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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0977260 | XP_013451230.1 | 91.124 | 169 | 14 | 1 | 4 | 171 | 3 | 171 | 8.10e-110 | 320 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0977260 | sp|Q5N6V8|ORR26_ORYSJ | 36.691 | 139 | 86 | 2 | 7 | 144 | 3 | 140 | 8.16e-26 | 106 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0977260 | A0A072UHJ5 | 91.124 | 169 | 14 | 1 | 4 | 171 | 3 | 171 | 3.87e-110 | 320 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0977260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0977260 | MtrunA17_Chr6g0456631 | 91.124 | 169 | 14 | 1 | 4 | 171 | 3 | 171 | 7.45e-114 | 320 |
| Msa0977260 | MtrunA17_Chr8g0391911 | 88.889 | 162 | 18 | 0 | 4 | 165 | 3 | 164 | 1.92e-105 | 302 |
| Msa0977260 | MtrunA17_Chr4g0009901 | 47.826 | 161 | 83 | 1 | 1 | 161 | 1 | 160 | 4.52e-46 | 152 |
| Msa0977260 | MtrunA17_Chr8g0383961 | 52.448 | 143 | 62 | 3 | 1 | 138 | 1 | 142 | 9.76e-45 | 148 |
| Msa0977260 | MtrunA17_Chr4g0009851 | 44.720 | 161 | 87 | 2 | 1 | 160 | 1 | 160 | 8.21e-44 | 147 |
| Msa0977260 | MtrunA17_Chr1g0161431 | 36.257 | 171 | 107 | 2 | 2 | 171 | 3 | 172 | 1.07e-31 | 119 |
| Msa0977260 | MtrunA17_Chr6g0471041 | 40.625 | 160 | 92 | 3 | 5 | 162 | 9 | 167 | 1.10e-30 | 115 |
| Msa0977260 | MtrunA17_Chr3g0123131 | 38.931 | 131 | 78 | 2 | 3 | 132 | 6 | 135 | 6.69e-28 | 108 |
| Msa0977260 | MtrunA17_Chr8g0376881 | 35.294 | 153 | 97 | 2 | 10 | 161 | 25 | 176 | 7.33e-27 | 105 |
| Msa0977260 | MtrunA17_Chr1g0149851 | 35.366 | 164 | 103 | 3 | 8 | 170 | 3 | 164 | 1.60e-25 | 102 |
| Msa0977260 | MtrunA17_Chr4g0067981 | 37.342 | 158 | 91 | 6 | 7 | 160 | 28 | 181 | 4.69e-25 | 100 |
| Msa0977260 | MtrunA17_Chr2g0294911 | 34.839 | 155 | 99 | 2 | 7 | 160 | 26 | 179 | 9.75e-25 | 99.8 |
| Msa0977260 | MtrunA17_Chr3g0137101 | 33.728 | 169 | 106 | 3 | 7 | 170 | 5 | 172 | 1.26e-24 | 99.8 |
| Msa0977260 | MtrunA17_Chr4g0010001 | 48.315 | 89 | 46 | 0 | 1 | 89 | 1 | 89 | 1.28e-24 | 91.7 |
| Msa0977260 | MtrunA17_Chr1g0149841 | 38.889 | 126 | 75 | 2 | 8 | 132 | 3 | 127 | 2.22e-24 | 98.6 |
| Msa0977260 | MtrunA17_Chr7g0275891 | 37.008 | 127 | 77 | 2 | 8 | 132 | 3 | 128 | 2.45e-24 | 97.1 |
| Msa0977260 | MtrunA17_Chr5g0423031 | 49.438 | 89 | 45 | 0 | 1 | 89 | 1 | 89 | 5.92e-24 | 92.8 |
| Msa0977260 | MtrunA17_Chr4g0074401 | 32.749 | 171 | 108 | 3 | 6 | 175 | 13 | 177 | 6.52e-23 | 94.7 |
| Msa0977260 | MtrunA17_Chr4g0011071 | 39.623 | 106 | 63 | 1 | 55 | 160 | 35 | 139 | 9.11e-23 | 89.4 |
| Msa0977260 | MtrunA17_Chr3g0134481 | 32.903 | 155 | 94 | 3 | 6 | 151 | 4 | 157 | 1.85e-21 | 86.3 |
| Msa0977260 | MtrunA17_Chr4g0074411 | 31.138 | 167 | 108 | 3 | 10 | 175 | 18 | 178 | 2.15e-21 | 90.5 |
| Msa0977260 | MtrunA17_Chr4g0009981 | 41.176 | 102 | 59 | 1 | 59 | 160 | 7 | 107 | 4.20e-21 | 87.0 |
| Msa0977260 | MtrunA17_Chr7g0275401 | 35.714 | 126 | 79 | 2 | 8 | 132 | 3 | 127 | 1.16e-20 | 86.3 |
