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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815140 | RHN56795.1 | 62.286 | 175 | 39 | 2 | 6 | 180 | 21 | 168 | 3.81e-63 | 202 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815140 | sp|B6SFA4|MAA3_ARATH | 36.634 | 101 | 39 | 2 | 24 | 124 | 676 | 751 | 2.25e-12 | 67.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815140 | A0A396HZF4 | 62.286 | 175 | 39 | 2 | 6 | 180 | 21 | 168 | 1.82e-63 | 202 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0657970 | Msa0815140 | 0.816549 | 5.222271e-52 | -8.615850e-47 |
| Msa0661870 | Msa0815140 | 0.801960 | 7.037399e-49 | -8.615850e-47 |
| Msa0736000 | Msa0815140 | 0.876094 | 1.834810e-68 | -8.615850e-47 |
| Msa0777790 | Msa0815140 | 0.891228 | 4.809962e-74 | -8.615850e-47 |
| Msa0777850 | Msa0815140 | 0.899439 | 1.980513e-77 | -8.615850e-47 |
| Msa0789250 | Msa0815140 | 0.801624 | 8.247353e-49 | -8.615850e-47 |
| Msa0814940 | Msa0815140 | 0.832974 | 6.958012e-56 | -8.615850e-47 |
| Msa0815080 | Msa0815140 | 0.943880 | 5.409097e-103 | -8.615850e-47 |
| Msa0815140 | Msa0885280 | 0.804615 | 1.984163e-49 | -8.615850e-47 |
| Msa0815140 | Msa1160670 | 0.828680 | 7.859079e-55 | -8.615850e-47 |
| Msa0815140 | Msa1324780 | 0.828157 | 1.050719e-54 | -8.615850e-47 |
| Msa0815140 | Msa1438250 | 0.841984 | 3.410725e-58 | -8.615850e-47 |
| Msa0235140 | Msa0815140 | 0.801594 | 8.363253e-49 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815140 | MtrunA17_Chr5g0433331 | 62.286 | 175 | 39 | 2 | 6 | 180 | 21 | 168 | 3.50e-67 | 202 |
| Msa0815140 | MtrunA17_Chr5g0433361 | 66.038 | 159 | 20 | 2 | 6 | 164 | 759 | 883 | 1.05e-60 | 202 |
| Msa0815140 | MtrunA17_Chr5g0433421 | 60.000 | 175 | 43 | 2 | 6 | 180 | 863 | 1010 | 1.48e-59 | 199 |
| Msa0815140 | MtrunA17_Chr5g0433471 | 59.748 | 159 | 40 | 1 | 6 | 164 | 778 | 912 | 2.54e-52 | 179 |
| Msa0815140 | MtrunA17_Chr3g0109541 | 53.459 | 159 | 50 | 1 | 6 | 164 | 779 | 913 | 1.86e-49 | 171 |
| Msa0815140 | MtrunA17_Chr5g0433321 | 53.216 | 171 | 51 | 3 | 6 | 176 | 756 | 897 | 1.79e-48 | 168 |
| Msa0815140 | MtrunA17_Chr5g0433371 | 51.163 | 172 | 55 | 3 | 6 | 177 | 780 | 922 | 5.18e-48 | 166 |
| Msa0815140 | MtrunA17_Chr5g0433511 | 49.686 | 159 | 37 | 1 | 6 | 164 | 797 | 912 | 6.85e-35 | 129 |
| Msa0815140 | MtrunA17_Chr3g0109551 | 48.062 | 129 | 43 | 1 | 18 | 146 | 826 | 930 | 1.82e-33 | 125 |
| Msa0815140 | MtrunA17_Chr8g0375151 | 44.444 | 135 | 51 | 1 | 18 | 152 | 734 | 844 | 7.35e-33 | 123 |
| Msa0815140 | MtrunA17_Chr8g0375181 | 43.511 | 131 | 50 | 1 | 22 | 152 | 846 | 952 | 4.03e-31 | 118 |
| Msa0815140 | MtrunA17_Chr3g0094211 | 38.356 | 146 | 66 | 1 | 3 | 148 | 743 | 864 | 7.21e-29 | 112 |
| Msa0815140 | MtrunA17_Chr5g0435821 | 41.045 | 134 | 50 | 2 | 19 | 152 | 9 | 113 | 9.56e-27 | 105 |
| Msa0815140 | MtrunA17_Chr8g0375191 | 41.221 | 131 | 48 | 2 | 22 | 152 | 774 | 875 | 3.76e-26 | 104 |
