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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1198220 | KEH20116.1 | 95.146 | 103 | 5 | 0 | 1 | 103 | 277 | 379 | 1.36e-61 | 202 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1198220 | sp|Q6DYE5|U496K_ARATH | 60.417 | 96 | 35 | 1 | 4 | 99 | 294 | 386 | 1.86e-32 | 119 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0431690 | Msa1198220 | 0.811371 | 7.240504e-51 | -8.615850e-47 |
| Msa1198210 | Msa1198220 | 0.955877 | 1.098056e-113 | -8.615850e-47 |
| Msa1198220 | Msa1198230 | 0.988164 | 5.892080e-173 | -8.615850e-47 |
| Msa1198220 | Msa1292400 | 0.834722 | 2.543567e-56 | -8.615850e-47 |
| Msa1198220 | Msa1407600 | 0.806266 | 8.943361e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1198220 | MtrunA17_Chr8g0367331 | 95.146 | 103 | 5 | 0 | 1 | 103 | 273 | 375 | 1.38e-65 | 202 |
| Msa1198220 | MtrunA17_Chr1g0157041 | 89.000 | 100 | 10 | 1 | 1 | 100 | 267 | 365 | 1.40e-52 | 168 |
| Msa1198220 | MtrunA17_Chr3g0143271 | 66.000 | 100 | 32 | 1 | 3 | 100 | 275 | 374 | 4.01e-40 | 136 |
| Msa1198220 | MtrunA17_Chr1g0202781 | 48.421 | 95 | 48 | 1 | 4 | 98 | 267 | 360 | 2.26e-21 | 86.3 |
| Msa1198220 | MtrunA17_Chr7g0252311 | 32.653 | 98 | 63 | 2 | 3 | 100 | 281 | 375 | 8.67e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1198220 | AT1G20180.2 | 60.417 | 96 | 35 | 1 | 4 | 99 | 263 | 355 | 1.24e-33 | 119 |
| Msa1198220 | AT1G20180.1 | 60.417 | 96 | 35 | 1 | 4 | 99 | 294 | 386 | 1.89e-33 | 119 |
| Msa1198220 | AT3G49070.1 | 46.392 | 97 | 51 | 1 | 4 | 100 | 304 | 399 | 2.09e-22 | 90.1 |
| Msa1198220 | AT3G49070.2 | 46.392 | 97 | 51 | 1 | 4 | 100 | 264 | 359 | 3.04e-22 | 89.4 |
| Msa1198220 | AT3G19330.4 | 33.684 | 95 | 61 | 1 | 4 | 98 | 280 | 372 | 1.45e-12 | 62.4 |
| Msa1198220 | AT3G19330.1 | 33.684 | 95 | 61 | 1 | 4 | 98 | 280 | 372 | 1.45e-12 | 62.4 |
| Msa1198220 | AT3G19330.3 | 33.684 | 95 | 61 | 1 | 4 | 98 | 248 | 340 | 1.72e-12 | 62.0 |
| Msa1198220 | AT3G19330.2 | 33.684 | 95 | 61 | 1 | 4 | 98 | 248 | 340 | 1.79e-12 | 62.0 |
Find 13 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACAGAGATAAATAAATAA+AGG | 0.327973 | 8_1:+49570406 | Msa1198220:CDS |
| GTAAATGTGAAATATTGAAT+AGG | 0.374037 | 8_1:+49570262 | Msa1198220:CDS |
| CAACTTGATGCTGCTGCAAA+AGG | 0.382116 | 8_1:+49570123 | Msa1198220:CDS |
| TTCTTACCATCAACAAATCT+AGG | 0.393202 | 8_1:+49570364 | Msa1198220:CDS |
| AAGTCTCCTAGATTTGTTGA+TGG | 0.411298 | 8_1:-49570370 | None:intergenic |
| AACTTGATGCTGCTGCAAAA+GGG | 0.438252 | 8_1:+49570124 | Msa1198220:CDS |
