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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0715120 | XP_003611759.1 | 93.233 | 133 | 9 | 0 | 1 | 133 | 1 | 133 | 1.25e-81 | 248 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0715120 | sp|Q9ZQE6|CML30_ARATH | 39.286 | 140 | 72 | 3 | 1 | 133 | 1 | 134 | 1.09e-21 | 88.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0715120 | G7K7Z2 | 93.233 | 133 | 9 | 0 | 1 | 133 | 1 | 133 | 5.98e-82 | 248 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0714960 | Msa0715120 | 0.856292 | 3.551527e-62 | -8.615850e-47 |
| Msa0715110 | Msa0715120 | 0.857429 | 1.642535e-62 | -8.615850e-47 |
| Msa0715120 | Msa0715140 | 0.837693 | 4.470711e-57 | -8.615850e-47 |
| Msa0715120 | Msa0715150 | 0.835864 | 1.308874e-56 | -8.615850e-47 |
| Msa0715120 | Msa0737800 | 0.807790 | 4.256003e-50 | -8.615850e-47 |
| Msa0715120 | Msa0757050 | 0.862308 | 5.554384e-64 | -8.615850e-47 |
| Msa0715120 | Msa0765010 | 0.811314 | 7.450241e-51 | -8.615850e-47 |
| Msa0715120 | Msa0798030 | 0.852135 | 5.631989e-61 | -8.615850e-47 |
| Msa0715120 | Msa0798060 | 0.899739 | 1.469749e-77 | -8.615850e-47 |
| Msa0715120 | Msa0798070 | 0.863519 | 2.349718e-64 | -8.615850e-47 |
| Msa0715120 | Msa0817270 | 0.809474 | 1.858670e-50 | -8.615850e-47 |
| Msa0715120 | Msa0836620 | 0.902529 | 8.836455e-79 | -8.615850e-47 |
| Msa0715120 | Msa0836630 | 0.835922 | 1.265381e-56 | -8.615850e-47 |
| Msa0715120 | Msa0908170 | 0.826153 | 3.171889e-54 | -8.615850e-47 |
| Msa0715120 | Msa0959010 | 0.806537 | 7.838199e-50 | -8.615850e-47 |
| Msa0715120 | Msa0993530 | 0.800241 | 1.580862e-48 | -8.615850e-47 |
| Msa0715120 | Msa1221900 | 0.826286 | 2.947933e-54 | -8.615850e-47 |
| Msa0715120 | Msa1265070 | 0.801446 | 8.969529e-49 | -8.615850e-47 |
| Msa0715120 | Msa1337730 | 0.829492 | 4.995696e-55 | -8.615850e-47 |
| Msa0471790 | Msa0715120 | 0.801224 | 9.958269e-49 | -8.615850e-47 |
| Msa0288320 | Msa0715120 | 0.805026 | 1.628085e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0715120 | MtrunA17_Chr5g0402361 | 93.233 | 133 | 9 | 0 | 1 | 133 | 1 | 133 | 2.33e-83 | 248 |
| Msa0715120 | MtrunA17_Chr5g0402361 | 89.167 | 120 | 12 | 1 | 15 | 133 | 187 | 306 | 1.43e-68 | 210 |
| Msa0715120 | MtrunA17_Chr5g0402331 | 90.299 | 134 | 12 | 1 | 1 | 133 | 1 | 134 | 1.01e-81 | 238 |
| Msa0715120 | MtrunA17_Chr5g0402351 | 85.882 | 85 | 12 | 0 | 32 | 116 | 7 | 91 | 2.35e-47 | 148 |
| Msa0715120 | MtrunA17_Chr4g0044961 | 42.958 | 142 | 71 | 3 | 1 | 133 | 1 | 141 | 9.81e-26 | 96.3 |
| Msa0715120 | MtrunA17_Chr3g0111371 | 36.047 | 86 | 52 | 1 | 46 | 131 | 3 | 85 | 1.60e-12 | 60.5 |
| Msa0715120 | MtrunA17_Chr8g0392951 | 33.735 | 83 | 55 | 0 | 47 | 129 | 23 | 105 | 5.41e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0715120 | AT2G15680.1 | 39.286 | 140 | 72 | 3 | 1 | 133 | 1 | 134 | 1.11e-22 | 88.6 |
| Msa0715120 | AT1G76650.1 | 31.746 | 126 | 79 | 2 | 14 | 133 | 4 | 128 | 9.19e-13 | 62.4 |
| Msa0715120 | AT1G76650.3 | 31.746 | 126 | 79 | 2 | 14 | 133 | 4 | 128 | 9.19e-13 | 62.4 |