| Msa0815140 | MtrunA17_Chr8g0343741 | 34.234 | 111 | 47 | 3 | 24 | 134 | 1187 | 1271 | 5.51e-14 | 69.3 |
| Msa0815140 | MtrunA17_Chr7g0257921 | 59.615 | 52 | 21 | 0 | 19 | 70 | 554 | 605 | 1.85e-12 | 64.7 |
| Msa0815140 | MtrunA17_Chr1g0173701 | 32.520 | 123 | 57 | 3 | 7 | 129 | 276 | 372 | 9.80e-12 | 62.4 |
| Msa0815140 | MtrunA17_Chr5g0400101 | 31.034 | 145 | 65 | 5 | 24 | 166 | 829 | 940 | 3.56e-11 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815140 | AT1G65810.2 | 61.345 | 119 | 22 | 1 | 22 | 140 | 743 | 837 | 5.97e-40 | 144 |
| Msa0815140 | AT1G65810.1 | 61.345 | 119 | 22 | 1 | 22 | 140 | 743 | 837 | 6.94e-40 | 144 |
| Msa0815140 | AT1G65810.3 | 61.345 | 119 | 22 | 1 | 22 | 140 | 743 | 837 | 7.69e-40 | 144 |
| Msa0815140 | AT1G65780.1 | 52.273 | 132 | 39 | 1 | 18 | 149 | 754 | 861 | 4.06e-37 | 136 |
| Msa0815140 | AT5G37030.1 | 51.145 | 131 | 40 | 1 | 12 | 142 | 530 | 636 | 1.33e-36 | 134 |
| Msa0815140 | AT5G52090.1 | 45.522 | 134 | 49 | 1 | 12 | 145 | 546 | 655 | 8.30e-34 | 126 |
| Msa0815140 | AT5G37150.1 | 44.030 | 134 | 51 | 1 | 12 | 145 | 709 | 818 | 3.43e-32 | 122 |
| Msa0815140 | AT5G37140.1 | 44.203 | 138 | 52 | 2 | 8 | 145 | 559 | 671 | 1.97e-30 | 117 |
| Msa0815140 | AT5G37165.1 | 46.341 | 123 | 42 | 1 | 22 | 144 | 306 | 404 | 1.09e-29 | 113 |
| Msa0815140 | AT4G05540.1 | 52.475 | 101 | 24 | 1 | 12 | 112 | 613 | 689 | 4.84e-25 | 101 |
| Msa0815140 | AT2G19120.1 | 38.835 | 103 | 37 | 3 | 24 | 126 | 967 | 1043 | 2.55e-15 | 73.6 |
| Msa0815140 | AT4G30100.2 | 35.514 | 107 | 43 | 3 | 24 | 130 | 1130 | 1210 | 1.20e-13 | 68.6 |
| Msa0815140 | AT4G30100.1 | 35.514 | 107 | 43 | 3 | 24 | 130 | 1130 | 1210 | 1.20e-13 | 68.6 |
| Msa0815140 | AT4G15570.2 | 36.634 | 101 | 39 | 2 | 24 | 124 | 587 | 662 | 2.06e-13 | 67.8 |
| Msa0815140 | AT4G15570.4 | 36.634 | 101 | 39 | 2 | 24 | 124 | 587 | 662 | 2.06e-13 | 67.8 |
| Msa0815140 | AT4G15570.3 | 36.634 | 101 | 39 | 2 | 24 | 124 | 676 | 751 | 2.29e-13 | 67.8 |
| Msa0815140 | AT4G15570.1 | 36.634 | 101 | 39 | 2 | 24 | 124 | 676 | 751 | 2.29e-13 | 67.8 |
| Msa0815140 | AT5G47010.1 | 29.870 | 154 | 70 | 5 | 24 | 172 | 841 | 961 | 1.17e-11 | 62.8 |
Find 33 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACATTCACACATGTTAATT+TGG | 0.168271 | 5_3:-48066375 | None:intergenic |
| GTAAATGTTCGTTCTGTTGA+TGG | 0.287283 | 5_3:+48065907 | Msa0815140:CDS |
| TGCTCAGGTTTATGAAATTC+AGG | 0.289012 | 5_3:+48065839 | Msa0815140:CDS |
| ACGGCGTTTAGGAGGGAAAA+TGG | 0.297803 | 5_3:+48066311 | Msa0815140:CDS |
| ATTCTTCCAGTCGTTGAATC+TGG | 0.301086 | 5_3:-48066269 | None:intergenic |
| AGATACTGTCTTTGGATATT+AGG | 0.305787 | 5_3:+48066117 | Msa0815140:CDS |
| TAATCAACAGTGACTCTGTT+TGG | 0.369827 | 5_3:+48066154 | Msa0815140:CDS |
| CCTAAACGCCGTTTCTTGAA+TGG | 0.370619 | 5_3:-48066300 | None:intergenic |
| CCATTCAAGAAACGGCGTTT+AGG | 0.370861 | 5_3:+48066300 | Msa0815140:CDS |