| Msa0977260 | MtrunA17_Chr2g0304841 | 33.333 | 126 | 82 | 2 | 8 | 132 | 16 | 140 | 3.98e-20 | 86.7 |
| Msa0977260 | MtrunA17_Chr3g0134461 | 34.483 | 145 | 85 | 4 | 7 | 149 | 5 | 141 | 2.96e-19 | 80.9 |
| Msa0977260 | MtrunA17_Chr4g0074421 | 30.769 | 117 | 75 | 2 | 59 | 175 | 2 | 112 | 1.19e-14 | 68.6 |
| Msa0977260 | MtrunA17_Chr8g0350761 | 32.500 | 120 | 80 | 1 | 12 | 130 | 19 | 138 | 1.26e-14 | 70.9 |
| Msa0977260 | MtrunA17_Chr8g0345901 | 34.677 | 124 | 76 | 4 | 13 | 132 | 35 | 157 | 4.55e-13 | 66.2 |
| Msa0977260 | MtrunA17_Chr1g0149831 | 41.538 | 65 | 37 | 1 | 68 | 132 | 1 | 64 | 8.62e-12 | 61.6 |
| Msa0977260 | MtrunA17_Chr4g0030271 | 32.520 | 123 | 78 | 4 | 14 | 132 | 89 | 210 | 2.03e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0977260 | AT1G67710.1 | 35.915 | 142 | 86 | 3 | 11 | 151 | 8 | 145 | 2.50e-26 | 104 |
| Msa0977260 | AT2G01760.1 | 36.879 | 141 | 86 | 3 | 8 | 146 | 5 | 144 | 3.00e-26 | 103 |
| Msa0977260 | AT3G16857.2 | 36.290 | 124 | 77 | 2 | 10 | 132 | 33 | 155 | 2.00e-22 | 93.6 |
| Msa0977260 | AT3G16857.1 | 36.290 | 124 | 77 | 2 | 10 | 132 | 33 | 155 | 1.71e-21 | 90.9 |
| Msa0977260 | AT4G31920.1 | 35.200 | 125 | 79 | 2 | 8 | 131 | 11 | 134 | 2.20e-21 | 90.5 |
| Msa0977260 | AT2G25180.1 | 29.586 | 169 | 111 | 3 | 8 | 175 | 11 | 172 | 3.71e-21 | 90.1 |
| Msa0977260 | AT2G01760.2 | 30.769 | 169 | 86 | 4 | 8 | 146 | 5 | 172 | 8.22e-21 | 88.6 |
| Msa0977260 | AT5G49240.1 | 29.114 | 158 | 109 | 3 | 6 | 162 | 34 | 189 | 2.14e-19 | 83.2 |
| Msa0977260 | AT1G49190.1 | 31.783 | 129 | 86 | 2 | 5 | 132 | 25 | 152 | 3.15e-17 | 78.6 |
| Msa0977260 | AT1G49190.2 | 31.783 | 129 | 86 | 2 | 5 | 132 | 25 | 152 | 3.95e-17 | 78.6 |
| Msa0977260 | AT5G58080.1 | 31.250 | 160 | 104 | 4 | 8 | 166 | 12 | 166 | 1.88e-16 | 76.6 |
| Msa0977260 | AT3G62670.1 | 29.412 | 136 | 92 | 3 | 15 | 149 | 42 | 174 | 3.57e-15 | 72.8 |
| Msa0977260 | AT1G67710.2 | 36.905 | 84 | 49 | 2 | 68 | 151 | 1 | 80 | 1.01e-13 | 68.6 |
| Msa0977260 | AT3G16857.3 | 37.647 | 85 | 51 | 2 | 49 | 132 | 2 | 85 | 2.96e-13 | 67.4 |
| Msa0977260 | AT2G46790.1 | 31.008 | 129 | 83 | 5 | 10 | 133 | 32 | 159 | 1.08e-12 | 65.5 |
| Msa0977260 | AT2G46790.3 | 31.008 | 129 | 83 | 5 | 10 | 133 | 32 | 159 | 1.26e-12 | 65.5 |
| Msa0977260 | AT5G60100.2 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 8.56e-12 | 63.2 |
| Msa0977260 | AT5G60100.7 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.12e-11 | 62.4 |
| Msa0977260 | AT5G60100.6 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.12e-11 | 62.4 |
| Msa0977260 | AT5G60100.4 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.12e-11 | 62.4 |
| Msa0977260 | AT5G60100.5 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.32e-11 | 62.4 |
| Msa0977260 | AT5G60100.3 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.32e-11 | 62.4 |
| Msa0977260 | AT5G60100.1 | 33.065 | 124 | 78 | 4 | 13 | 132 | 63 | 185 | 1.32e-11 | 62.4 |
