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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1209610 | XP_013457768.1 | 95.263 | 190 | 7 | 1 | 1 | 190 | 1 | 188 | 1.56e-122 | 353 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1209610 | sp|Q9FML4|LOB_ARATH | 68.333 | 180 | 45 | 3 | 1 | 171 | 1 | 177 | 1.76e-77 | 232 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1209610 | Msa1246080 | 0.946277 | 6.268399e-105 | -8.615850e-47 |
| Msa1209610 | Msa1298850 | 0.877354 | 6.722559e-69 | -8.615850e-47 |
| Msa1209610 | Msa1330510 | 0.813808 | 2.121824e-51 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1209610 | MtrunA17_Chr4g0058651 | 95.263 | 190 | 7 | 1 | 1 | 190 | 1 | 188 | 1.43e-126 | 353 |
| Msa1209610 | MtrunA17_Chr3g0117121 | 72.881 | 177 | 46 | 2 | 3 | 178 | 2 | 177 | 8.72e-86 | 251 |
| Msa1209610 | MtrunA17_Chr7g0227511 | 62.234 | 188 | 54 | 4 | 1 | 188 | 1 | 171 | 1.17e-72 | 217 |
| Msa1209610 | MtrunA17_Chr6g0449641 | 82.301 | 113 | 18 | 1 | 1 | 113 | 1 | 111 | 2.86e-65 | 197 |
| Msa1209610 | MtrunA17_Chr6g0449651 | 79.130 | 115 | 22 | 1 | 1 | 115 | 59 | 171 | 1.95e-63 | 194 |
| Msa1209610 | MtrunA17_Chr8g0353981 | 66.917 | 133 | 40 | 1 | 1 | 133 | 1 | 129 | 9.90e-54 | 171 |
| Msa1209610 | MtrunA17_Chr5g0437571 | 64.957 | 117 | 38 | 1 | 9 | 122 | 4 | 120 | 1.45e-50 | 160 |
| Msa1209610 | MtrunA17_Chr5g0402611 | 69.091 | 110 | 34 | 0 | 5 | 114 | 2 | 111 | 3.88e-50 | 164 |
| Msa1209610 | MtrunA17_Chr3g0115431 | 64.754 | 122 | 43 | 0 | 5 | 126 | 3 | 124 | 4.69e-50 | 161 |
| Msa1209610 | MtrunA17_Chr3g0097221 | 65.179 | 112 | 39 | 0 | 6 | 117 | 2 | 113 | 3.89e-48 | 158 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1209610 | AT5G63090.4 | 68.333 | 180 | 45 | 3 | 1 | 171 | 1 | 177 | 1.78e-78 | 232 |
| Msa1209610 | AT5G63090.3 | 68.333 | 180 | 45 | 3 | 1 | 171 | 1 | 177 | 1.78e-78 | 232 |
| Msa1209610 | AT5G63090.2 | 68.333 | 180 | 45 | 3 | 1 | 171 | 1 | 177 | 1.78e-78 | 232 |
| Msa1209610 | AT5G63090.1 | 68.333 | 180 | 45 | 3 | 1 | 171 | 1 | 177 | 1.78e-78 | 232 |
| Msa1209610 | AT3G27650.1 | 78.182 | 110 | 24 | 0 | 5 | 114 | 33 | 142 | 3.30e-62 | 190 |
| Msa1209610 | AT1G65620.1 | 68.217 | 129 | 39 | 1 | 1 | 129 | 1 | 127 | 1.60e-52 | 167 |
| Msa1209610 | AT1G65620.4 | 68.217 | 129 | 39 | 1 | 1 | 129 | 1 | 127 | 1.60e-52 | 167 |
| Msa1209610 | AT1G65620.3 | 68.217 | 129 | 39 | 1 | 1 | 129 | 1 | 127 | 1.60e-52 | 167 |
| Msa1209610 | AT1G65620.5 | 68.217 | 129 | 39 | 1 | 1 | 129 | 1 | 127 | 1.60e-52 | 167 |
| Msa1209610 | AT1G65620.2 | 68.217 | 129 | 39 | 1 | 1 | 129 | 1 | 127 | 1.60e-52 | 167 |
Find 55 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAAGAATAAGTAGTAGT+AGG | 0.401220 | 8_1:-68195445 | None:intergenic |
| AAGAATTTGCAGGCAGCACA+AGG | 0.573114 | 8_1:-68195010 | None:intergenic |