| AGTTATTGATGCTAAGAATA+GGG | 0.406528 | 5_3:+48066185 | Msa0815140:CDS |
| ATATCTACCGTGAGATCTAA+TGG | 0.406558 | 5_3:+48065961 | Msa0815140:CDS |
| TAGTTATTGATGCTAAGAAT+AGG | 0.429708 | 5_3:+48066184 | Msa0815140:CDS |
| TTCAAGAAACGGCGTTTAGG+AGG | 0.495052 | 5_3:+48066303 | Msa0815140:CDS |
| AACAAATGTGGCTATGACTA+GGG | 0.495248 | 5_3:+48066020 | Msa0815140:CDS |
| CGGCGTTTAGGAGGGAAAAT+GGG | 0.506969 | 5_3:+48066312 | Msa0815140:CDS |
| TTGAGTCACCATTCAAGAAA+CGG | 0.508950 | 5_3:+48066292 | Msa0815140:CDS |
| GAACAAATGTGGCTATGACT+AGG | 0.512010 | 5_3:+48066019 | Msa0815140:CDS |
| CATATCTCCATATAATGCTC+AGG | 0.512518 | 5_3:+48065824 | None:intergenic |
| ACCGTGAGATCTAATGGTAC+TGG | 0.518270 | 5_3:+48065967 | Msa0815140:CDS |
| TCTGTTCCAGATTCAACGAC+TGG | 0.536252 | 5_3:+48066263 | Msa0815140:CDS |
| ACAGAACATTCTTAATAGCC+CGG | 0.537690 | 5_3:-48066245 | None:intergenic |
| TCTAATGGTACTGGTGATGT+TGG | 0.546314 | 5_3:+48065976 | Msa0815140:CDS |
| TTGTTTCCACAATGCTGAAG+AGG | 0.550324 | 5_3:+48066209 | Msa0815140:CDS |
| ACATATCAACTACTTTCTCT+AGG | 0.550836 | 5_3:+48066343 | Msa0815140:CDS |
| GGAATATTGAGCAGTACACT+CGG | 0.568763 | 5_3:+48065863 | Msa0815140:CDS |
| TCAAGAAACGGCGTTTAGGA+GGG | 0.570826 | 5_3:+48066304 | Msa0815140:CDS |
| ATGTGGCTATGACTAGGGCT+AGG | 0.571180 | 5_3:+48066025 | Msa0815140:CDS |
| ACCAGTACCATTAGATCTCA+CGG | 0.585010 | 5_3:-48065968 | None:intergenic |
| CAGAACATTCTTAATAGCCC+GGG | 0.595796 | 5_3:-48066244 | None:intergenic |
| AAATAGACAAAGAACAAATG+TGG | 0.638430 | 5_3:+48066008 | Msa0815140:CDS |
| AACTACTTTCTCTAGGCGAG+TGG | 0.643303 | 5_3:+48066350 | Msa0815140:CDS |
| GAATATTGAGCAGTACACTC+GGG | 0.659550 | 5_3:+48065864 | Msa0815140:CDS |
| TCAGGTTTATGAAATTCAGG+AGG | 0.694866 | 5_3:+48065842 | Msa0815140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAATAGACAAAGAACAAATG+TGG | + | chr5_3:48066008-48066027 | Msa0815140:CDS | 25.0% |
| ! | TAGTTATTGATGCTAAGAAT+AGG | + | chr5_3:48066184-48066203 | Msa0815140:CDS | 25.0% |
| ! | AGTTATTGATGCTAAGAATA+GGG | + | chr5_3:48066185-48066204 | Msa0815140:CDS | 25.0% |
| AGATACTGTCTTTGGATATT+AGG | + | chr5_3:48066117-48066136 | Msa0815140:CDS | 30.0% | |
| ACATATCAACTACTTTCTCT+AGG | + | chr5_3:48066343-48066362 | Msa0815140:CDS | 30.0% | |
| TGCTCAGGTTTATGAAATTC+AGG | + | chr5_3:48065839-48065858 | Msa0815140:CDS | 35.0% | |
| TCAGGTTTATGAAATTCAGG+AGG | + | chr5_3:48065842-48065861 | Msa0815140:CDS | 35.0% | |
| GTAAATGTTCGTTCTGTTGA+TGG | + | chr5_3:48065907-48065926 | Msa0815140:CDS | 35.0% | |
| ATATCTACCGTGAGATCTAA+TGG | + | chr5_3:48065961-48065980 | Msa0815140:CDS | 35.0% | |
| AACAAATGTGGCTATGACTA+GGG | + | chr5_3:48066020-48066039 | Msa0815140:CDS | 35.0% | |
| ! | TTTTGTGCAGATACTGTCTT+TGG | + | chr5_3:48066109-48066128 | Msa0815140:CDS | 35.0% |
| TAATCAACAGTGACTCTGTT+TGG | + | chr5_3:48066154-48066173 | Msa0815140:CDS | 35.0% | |