| Msa0715120 | AT5G42380.1 | 35.955 | 89 | 55 | 1 | 47 | 133 | 48 | 136 | 7.30e-12 | 60.1 |
| Msa0715120 | AT3G03400.1 | 39.535 | 86 | 47 | 2 | 52 | 133 | 9 | 93 | 1.31e-11 | 58.5 |
| Msa0715120 | AT5G37770.1 | 34.783 | 92 | 55 | 1 | 47 | 133 | 16 | 107 | 2.58e-11 | 58.2 |
| Msa0715120 | AT5G37770.2 | 34.783 | 92 | 55 | 1 | 47 | 133 | 16 | 107 | 2.58e-11 | 58.2 |
| Msa0715120 | AT3G50770.1 | 31.148 | 122 | 70 | 2 | 14 | 130 | 39 | 151 | 3.55e-11 | 58.5 |
| Msa0715120 | AT1G24620.1 | 39.326 | 89 | 51 | 2 | 48 | 134 | 37 | 124 | 4.62e-11 | 58.2 |
| Msa0715120 | AT1G18210.2 | 34.940 | 83 | 51 | 1 | 47 | 129 | 22 | 101 | 5.80e-11 | 57.4 |
| Msa0715120 | AT1G18210.1 | 34.940 | 83 | 51 | 1 | 47 | 129 | 22 | 101 | 5.80e-11 | 57.4 |
| Msa0715120 | AT1G76640.1 | 37.143 | 105 | 62 | 2 | 33 | 133 | 6 | 110 | 5.96e-11 | 57.4 |
Find 28 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATAGACTTTAAAGAGTTTA+TGG | 0.095878 | 5_1:+8020385 | Msa0715120:CDS |
| CATTTCATTTCATCTTTCTT+TGG | 0.177414 | 5_1:-8020218 | None:intergenic |
| TTTCAAGTATTTGATATAAA+TGG | 0.216373 | 5_1:+8020461 | Msa0715120:CDS |
| TGATGCAGTGAAAGCATTTA+AGG | 0.222047 | 5_1:+8020337 | Msa0715120:CDS |
| CTTTGGTTGGAAACTCATTT+CGG | 0.311430 | 5_1:-8020201 | None:intergenic |
| AAAAGCTACCATGAAACTTT+AGG | 0.342938 | 5_1:-8020106 | None:intergenic |
| TTGAGTTTCCTAAAGTTTCA+TGG | 0.347349 | 5_1:+8020098 | Msa0715120:CDS |
| CAAAGAAAGATGAAATGAAA+TGG | 0.359646 | 5_1:+8020219 | Msa0715120:CDS |
| TATTTGATATAAATGGTGAT+TGG | 0.392990 | 5_1:+8020468 | Msa0715120:CDS |
| GCTGCAAAAGCTTTGGATAA+GGG | 0.402200 | 5_1:+8020302 | Msa0715120:CDS |
| TAAAGCAGCTGCAAAAGCTT+TGG | 0.411228 | 5_1:+8020295 | Msa0715120:CDS |
| ATTTGATATAAATGGTGATT+GGG | 0.419765 | 5_1:+8020469 | Msa0715120:CDS |
| TCATTTCATCTTTCTTTGGT+TGG | 0.424902 | 5_1:-8020214 | None:intergenic |
| AAGCTTTGGATAAGGGGATT+GGG | 0.425029 | 5_1:+8020309 | Msa0715120:CDS |
| AGCTGCAAAAGCTTTGGATA+AGG | 0.434736 | 5_1:+8020301 | Msa0715120:CDS |
| CAAAGATGGCAAGATTAGTC+TGG | 0.440035 | 5_1:+8020265 | Msa0715120:CDS |
| AAAGCTTTGGATAAGGGGAT+TGG | 0.463563 | 5_1:+8020308 | Msa0715120:CDS |
| AAAGAAAGATGAAATGAAAT+GGG | 0.477872 | 5_1:+8020220 | Msa0715120:CDS |
| GAGTTTATGGAAATGTTCAA+TGG | 0.480442 | 5_1:+8020398 | Msa0715120:CDS |
| CTGCAAAAGCTTTGGATAAG+GGG | 0.499395 | 5_1:+8020303 | Msa0715120:CDS |
| GCCATCTTTGTCAGAGTCCA+TGG | 0.508786 | 5_1:-8020360 | None:intergenic |
| AGCTTTGGATAAGGGGATTG+GGG | 0.547088 | 5_1:+8020310 | Msa0715120:CDS |
| ATGGAAATGTTCAATGGAGA+GGG | 0.552020 | 5_1:+8020404 | Msa0715120:CDS |
| GGGTAGTAAGATAAAAGAAG+AGG | 0.559838 | 5_1:+8020424 | Msa0715120:CDS |
| TATGGAAATGTTCAATGGAG+AGG | 0.569106 | 5_1:+8020403 | Msa0715120:CDS |
| AAATTCGACACAAACAAAGA+TGG | 0.592536 | 5_1:+8020251 | Msa0715120:CDS |
| AGTGAAAGCATTTAAGGCCA+TGG | 0.601115 | 5_1:+8020343 | Msa0715120:CDS |
| GCCATGGACTCTGACAAAGA+TGG | 0.639323 | 5_1:+8020359 | Msa0715120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTCAAGTATTTGATATAAA+TGG | + | chr5_1:8020461-8020480 | Msa0715120:CDS | 15.0% |
| !! | AAAGAAAGATGAAATGAAAT+GGG | + | chr5_1:8020220-8020239 | Msa0715120:CDS | 20.0% |