| TAAATGTGAAATATTGAATA+GGG | 0.473542 | 8_1:+49570263 | Msa1198220:CDS |
| ACTTGATGCTGCTGCAAAAG+GGG | 0.547139 | 8_1:+49570125 | Msa1198220:CDS |
| CTATGAGTAGGATGGTGAAG+AGG | 0.584575 | 8_1:+49570175 | Msa1198220:CDS |
| ATGATTTGGATACTATGAGT+AGG | 0.598596 | 8_1:+49570163 | Msa1198220:CDS |
| GTTTGTGTGAAGAATAATGT+TGG | 0.598996 | 8_1:+49570237 | Msa1198220:CDS |
| GAAGAGGTTGAATGATGAAG+TGG | 0.627772 | 8_1:+49570191 | Msa1198220:CDS |
| TTTGGATACTATGAGTAGGA+TGG | 0.662243 | 8_1:+49570167 | Msa1198220:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTATATTGATAAATGATT+TGG | + | chr8_1:49570149-49570168 | Msa1198220:CDS | 10.0% |
| !! | TAAATGTGAAATATTGAATA+GGG | + | chr8_1:49570263-49570282 | Msa1198220:CDS | 15.0% |
| !! | GTAAATGTGAAATATTGAAT+AGG | + | chr8_1:49570262-49570281 | Msa1198220:CDS | 20.0% |
| ! | ATGATTTGGATACTATGAGT+AGG | + | chr8_1:49570163-49570182 | Msa1198220:CDS | 30.0% |
| TGAAGTGGAACATAGAAAAA+TGG | + | chr8_1:49570206-49570225 | Msa1198220:CDS | 30.0% | |
| GTTTGTGTGAAGAATAATGT+TGG | + | chr8_1:49570237-49570256 | Msa1198220:CDS | 30.0% | |
| TTCTTACCATCAACAAATCT+AGG | + | chr8_1:49570364-49570383 | Msa1198220:CDS | 30.0% | |
| TTTGGATACTATGAGTAGGA+TGG | + | chr8_1:49570167-49570186 | Msa1198220:CDS | 35.0% | |
| !!! | AGATCAAGAGTCTAGCTTTT+TGG | + | chr8_1:49570302-49570321 | Msa1198220:CDS | 35.0% |
| !! | AAGTCTCCTAGATTTGTTGA+TGG | - | chr8_1:49570373-49570392 | None:intergenic | 35.0% |
| AACTTGATGCTGCTGCAAAA+GGG | + | chr8_1:49570124-49570143 | Msa1198220:CDS | 40.0% | |
| GAAGAGGTTGAATGATGAAG+TGG | + | chr8_1:49570191-49570210 | Msa1198220:CDS | 40.0% | |
| !!! | GTCTAGCTTTTTGGATCAGT+TGG | + | chr8_1:49570311-49570330 | Msa1198220:CDS | 40.0% |
| CAACTTGATGCTGCTGCAAA+AGG | + | chr8_1:49570123-49570142 | Msa1198220:CDS | 45.0% | |
| ACTTGATGCTGCTGCAAAAG+GGG | + | chr8_1:49570125-49570144 | Msa1198220:CDS | 45.0% | |
| CTATGAGTAGGATGGTGAAG+AGG | + | chr8_1:49570175-49570194 | Msa1198220:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 49570114 | 49570425 | 49570114 | ID=Msa1198220;Name=Msa1198220 |
| chr8_1 | mRNA | 49570114 | 49570425 | 49570114 | ID=Msa1198220-mRNA-1;Parent=Msa1198220;Name=Msa1198220-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|103 |
| chr8_1 | exon | 49570114 | 49570425 | 49570114 | ID=Msa1198220-mRNA-1:exon:15516;Parent=Msa1198220-mRNA-1 |
| chr8_1 | CDS | 49570114 | 49570425 | 49570114 | ID=Msa1198220-mRNA-1:cds;Parent=Msa1198220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
