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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0875530 | XP_013451230.1 | 94.083 | 169 | 9 | 1 | 4 | 171 | 3 | 171 | 1.72e-113 | 330 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0875530 | sp|Q9FXD6|ARR11_ARATH | 33.758 | 157 | 94 | 3 | 11 | 166 | 8 | 155 | 2.76e-25 | 104 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0875530 | A0A072UHJ5 | 94.083 | 169 | 9 | 1 | 4 | 171 | 3 | 171 | 8.20e-114 | 330 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0875530 | TR | Others |
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0875530 | MtrunA17_Chr6g0456631 | 94.083 | 169 | 9 | 1 | 4 | 171 | 3 | 171 | 1.58e-117 | 330 |
| Msa0875530 | MtrunA17_Chr8g0391911 | 92.593 | 162 | 12 | 0 | 4 | 165 | 3 | 164 | 1.42e-109 | 313 |
| Msa0875530 | MtrunA17_Chr4g0009901 | 47.205 | 161 | 84 | 1 | 1 | 161 | 1 | 160 | 2.01e-46 | 153 |
| Msa0875530 | MtrunA17_Chr8g0383961 | 53.147 | 143 | 61 | 3 | 1 | 138 | 1 | 142 | 7.06e-45 | 149 |
| Msa0875530 | MtrunA17_Chr4g0009851 | 44.720 | 161 | 87 | 2 | 1 | 160 | 1 | 160 | 1.12e-43 | 147 |
| Msa0875530 | MtrunA17_Chr6g0471041 | 42.308 | 156 | 87 | 3 | 9 | 162 | 13 | 167 | 7.07e-32 | 118 |
| Msa0875530 | MtrunA17_Chr1g0161431 | 34.503 | 171 | 110 | 2 | 2 | 171 | 3 | 172 | 1.12e-29 | 114 |
| Msa0875530 | MtrunA17_Chr3g0123131 | 37.594 | 133 | 81 | 2 | 3 | 134 | 6 | 137 | 2.15e-27 | 107 |
| Msa0875530 | MtrunA17_Chr8g0376881 | 34.641 | 153 | 98 | 2 | 10 | 161 | 25 | 176 | 3.09e-26 | 103 |
| Msa0875530 | MtrunA17_Chr4g0067981 | 37.302 | 126 | 77 | 2 | 8 | 132 | 29 | 153 | 1.27e-24 | 99.8 |
| Msa0875530 | MtrunA17_Chr1g0149851 | 34.146 | 164 | 105 | 3 | 8 | 170 | 3 | 164 | 2.07e-24 | 99.0 |
| Msa0875530 | MtrunA17_Chr3g0137101 | 33.136 | 169 | 107 | 3 | 7 | 170 | 5 | 172 | 2.10e-24 | 99.0 |
| Msa0875530 | MtrunA17_Chr2g0294911 | 34.416 | 154 | 99 | 2 | 8 | 160 | 27 | 179 | 3.24e-24 | 98.6 |
| Msa0875530 | MtrunA17_Chr4g0010001 | 46.067 | 89 | 48 | 0 | 1 | 89 | 1 | 89 | 3.58e-24 | 90.5 |
| Msa0875530 | MtrunA17_Chr4g0011071 | 40.566 | 106 | 62 | 1 | 55 | 160 | 35 | 139 | 1.17e-23 | 91.7 |
| Msa0875530 | MtrunA17_Chr7g0275891 | 35.433 | 127 | 79 | 2 | 8 | 132 | 3 | 128 | 1.70e-23 | 94.7 |
| Msa0875530 | MtrunA17_Chr1g0149841 | 37.302 | 126 | 77 | 2 | 8 | 132 | 3 | 127 | 1.90e-23 | 95.9 |