| ACAAGGTGAATTGTATGCGC+TGG | 0.642277 | 8_1:-68194993 | None:intergenic |
| ACAAGTTCAAAGGCTTCAAA+AGG | 0.500774 | 8_1:+68195264 | Msa1209610:CDS |
| ACAGAAAGAGAGGCTGGAGG+AGG | 0.555018 | 8_1:-68195343 | None:intergenic |
| ACCTTCACTCATATCCACTG+AGG | 0.758906 | 8_1:-68195497 | None:intergenic |
| ACGAACTCCTCCCTCACCAA+AGG | 0.580542 | 8_1:+68195149 | Msa1209610:CDS |
| ACGAAGCCGAAGCACGAGTT+AGG | 0.305462 | 8_1:+68195197 | Msa1209610:CDS |
| ACTCCTCCCTCACCAAAGGG+AGG | 0.660217 | 8_1:+68195153 | Msa1209610:CDS |
| ACTGAGGAAGTATCAGTCCA+AGG | 0.638918 | 8_1:-68195481 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GCAAACGTACACAAAATATT+TGG | + | chr8_1:68195100-68195119 | Msa1209610:CDS | 30.0% | |
| TTGTCTTTGTAGAAAAGAGA+TGG | - | chr8_1:68195248-68195267 | None:intergenic | 30.0% | |
| TTCTACAAAGACAAGTTCAA+AGG | + | chr8_1:68195254-68195273 | Msa1209610:CDS | 30.0% | |
| AGTTTAGTGGAAGAAATGAA+GGG | + | chr8_1:68195407-68195426 | Msa1209610:CDS | 30.0% | |
| ACAAGTTCAAAGGCTTCAAA+AGG | + | chr8_1:68195264-68195283 | Msa1209610:CDS | 35.0% | |
| CTAAACTGTCTTTGTGGAAT+TGG | - | chr8_1:68195394-68195413 | None:intergenic | 35.0% | |
| ATTCCACAAAGACAGTTTAG+TGG | + | chr8_1:68195394-68195413 | Msa1209610:CDS | 35.0% | |
| CAGTTTAGTGGAAGAAATGA+AGG | + | chr8_1:68195406-68195425 | Msa1209610:CDS | 35.0% | |
| CTTTACCTTATTCTCTTCCT+TGG | + | chr8_1:68195464-68195483 | Msa1209610:CDS | 35.0% | |
| GATCCAGTTTATGGATGTGT+AGG | + | chr8_1:68195220-68195239 | Msa1209610:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 68194980 | 68195552 | 68194980 | ID=Msa1209610;Name=Msa1209610 |
| chr8_1 | mRNA | 68194980 | 68195552 | 68194980 | ID=Msa1209610-mRNA-1;Parent=Msa1209610;Name=Msa1209610-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|190 |
| chr8_1 | exon | 68194980 | 68195552 | 68194980 | ID=Msa1209610-mRNA-1:exon:22660;Parent=Msa1209610-mRNA-1 |
| chr8_1 | CDS | 68194980 | 68195552 | 68194980 | ID=Msa1209610-mRNA-1:cds;Parent=Msa1209610-mRNA-1 |
| Gene Sequence |
>Msa1209610 ATGGCATCATCATCCAGCGCATACAATTCACCTTGTGCTGCCTGCAAATTCTTGAGGAGAAAATGCATGCCAGGTTGCATCTTTGCACCTTACTTCCCTCCAGAAGAGCCTCAAAAATTTGCAAACGTACACAAAATATTTGGTGCTAGCAATGTCACAAAGCTTCTCAACGAACTCCTCCCTCACCAAAGGGAGGATGCAGTTAACTCACTTGCTTACGAAGCCGAAGCACGAGTTAGGGATCCAGTTTATGGATGTGTAGGAGCCATCTCTTTTCTACAAAGACAAGTTCAAAGGCTTCAAAAGGAACTCGACGCTGCTAACACCGATCTTCTTCGCTATACCCTCACCGATATCCCTCCACCTCCTCCAGCCTCTCTTTCTGTGCCTCAAGGAATGATATCAGTCCAACCAATTCCACAAAGACAGTTTAGTGGAAGAAATGAAGGGCTTTATAGACAATCTCCTACTACTACTTATTCTTCTTTACCTTATTCTCTTCCTTGGACTGATACTTCCTCAGTGGATATGAGTGAAGGTGGAGGAGGAGGAGGAGGAGTAAATCATATGTGA |
| Protein sequence |
>Msa1209610 MASSSSAYNSPCAACKFLRRKCMPGCIFAPYFPPEEPQKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISFLQRQVQRLQKELDAANTDLLRYTLTDIPPPPPASLSVPQGMISVQPIPQRQFSGRNEGLYRQSPTTTYSSLPYSLPWTDTSSVDMSEGGGGGGGVNHM* |