Find 23 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATCATCTCTTGCCCTTATT+TGG | 0.189913 | 6_4:-11970806 | None:intergenic |
| GGGTTGAAGGTAGCCAAATA+AGG | 0.310675 | 6_4:+11970793 | Msa0977260:CDS |
| AACGATGCAACATCGGAAAA+AGG | 0.322362 | 6_4:+11970843 | Msa0977260:CDS |
| ATAATGAAGGCCATTGAAAA+TGG | 0.335391 | 6_4:+11970654 | Msa0977260:CDS |
| CTTGAATTTGATAGCACAAA+AGG | 0.421977 | 6_4:+11970428 | Msa0977260:CDS |
| ACAAGAACTTTAACATTGGC+TGG | 0.429953 | 6_4:-11970233 | None:intergenic |
| ATATGTGGCATCATGCTGTT+AGG | 0.443627 | 6_4:+11970724 | Msa0977260:CDS |
| TATATTTACTTACTAATGAC+AGG | 0.483959 | 6_4:-11970540 | None:intergenic |
| TGTTCTGAAGGATCAACAAA+TGG | 0.496320 | 6_4:+11970630 | Msa0977260:CDS |
| ATCAACAAATGGAATAATGA+AGG | 0.507137 | 6_4:+11970641 | Msa0977260:CDS |
| GGTTGAAGGTAGCCAAATAA+GGG | 0.508208 | 6_4:+11970794 | Msa0977260:CDS |
| AAAATCAAGTAAAGTATATG+TGG | 0.524588 | 6_4:+11970709 | Msa0977260:CDS |
| AATCACAAGAACTTTAACAT+TGG | 0.529369 | 6_4:-11970237 | None:intergenic |
| TGAAACTCAAATGCCGGACA+TGG | 0.529643 | 6_4:+11970473 | Msa0977260:CDS |
| ACGCTTAAACGATGCAACAT+CGG | 0.539685 | 6_4:+11970836 | Msa0977260:CDS |
| AAATCAAATGAATCCATGTC+CGG | 0.545425 | 6_4:-11970486 | None:intergenic |
| GGCTGGAAACTCATTTGCAA+AGG | 0.548983 | 6_4:-11970216 | None:intergenic |
| ACTACTTGAAACTCAAATGC+CGG | 0.562943 | 6_4:+11970467 | Msa0977260:CDS |
| GCTGTTAGGAAAATTATGAA+AGG | 0.599623 | 6_4:+11970738 | Msa0977260:CDS |
| TGGTCTCGATTCAATTACCA+AGG | 0.605981 | 6_4:+11970299 | Msa0977260:CDS |
| TTCAGTTACAACATGCTCGA+CGG | 0.610352 | 6_4:+11970395 | Msa0977260:intron |
| TCAATGCTATTGAGAAAACA+TGG | 0.646799 | 6_4:+11970279 | Msa0977260:CDS |
| GCAGTGACGATGTGTTCTGA+AGG | 0.690924 | 6_4:+11970618 | Msa0977260:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATTTACTTACTAATGAC+AGG | - | chr6_4:11970543-11970562 | None:intergenic | 20.0% |
| !! | AAAATCAAGTAAAGTATATG+TGG | + | chr6_4:11970709-11970728 | Msa0977260:CDS | 20.0% |
| ! | AATCACAAGAACTTTAACAT+TGG | - | chr6_4:11970240-11970259 | None:intergenic | 25.0% |
| ! | CAATTAAGAATTACAAACCT+TGG | - | chr6_4:11970319-11970338 | None:intergenic | 25.0% |
| ! | AAAAAGATTGAGACTTTCAT+AGG | - | chr6_4:11970353-11970372 | None:intergenic | 25.0% |
| ! | ATCAACAAATGGAATAATGA+AGG | + | chr6_4:11970641-11970660 | Msa0977260:CDS | 25.0% |
| !! | TTTACTTGATTTTCAGTGAA+TGG | - | chr6_4:11970702-11970721 | None:intergenic | 25.0% |
| TCAATGCTATTGAGAAAACA+TGG | + | chr6_4:11970279-11970298 | Msa0977260:CDS | 30.0% | |
| ! | CTTTTGTGCTATCAAATTCA+AGG | - | chr6_4:11970430-11970449 | None:intergenic | 30.0% |
| ! | CTTGAATTTGATAGCACAAA+AGG | + | chr6_4:11970428-11970447 | Msa0977260:CDS | 30.0% |
| !!! | ACAAAAGGTGCATTTTGATT+TGG | + | chr6_4:11970443-11970462 | Msa0977260:CDS | 30.0% |
| AAATCAAATGAATCCATGTC+CGG | - | chr6_4:11970489-11970508 | None:intergenic | 30.0% | |
| ATAATGAAGGCCATTGAAAA+TGG | + | chr6_4:11970654-11970673 | Msa0977260:CDS | 30.0% | |