| Msa0875530 | MtrunA17_Chr5g0423031 | 47.191 | 89 | 47 | 0 | 1 | 89 | 1 | 89 | 2.27e-23 | 91.3 |
| Msa0875530 | MtrunA17_Chr4g0074401 | 32.164 | 171 | 109 | 3 | 6 | 175 | 13 | 177 | 1.02e-22 | 94.0 |
| Msa0875530 | MtrunA17_Chr4g0009981 | 42.157 | 102 | 58 | 1 | 59 | 160 | 7 | 107 | 4.21e-22 | 89.7 |
| Msa0875530 | MtrunA17_Chr3g0134481 | 34.646 | 127 | 81 | 2 | 6 | 131 | 4 | 129 | 3.28e-21 | 85.9 |
| Msa0875530 | MtrunA17_Chr4g0074411 | 29.940 | 167 | 110 | 3 | 10 | 175 | 18 | 178 | 6.02e-21 | 89.0 |
| Msa0875530 | MtrunA17_Chr7g0275401 | 34.375 | 128 | 82 | 2 | 6 | 132 | 1 | 127 | 1.43e-20 | 86.3 |
| Msa0875530 | MtrunA17_Chr2g0304841 | 32.540 | 126 | 83 | 2 | 8 | 132 | 16 | 140 | 3.80e-20 | 86.7 |
| Msa0875530 | MtrunA17_Chr3g0134461 | 33.793 | 145 | 86 | 4 | 7 | 149 | 5 | 141 | 8.69e-19 | 79.7 |
| Msa0875530 | MtrunA17_Chr8g0350761 | 31.667 | 120 | 81 | 1 | 12 | 130 | 19 | 138 | 1.38e-14 | 70.5 |
| Msa0875530 | MtrunA17_Chr4g0074421 | 29.915 | 117 | 76 | 2 | 59 | 175 | 2 | 112 | 2.53e-14 | 67.8 |
| Msa0875530 | MtrunA17_Chr8g0345901 | 33.065 | 124 | 78 | 3 | 13 | 132 | 35 | 157 | 1.38e-12 | 65.1 |
| Msa0875530 | MtrunA17_Chr1g0149831 | 41.538 | 65 | 37 | 1 | 68 | 132 | 1 | 64 | 7.87e-12 | 61.6 |
| Msa0875530 | MtrunA17_Chr4g0030271 | 31.707 | 123 | 79 | 3 | 14 | 132 | 89 | 210 | 5.79e-11 | 60.5 |
| Msa0875530 | MtrunA17_Chr7g0276361 | 29.365 | 126 | 84 | 3 | 11 | 132 | 11 | 135 | 9.72e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0875530 | AT1G67710.1 | 33.758 | 157 | 94 | 3 | 11 | 166 | 8 | 155 | 2.81e-26 | 104 |
| Msa0875530 | AT2G01760.1 | 37.795 | 127 | 76 | 3 | 8 | 132 | 5 | 130 | 3.72e-25 | 100 |
| Msa0875530 | AT3G16857.2 | 35.484 | 124 | 78 | 2 | 10 | 132 | 33 | 155 | 3.21e-21 | 90.1 |
| Msa0875530 | AT3G16857.1 | 35.484 | 124 | 78 | 2 | 10 | 132 | 33 | 155 | 3.55e-21 | 90.1 |
| Msa0875530 | AT2G25180.1 | 28.994 | 169 | 112 | 3 | 8 | 175 | 11 | 172 | 7.65e-21 | 89.4 |
| Msa0875530 | AT4G31920.1 | 33.600 | 125 | 81 | 2 | 8 | 131 | 11 | 134 | 1.67e-20 | 88.2 |
| Msa0875530 | AT2G01760.2 | 30.968 | 155 | 76 | 4 | 8 | 132 | 5 | 158 | 1.13e-19 | 85.5 |
| Msa0875530 | AT5G49240.1 | 31.783 | 129 | 86 | 2 | 6 | 133 | 34 | 161 | 5.28e-19 | 82.4 |
| Msa0875530 | AT1G49190.1 | 31.298 | 131 | 88 | 2 | 5 | 134 | 25 | 154 | 2.61e-17 | 78.6 |
| Msa0875530 | AT1G49190.2 | 31.298 | 131 | 88 | 2 | 5 | 134 | 25 | 154 | 3.36e-17 | 78.6 |