| TGCTGAAGAGGACAAAAAAT+TGG | + | chr5_3:48066221-48066240 | Msa0815140:CDS | 35.0% | |
| ACAGAACATTCTTAATAGCC+CGG | - | chr5_3:48066248-48066267 | None:intergenic | 35.0% | |
| TTGAGTCACCATTCAAGAAA+CGG | + | chr5_3:48066292-48066311 | Msa0815140:CDS | 35.0% | |
| GGAATATTGAGCAGTACACT+CGG | + | chr5_3:48065863-48065882 | Msa0815140:CDS | 40.0% | |
| GAATATTGAGCAGTACACTC+GGG | + | chr5_3:48065864-48065883 | Msa0815140:CDS | 40.0% | |
| !!! | CGTTCTGTTGATGGTTTTCA+AGG | + | chr5_3:48065916-48065935 | Msa0815140:CDS | 40.0% |
| !!! | TCTGTTGATGGTTTTCAAGG+TGG | + | chr5_3:48065919-48065938 | Msa0815140:CDS | 40.0% |
| ACCAGTACCATTAGATCTCA+CGG | - | chr5_3:48065971-48065990 | None:intergenic | 40.0% | |
| !! | TCTAATGGTACTGGTGATGT+TGG | + | chr5_3:48065976-48065995 | Msa0815140:CDS | 40.0% |
| GAACAAATGTGGCTATGACT+AGG | + | chr5_3:48066019-48066038 | Msa0815140:CDS | 40.0% | |
| TTGTTTCCACAATGCTGAAG+AGG | + | chr5_3:48066209-48066228 | Msa0815140:CDS | 40.0% | |
| ! | TTTTGTCCTCTTCAGCATTG+TGG | - | chr5_3:48066218-48066237 | None:intergenic | 40.0% |
| AAGAGGACAAAAAATTGGCC+CGG | + | chr5_3:48066226-48066245 | Msa0815140:CDS | 40.0% | |
| CAGAACATTCTTAATAGCCC+GGG | - | chr5_3:48066247-48066266 | None:intergenic | 40.0% | |
| ATTCTTCCAGTCGTTGAATC+TGG | - | chr5_3:48066272-48066291 | None:intergenic | 40.0% | |
| !! | TGATGGTTTTCAAGGTGGTG+AGG | + | chr5_3:48065924-48065943 | Msa0815140:CDS | 45.0% |
| ACCGTGAGATCTAATGGTAC+TGG | + | chr5_3:48065967-48065986 | Msa0815140:CDS | 45.0% | |
| AGAGGACAAAAAATTGGCCC+GGG | + | chr5_3:48066227-48066246 | Msa0815140:CDS | 45.0% | |
| TCTGTTCCAGATTCAACGAC+TGG | + | chr5_3:48066263-48066282 | Msa0815140:CDS | 45.0% | |
| CCTAAACGCCGTTTCTTGAA+TGG | - | chr5_3:48066303-48066322 | None:intergenic | 45.0% | |
| CCATTCAAGAAACGGCGTTT+AGG | + | chr5_3:48066300-48066319 | Msa0815140:CDS | 45.0% | |
| TTCAAGAAACGGCGTTTAGG+AGG | + | chr5_3:48066303-48066322 | Msa0815140:CDS | 45.0% | |
| TCAAGAAACGGCGTTTAGGA+GGG | + | chr5_3:48066304-48066323 | Msa0815140:CDS | 45.0% | |
| AACTACTTTCTCTAGGCGAG+TGG | + | chr5_3:48066350-48066369 | Msa0815140:CDS | 45.0% | |
| ATGTGGCTATGACTAGGGCT+AGG | + | chr5_3:48066025-48066044 | Msa0815140:CDS | 50.0% | |
| ACGGCGTTTAGGAGGGAAAA+TGG | + | chr5_3:48066311-48066330 | Msa0815140:CDS | 50.0% | |
| CGGCGTTTAGGAGGGAAAAT+GGG | + | chr5_3:48066312-48066331 | Msa0815140:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 48065838 | 48066383 | 48065838 | ID=Msa0815140;Name=Msa0815140 |
| chr5_3 | mRNA | 48065838 | 48066383 | 48065838 | ID=Msa0815140-mRNA-1;Parent=Msa0815140;Name=Msa0815140-mRNA-1;_AED=0.41;_eAED=0.55;_QI=0|-1|0|1|-1|1|1|0|181 |
| chr5_3 | exon | 48065838 | 48066383 | 48065838 | ID=Msa0815140-mRNA-1:exon:14554;Parent=Msa0815140-mRNA-1 |
| chr5_3 | CDS | 48065838 | 48066383 | 48065838 | ID=Msa0815140-mRNA-1:cds;Parent=Msa0815140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
