 | 64.815 | 108 | 38 | 0 | 1 | 108 | 84 | 191 | 2.76e-46 | 147 |
| MsG0480018517.01.T01 | AT3G13650 | 62.037 | 108 | 41 | 0 | 1 | 108 | 79 | 186 | 1.01e-43 | 140 |
| MsG0480018517.01.T01 | AT2G21100 | 54.206 | 107 | 49 | 0 | 1 | 107 | 81 | 187 | 7.36e-40 | 131 |
| MsG0480018517.01.T01 | AT2G21100 | 54.206 | 107 | 49 | 0 | 1 | 107 | 81 | 187 | 7.36e-40 | 131 |
| MsG0480018517.01.T01 | AT3G13662 | 65.263 | 95 | 33 | 0 | 1 | 95 | 78 | 172 | 7.96e-39 | 128 |
| MsG0480018517.01.T01 | AT1G65870 | 53.271 | 107 | 50 | 0 | 1 | 107 | 83 | 189 | 8.93e-39 | 128 |
| MsG0480018517.01.T01 | AT3G58090 | 52.336 | 107 | 51 | 0 | 1 | 107 | 165 | 271 | 2.23e-37 | 127 |
| MsG0480018517.01.T01 | AT5G42500 | 55.238 | 105 | 45 | 1 | 3 | 107 | 83 | 185 | 6.95e-36 | 120 |
| MsG0480018517.01.T01 | AT5G42510 | 54.286 | 105 | 46 | 1 | 3 | 107 | 80 | 182 | 4.79e-35 | 119 |
| MsG0480018517.01.T01 | AT5G49030 | 65.591 | 93 | 32 | 0 | 1 | 93 | 84 | 176 | 3.18e-34 | 124 |
| MsG0480018517.01.T01 | AT1G22900 | 52.336 | 107 | 49 | 1 | 1 | 107 | 89 | 193 | 1.49e-33 | 115 |
| MsG0480018517.01.T01 | AT2G21110 | 44.860 | 107 | 59 | 0 | 2 | 108 | 80 | 186 | 2.37e-29 | 104 |
| MsG0480018517.01.T01 | AT4G38700 | 44.643 | 112 | 58 | 2 | 1 | 108 | 79 | 190 | 6.80e-28 | 100 |
Find 26 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTCGGGTCCTAAAGTTAA+AGG | 0.186513 | 4:+6051903 | None:intergenic |
| ATTGACAACCCTTTAACTTT+AGG | 0.265955 | 4:-6051912 | MsG0480018517.01.T01:CDS |
| TTCATTGAAGGAAAGTATAA+TGG | 0.275934 | 4:-6051792 | MsG0480018517.01.T01:CDS |
| TCTGCTTCACAGGAAGAAAT+AGG | 0.312713 | 4:-6051840 | MsG0480018517.01.T01:CDS |
| AACAAGTTTAGAACTCAATT+CGG | 0.349877 | 4:+6051887 | None:intergenic |
| GGGAGTACTATTACTATCTT+GGG | 0.365410 | 4:-6051771 | MsG0480018517.01.T01:CDS |
| TGGGAGTACTATTACTATCT+TGG | 0.368563 | 4:-6051772 | MsG0480018517.01.T01:CDS |
| GAGGAATCATGCTCGTAATA+AGG | 0.371557 | 4:-6051748 | MsG0480018517.01.T01:CDS |
| ATGCCTGTTGTTGGTGGTAG+TGG | 0.375988 | 4:-6051717 | MsG0480018517.01.T01:CDS |
| CATTGGATTGATGCCAAAGC+TGG | 0.410820 | 4:-6051654 | MsG0480018517.01.T01:CDS |
| TCATTGAAGGAAAGTATAAT+GGG | 0.435892 | 4:-6051791 | MsG0480018517.01.T01:CDS |
| ATTCGGGTCCTAAAGTTAAA+GGG | 0.441542 | 4:+6051904 | None:intergenic |
| ATCATGCTCGTAATAAGGTT+AGG | 0.442060 | 4:-6051743 | MsG0480018517.01.T01:CDS |
| AACACAAGCATCCCCAGCTT+TGG | 0.447090 | 4:+6051641 | None:intergenic |
| ATGCTCAAGCTAGTACTCAT+TGG | 0.460522 | 4:-6051671 | MsG0480018517.01.T01:CDS |
| GAATTGAGTTCTAAACTTGT+TGG | 0.460969 | 4:-6051885 | MsG0480018517.01.T01:CDS |
| AAACTTGTTGGTAGAGCTCA+AGG | 0.477359 | 4:-6051873 | MsG0480018517.01.T01:CDS |
| ACAAGTTTAGAACTCAATTC+GGG | 0.477778 | 4:+6051888 | None:intergenic |
| GTTAGGGAGATGCCTGTTGT+TGG | 0.505285 | 4:-6051726 | MsG0480018517.01.T01:CDS |
| TCATGCTCGTAATAAGGTTA+GGG | 0.511498 | 4:-6051742 | MsG0480018517.01.T01:CDS |
| AGTCCACTACCACCAACAAC+AGG | 0.512977 | 4:+6051714 | None:intergenic |
| ATTGGATTGATGCCAAAGCT+GGG | 0.519261 | 4:-6051653 | MsG0480018517.01.T01:CDS |
| AGGGAGATGCCTGTTGTTGG+TGG | 0.521357 | 4:-6051723 | MsG0480018517.01.T01:CDS |
| GTACTATTACTATCTTGGGG+AGG | 0.673978 | 4:-6051767 | MsG0480018517.01.T01:CDS |
| GGAGTACTATTACTATCTTG+GGG | 0.700411 | 4:-6051770 | MsG0480018517.01.T01:CDS |