| Msa0875530 | AT3G62670.1 | 30.657 | 137 | 91 | 3 | 15 | 150 | 42 | 175 | 1.77e-16 | 76.3 |
| Msa0875530 | AT5G58080.1 | 30.000 | 160 | 106 | 4 | 8 | 166 | 12 | 166 | 2.98e-16 | 75.9 |
| Msa0875530 | AT1G67710.2 | 34.343 | 99 | 56 | 2 | 68 | 166 | 1 | 90 | 4.42e-14 | 69.7 |
| Msa0875530 | AT3G16857.3 | 36.471 | 85 | 52 | 2 | 49 | 132 | 2 | 85 | 5.67e-13 | 66.6 |
| Msa0875530 | AT2G46790.3 | 30.233 | 129 | 84 | 4 | 10 | 133 | 32 | 159 | 1.63e-12 | 65.1 |
| Msa0875530 | AT2G46790.1 | 30.233 | 129 | 84 | 4 | 10 | 133 | 32 | 159 | 1.68e-12 | 65.1 |
| Msa0875530 | AT5G60100.2 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 1.89e-11 | 62.0 |
| Msa0875530 | AT5G60100.7 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.34e-11 | 61.6 |
| Msa0875530 | AT5G60100.6 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.34e-11 | 61.6 |
| Msa0875530 | AT5G60100.4 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.34e-11 | 61.6 |
| Msa0875530 | AT5G60100.5 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.51e-11 | 61.6 |
| Msa0875530 | AT5G60100.3 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.51e-11 | 61.6 |
| Msa0875530 | AT5G60100.1 | 32.258 | 124 | 79 | 3 | 13 | 132 | 63 | 185 | 2.51e-11 | 61.6 |
Find 23 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATCATCTCTTGCCCTTATT+TGG | 0.189913 | 6_1:-12232733 | Msa0875540:intron |
| GGGTTGAAGGTAGCCAAATA+AGG | 0.310675 | 6_1:+12232720 | Msa0875530:CDS |
| AACGATGCAACATCGGAAAA+AGG | 0.322362 | 6_1:+12232770 | Msa0875530:CDS |
| ATAATGAAGGCCATTGAAAA+TGG | 0.335391 | 6_1:+12232581 | Msa0875530:CDS |
| ACAAGAACTTTAACATTGGC+TGG | 0.429953 | 6_1:-12232155 | None:intergenic |
| ATATGTGGCATCATGCTGTT+AGG | 0.443627 | 6_1:+12232651 | Msa0875530:CDS |
| CATGAATTTGATAGCACAAA+AGG | 0.447668 | 6_1:+12232350 | Msa0875530:CDS |
| TATATTTACTTACTAATGAC+AGG | 0.483959 | 6_1:-12232462 | Msa0875540:intron |
| TGTTCTGAAGGATCAACAAA+TGG | 0.496320 | 6_1:+12232557 | Msa0875530:CDS |
| ATCAACAAATGGAATAATGA+AGG | 0.507137 | 6_1:+12232568 | Msa0875530:CDS |
| GGTTGAAGGTAGCCAAATAA+GGG | 0.508208 | 6_1:+12232721 | Msa0875530:CDS |
| AAAATCAAGTAAAGTATATG+TGG | 0.524588 | 6_1:+12232636 | Msa0875530:CDS |
| AATCACAAGAACTTTAACAT+TGG | 0.529369 | 6_1:-12232159 | None:intergenic |
| TGAAACTCAAATGCCGGACA+TGG | 0.529643 | 6_1:+12232395 | Msa0875530:CDS |