| GCTGTTAGGAAAATTATGAA+AGG | + | chr6_4:11970738-11970757 | Msa0977260:CDS | 30.0% | |
| ACAAAAAACCAATGAGCAAT+TGG | + | chr6_4:11970770-11970789 | Msa0977260:CDS | 30.0% | |
| CAAAAAACCAATGAGCAATT+GGG | + | chr6_4:11970771-11970790 | Msa0977260:CDS | 30.0% | |
| AAAAAACCAATGAGCAATTG+GGG | + | chr6_4:11970772-11970791 | Msa0977260:CDS | 30.0% | |
| ACAAGAACTTTAACATTGGC+TGG | - | chr6_4:11970236-11970255 | None:intergenic | 35.0% | |
| ACTACTTGAAACTCAAATGC+CGG | + | chr6_4:11970467-11970486 | Msa0977260:CDS | 35.0% | |
| !! | TGTTCTGAAGGATCAACAAA+TGG | + | chr6_4:11970630-11970649 | Msa0977260:CDS | 35.0% |
| AAAAACCAATGAGCAATTGG+GGG | + | chr6_4:11970773-11970792 | Msa0977260:CDS | 35.0% | |
| AATCATCTCTTGCCCTTATT+TGG | - | chr6_4:11970809-11970828 | None:intergenic | 35.0% | |
| TGGTCTCGATTCAATTACCA+AGG | + | chr6_4:11970299-11970318 | Msa0977260:CDS | 40.0% | |
| TTCAGTTACAACATGCTCGA+CGG | + | chr6_4:11970395-11970414 | Msa0977260:intron | 40.0% | |
| ! | GTCACAAGCTCCATTTTCAA+TGG | - | chr6_4:11970667-11970686 | None:intergenic | 40.0% |
| ATATGTGGCATCATGCTGTT+AGG | + | chr6_4:11970724-11970743 | Msa0977260:CDS | 40.0% | |
| GGTTGAAGGTAGCCAAATAA+GGG | + | chr6_4:11970794-11970813 | Msa0977260:CDS | 40.0% | |
| ACGCTTAAACGATGCAACAT+CGG | + | chr6_4:11970836-11970855 | Msa0977260:CDS | 40.0% | |
| AACGATGCAACATCGGAAAA+AGG | + | chr6_4:11970843-11970862 | Msa0977260:CDS | 40.0% | |
| GGCTGGAAACTCATTTGCAA+AGG | - | chr6_4:11970219-11970238 | None:intergenic | 45.0% | |
| TGAAACTCAAATGCCGGACA+TGG | + | chr6_4:11970473-11970492 | Msa0977260:CDS | 45.0% | |
| TTCAACCCCCAATTGCTCAT+TGG | - | chr6_4:11970781-11970800 | None:intergenic | 45.0% | |
| AATGAGCAATTGGGGGTTGA+AGG | + | chr6_4:11970780-11970799 | Msa0977260:CDS | 45.0% | |
| GGGTTGAAGGTAGCCAAATA+AGG | + | chr6_4:11970793-11970812 | Msa0977260:CDS | 45.0% | |
| GCAGTGACGATGTGTTCTGA+AGG | + | chr6_4:11970618-11970637 | Msa0977260:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 11970203 | 11970884 | 11970203 | ID=Msa0977260;Name=Msa0977260 |
| chr6_4 | mRNA | 11970203 | 11970884 | 11970203 | ID=Msa0977260-mRNA-1;Parent=Msa0977260;Name=Msa0977260-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0|0|0|1|1|1|3|0|176 |
| chr6_4 | exon | 11970203 | 11970320 | 11970203 | ID=Msa0977260-mRNA-1:exon:4221;Parent=Msa0977260-mRNA-1 |
| chr6_4 | exon | 11970400 | 11970549 | 11970400 | ID=Msa0977260-mRNA-1:exon:4222;Parent=Msa0977260-mRNA-1 |
| chr6_4 | exon | 11970622 | 11970884 | 11970622 | ID=Msa0977260-mRNA-1:exon:4223;Parent=Msa0977260-mRNA-1 |
| chr6_4 | CDS | 11970203 | 11970320 | 11970203 | ID=Msa0977260-mRNA-1:cds;Parent=Msa0977260-mRNA-1 |
| chr6_4 | CDS | 11970400 | 11970549 | 11970400 | ID=Msa0977260-mRNA-1:cds;Parent=Msa0977260-mRNA-1 |
| chr6_4 | CDS | 11970622 | 11970884 | 11970622 | ID=Msa0977260-mRNA-1:cds;Parent=Msa0977260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