| TTGGATTGATGCCAAAGCTG+GGG | 0.710618 | 4:-6051652 | MsG0480018517.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACAAGTTTAGAACTCAATT+CGG | + | Chr4:6051642-6051661 | None:intergenic | 25.0% |
| !! | ATGAATTTTGCTTTCATTGA+AGG | - | Chr4:6051722-6051741 | MsG0480018517.01.T01:CDS | 25.0% |
| !! | TCATTGAAGGAAAGTATAAT+GGG | - | Chr4:6051735-6051754 | MsG0480018517.01.T01:CDS | 25.0% |
| !! | TTCATTGAAGGAAAGTATAA+TGG | - | Chr4:6051734-6051753 | MsG0480018517.01.T01:CDS | 25.0% |
| ! | ACAAGTTTAGAACTCAATTC+GGG | + | Chr4:6051641-6051660 | None:intergenic | 30.0% |
| ! | ATTGACAACCCTTTAACTTT+AGG | - | Chr4:6051614-6051633 | MsG0480018517.01.T01:CDS | 30.0% |
| !! | GAATTGAGTTCTAAACTTGT+TGG | - | Chr4:6051641-6051660 | MsG0480018517.01.T01:CDS | 30.0% |
| AATTCGGGTCCTAAAGTTAA+AGG | + | Chr4:6051626-6051645 | None:intergenic | 35.0% | |
| ATCATGCTCGTAATAAGGTT+AGG | - | Chr4:6051783-6051802 | MsG0480018517.01.T01:CDS | 35.0% | |
| ATTCGGGTCCTAAAGTTAAA+GGG | + | Chr4:6051625-6051644 | None:intergenic | 35.0% | |
| TCATGCTCGTAATAAGGTTA+GGG | - | Chr4:6051784-6051803 | MsG0480018517.01.T01:CDS | 35.0% | |
| ! | ATTTTATGCATCTGCTTCAC+AGG | - | Chr4:6051676-6051695 | MsG0480018517.01.T01:CDS | 35.0% |
| ! | GGAGTACTATTACTATCTTG+GGG | - | Chr4:6051756-6051775 | MsG0480018517.01.T01:CDS | 35.0% |
| !! | GGGAGTACTATTACTATCTT+GGG | - | Chr4:6051755-6051774 | MsG0480018517.01.T01:CDS | 35.0% |
| !! | TGGGAGTACTATTACTATCT+TGG | - | Chr4:6051754-6051773 | MsG0480018517.01.T01:CDS | 35.0% |
| ATGCTCAAGCTAGTACTCAT+TGG | - | Chr4:6051855-6051874 | MsG0480018517.01.T01:CDS | 40.0% | |
| ATTGGATTGATGCCAAAGCT+GGG | - | Chr4:6051873-6051892 | MsG0480018517.01.T01:CDS | 40.0% | |
| GAGGAATCATGCTCGTAATA+AGG | - | Chr4:6051778-6051797 | MsG0480018517.01.T01:CDS | 40.0% | |
| GTACTATTACTATCTTGGGG+AGG | - | Chr4:6051759-6051778 | MsG0480018517.01.T01:CDS | 40.0% | |
| TCTGCTTCACAGGAAGAAAT+AGG | - | Chr4:6051686-6051705 | MsG0480018517.01.T01:CDS | 40.0% | |
| !! | AAACTTGTTGGTAGAGCTCA+AGG | - | Chr4:6051653-6051672 | MsG0480018517.01.T01:CDS | 40.0% |
| !!! | GGACTTTTCAGATTTGCTAC+AGG | - | Chr4:6051830-6051849 | MsG0480018517.01.T01:CDS | 40.0% |
| CATTGGATTGATGCCAAAGC+TGG | - | Chr4:6051872-6051891 | MsG0480018517.01.T01:CDS | 45.0% | |
| TTGGATTGATGCCAAAGCTG+GGG | - | Chr4:6051874-6051893 | MsG0480018517.01.T01:CDS | 45.0% | |
| AACACAAGCATCCCCAGCTT+TGG | + | Chr4:6051888-6051907 | None:intergenic | 50.0% | |
| AGTCCACTACCACCAACAAC+AGG | + | Chr4:6051815-6051834 | None:intergenic | 50.0% | |
| GTTAGGGAGATGCCTGTTGT+TGG | - | Chr4:6051800-6051819 | MsG0480018517.01.T01:CDS | 50.0% | |
| !! | ATGCCTGTTGTTGGTGGTAG+TGG | - | Chr4:6051809-6051828 | MsG0480018517.01.T01:CDS | 50.0% |
| AGGGAGATGCCTGTTGTTGG+TGG | - | Chr4:6051803-6051822 | MsG0480018517.01.T01:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr4 | gene | 6051611 | 6051937 | 6051611 | ID=MsG0480018517.01;Name=MsG0480018517.01 |
| Chr4 | mRNA | 6051611 | 6051937 | 6051611 | ID=MsG0480018517.01.T01;Parent=MsG0480018517.01;Name=MsG0480018517.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|108 |
| Chr4 | exon | 6051611 | 6051937 | 6051611 | ID=MsG0480018517.01.T01:exon:2152;Parent=MsG0480018517.01.T01 |
| Chr4 | CDS | 6051611 | 6051937 | 6051611 | ID=MsG0480018517.01.T01:cds;Parent=MsG0480018517.01.T01 |
| Gene Sequence |
| Protein sequence |