| ACGCTTAAACGATGCAACAT+CGG | 0.539685 | 6_1:+12232763 | Msa0875530:CDS |
| AAATCAAATGAATCCATGTC+CGG | 0.545425 | 6_1:-12232408 | Msa0875540:CDS |
| ACTACTTGAAACTCAAATGC+CGG | 0.562943 | 6_1:+12232389 | Msa0875530:CDS |
| GGCTGGAAACTCATTTCCAA+AGG | 0.566229 | 6_1:-12232138 | None:intergenic |
| TGGTCTCAATTCAATTACCA+AGG | 0.596923 | 6_1:+12232221 | Msa0875530:CDS |
| GCTGTTAGGAAAATGATGAA+AGG | 0.599623 | 6_1:+12232665 | Msa0875530:CDS |
| TACAGTTACAACATGCTCGA+CGG | 0.612372 | 6_1:+12232317 | Msa0875530:intron |
| TCAATGCTATTGAGAAAACA+TGG | 0.646799 | 6_1:+12232201 | Msa0875530:CDS |
| GCAGTGACGATGTGTTCTGA+AGG | 0.690924 | 6_1:+12232545 | Msa0875530:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATTTACTTACTAATGAC+AGG | - | chr6_1:12232465-12232484 | Msa0875540:intron | 20.0% |
| !! | AAAATCAAGTAAAGTATATG+TGG | + | chr6_1:12232636-12232655 | Msa0875530:CDS | 20.0% |
| ! | AATCACAAGAACTTTAACAT+TGG | - | chr6_1:12232162-12232181 | None:intergenic | 25.0% |
| ! | CAATTAAGAATTACAAACCT+TGG | - | chr6_1:12232241-12232260 | None:intergenic | 25.0% |
| ! | AAAAAGATTGAGACTTTCAT+AGG | - | chr6_1:12232275-12232294 | None:intergenic | 25.0% |
| ! | ATCAACAAATGGAATAATGA+AGG | + | chr6_1:12232568-12232587 | Msa0875530:CDS | 25.0% |
| !! | TTTACTTGATTTTCAGTGAA+TGG | - | chr6_1:12232629-12232648 | Msa0875540:intron | 25.0% |
| ! | ACAAAAAATCAATGAGCAAT+TGG | + | chr6_1:12232697-12232716 | Msa0875530:CDS | 25.0% |
| ! | CAAAAAATCAATGAGCAATT+GGG | + | chr6_1:12232698-12232717 | Msa0875530:CDS | 25.0% |
| ! | AAAAAATCAATGAGCAATTG+GGG | + | chr6_1:12232699-12232718 | Msa0875530:CDS | 25.0% |
| TCAATGCTATTGAGAAAACA+TGG | + | chr6_1:12232201-12232220 | Msa0875530:CDS | 30.0% | |
| ! | CTTTTGTGCTATCAAATTCA+TGG | - | chr6_1:12232352-12232371 | Msa0875540:CDS | 30.0% |
| ! | CATGAATTTGATAGCACAAA+AGG | + | chr6_1:12232350-12232369 | Msa0875530:CDS | 30.0% |
| !!! | ACAAAAGGTGCATTTTGATT+TGG | + | chr6_1:12232365-12232384 | Msa0875530:CDS | 30.0% |
| AAATCAAATGAATCCATGTC+CGG | - | chr6_1:12232411-12232430 | Msa0875540:CDS | 30.0% | |
| ATAATGAAGGCCATTGAAAA+TGG | + | chr6_1:12232581-12232600 | Msa0875530:CDS | 30.0% | |
| AAAAATCAATGAGCAATTGG+GGG | + | chr6_1:12232700-12232719 | Msa0875530:CDS | 30.0% | |
| ACAAGAACTTTAACATTGGC+TGG | - | chr6_1:12232158-12232177 | None:intergenic | 35.0% | |