| !! | TATTTGATATAAATGGTGAT+TGG | + | chr5_1:8020468-8020487 | Msa0715120:CDS | 20.0% |
| !! | ATTTGATATAAATGGTGATT+GGG | + | chr5_1:8020469-8020488 | Msa0715120:CDS | 20.0% |
| !!! | TTTTGAGCTATATTTTTTCG+TGG | - | chr5_1:8020149-8020168 | None:intergenic | 25.0% |
| ! | CATTTCATTTCATCTTTCTT+TGG | - | chr5_1:8020221-8020240 | None:intergenic | 25.0% |
| ! | CAAAGAAAGATGAAATGAAA+TGG | + | chr5_1:8020219-8020238 | Msa0715120:CDS | 25.0% |
| !! | CATAGACTTTAAAGAGTTTA+TGG | + | chr5_1:8020385-8020404 | Msa0715120:CDS | 25.0% |
| TTGAGTTTCCTAAAGTTTCA+TGG | + | chr5_1:8020098-8020117 | Msa0715120:CDS | 30.0% | |
| AAAAGCTACCATGAAACTTT+AGG | - | chr5_1:8020109-8020128 | None:intergenic | 30.0% | |
| !!! | ATATTTTTTCGTGGAGATGT+TGG | - | chr5_1:8020140-8020159 | None:intergenic | 30.0% |
| TCATTTCATCTTTCTTTGGT+TGG | - | chr5_1:8020217-8020236 | None:intergenic | 30.0% | |
| AAATTCGACACAAACAAAGA+TGG | + | chr5_1:8020251-8020270 | Msa0715120:CDS | 30.0% | |
| GAGTTTATGGAAATGTTCAA+TGG | + | chr5_1:8020398-8020417 | Msa0715120:CDS | 30.0% | |
| CTTTGGTTGGAAACTCATTT+CGG | - | chr5_1:8020204-8020223 | None:intergenic | 35.0% | |
| !! | TGATGCAGTGAAAGCATTTA+AGG | + | chr5_1:8020337-8020356 | Msa0715120:CDS | 35.0% |
| TATGGAAATGTTCAATGGAG+AGG | + | chr5_1:8020403-8020422 | Msa0715120:CDS | 35.0% | |
| ATGGAAATGTTCAATGGAGA+GGG | + | chr5_1:8020404-8020423 | Msa0715120:CDS | 35.0% | |
| GGGTAGTAAGATAAAAGAAG+AGG | + | chr5_1:8020424-8020443 | Msa0715120:CDS | 35.0% | |
| ! | CAAAGATGGCAAGATTAGTC+TGG | + | chr5_1:8020265-8020284 | Msa0715120:CDS | 40.0% |
| TAAAGCAGCTGCAAAAGCTT+TGG | + | chr5_1:8020295-8020314 | Msa0715120:CDS | 40.0% | |
| !! | AGCTGCAAAAGCTTTGGATA+AGG | + | chr5_1:8020301-8020320 | Msa0715120:CDS | 40.0% |
| !! | GCTGCAAAAGCTTTGGATAA+GGG | + | chr5_1:8020302-8020321 | Msa0715120:CDS | 40.0% |
| !! | CTGCAAAAGCTTTGGATAAG+GGG | + | chr5_1:8020303-8020322 | Msa0715120:CDS | 40.0% |
| !! | AAAGCTTTGGATAAGGGGAT+TGG | + | chr5_1:8020308-8020327 | Msa0715120:CDS | 40.0% |
| !! | AAGCTTTGGATAAGGGGATT+GGG | + | chr5_1:8020309-8020328 | Msa0715120:CDS | 40.0% |
| !! | AGTGAAAGCATTTAAGGCCA+TGG | + | chr5_1:8020343-8020362 | Msa0715120:CDS | 40.0% |
| !! | TTTTCGTGGAGATGTTGGCT+TGG | - | chr5_1:8020135-8020154 | None:intergenic | 45.0% |
| !! | AGCTTTGGATAAGGGGATTG+GGG | + | chr5_1:8020310-8020329 | Msa0715120:CDS | 45.0% |
| GCCATGGACTCTGACAAAGA+TGG | + | chr5_1:8020359-8020378 | Msa0715120:CDS | 50.0% | |
| GCCATCTTTGTCAGAGTCCA+TGG | - | chr5_1:8020363-8020382 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 8020089 | 8020499 | 8020089 | ID=Msa0715120;Name=Msa0715120 |
| chr5_1 | mRNA | 8020089 | 8020499 | 8020089 | ID=Msa0715120-mRNA-1;Parent=Msa0715120;Name=Msa0715120-mRNA-1;_AED=0.34;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|136 |
| chr5_1 | exon | 8020089 | 8020499 | 8020089 | ID=Msa0715120-mRNA-1:exon:3322;Parent=Msa0715120-mRNA-1 |
| chr5_1 | CDS | 8020089 | 8020499 | 8020089 | ID=Msa0715120-mRNA-1:cds;Parent=Msa0715120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