| TGGTCTCAATTCAATTACCA+AGG | + | chr6_1:12232221-12232240 | Msa0875530:CDS | 35.0% | |
| ACTACTTGAAACTCAAATGC+CGG | + | chr6_1:12232389-12232408 | Msa0875530:CDS | 35.0% | |
| !! | TGTTCTGAAGGATCAACAAA+TGG | + | chr6_1:12232557-12232576 | Msa0875530:CDS | 35.0% |
| GCTGTTAGGAAAATGATGAA+AGG | + | chr6_1:12232665-12232684 | Msa0875530:CDS | 35.0% | |
| AATCATCTCTTGCCCTTATT+TGG | - | chr6_1:12232736-12232755 | Msa0875540:intron | 35.0% | |
| TACAGTTACAACATGCTCGA+CGG | + | chr6_1:12232317-12232336 | Msa0875530:intron | 40.0% | |
| ! | GTCACAAGCTCCATTTTCAA+TGG | - | chr6_1:12232594-12232613 | Msa0875540:intron | 40.0% |
| ATATGTGGCATCATGCTGTT+AGG | + | chr6_1:12232651-12232670 | Msa0875530:CDS | 40.0% | |
| GGTTGAAGGTAGCCAAATAA+GGG | + | chr6_1:12232721-12232740 | Msa0875530:CDS | 40.0% | |
| ACGCTTAAACGATGCAACAT+CGG | + | chr6_1:12232763-12232782 | Msa0875530:CDS | 40.0% | |
| AACGATGCAACATCGGAAAA+AGG | + | chr6_1:12232770-12232789 | Msa0875530:CDS | 40.0% | |
| GGCTGGAAACTCATTTCCAA+AGG | - | chr6_1:12232141-12232160 | None:intergenic | 45.0% | |
| TGAAACTCAAATGCCGGACA+TGG | + | chr6_1:12232395-12232414 | Msa0875530:CDS | 45.0% | |
| AATGAGCAATTGGGGGTTGA+AGG | + | chr6_1:12232707-12232726 | Msa0875530:CDS | 45.0% | |
| GGGTTGAAGGTAGCCAAATA+AGG | + | chr6_1:12232720-12232739 | Msa0875530:CDS | 45.0% | |
| GCAGTGACGATGTGTTCTGA+AGG | + | chr6_1:12232545-12232564 | Msa0875530:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 12232125 | 12232811 | 12232125 | ID=Msa0875530;Name=Msa0875530 |
| chr6_1 | mRNA | 12232125 | 12232811 | 12232125 | ID=Msa0875530-mRNA-1;Parent=Msa0875530;Name=Msa0875530-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|0|0|1|1|1|3|0|176 |
| chr6_1 | exon | 12232125 | 12232242 | 12232125 | ID=Msa0875530-mRNA-1:exon:3672;Parent=Msa0875530-mRNA-1 |
| chr6_1 | exon | 12232322 | 12232471 | 12232322 | ID=Msa0875530-mRNA-1:exon:3673;Parent=Msa0875530-mRNA-1 |
| chr6_1 | exon | 12232549 | 12232811 | 12232549 | ID=Msa0875530-mRNA-1:exon:3674;Parent=Msa0875530-mRNA-1 |
| chr6_1 | CDS | 12232125 | 12232242 | 12232125 | ID=Msa0875530-mRNA-1:cds;Parent=Msa0875530-mRNA-1 |
| chr6_1 | CDS | 12232322 | 12232471 | 12232322 | ID=Msa0875530-mRNA-1:cds;Parent=Msa0875530-mRNA-1 |
| chr6_1 | CDS | 12232549 | 12232811 | 12232549 | ID=Msa0875530-mRNA-1:cds;Parent=Msa0875530-mRNA-1 |
| Gene Sequence |
| Protein sequence |
