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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1055840 | KEH28240.1 | 71.779 | 163 | 16 | 4 | 1 | 133 | 121 | 283 | 5.76e-64 | 207 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1055840 | sp|Q9FHQ1|GDL80_ARATH | 51.534 | 163 | 49 | 3 | 1 | 133 | 123 | 285 | 1.07e-43 | 149 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1055840 | A0A072UQV3 | 71.779 | 163 | 16 | 4 | 1 | 133 | 121 | 283 | 2.75e-64 | 207 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0218810 | Msa1055840 | 0.818987 | 1.471527e-52 | -8.615850e-47 |
| Msa1055840 | Msa1353470 | 0.823485 | 1.350567e-53 | -8.615850e-47 |
| Msa0961610 | Msa1055840 | 0.803638 | 3.167789e-49 | -8.615850e-47 |
| Msa0969450 | Msa1055840 | 0.800367 | 1.489672e-48 | -8.615850e-47 |
| Msa0969520 | Msa1055840 | 0.800938 | 1.139570e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1055840 | MtrunA17_Chr5g0434621 | 71.779 | 163 | 16 | 4 | 1 | 133 | 121 | 283 | 1.50e-67 | 207 |
| Msa1055840 | MtrunA17_Chr3g0092131 | 34.356 | 163 | 77 | 4 | 1 | 133 | 120 | 282 | 3.48e-22 | 89.7 |
| Msa1055840 | MtrunA17_Chr4g0060811 | 35.583 | 163 | 75 | 4 | 1 | 133 | 124 | 286 | 5.65e-21 | 86.7 |
| Msa1055840 | MtrunA17_Chr6g0455661 | 35.385 | 130 | 62 | 3 | 26 | 133 | 272 | 401 | 2.40e-19 | 82.4 |
| Msa1055840 | MtrunA17_Chr6g0459921 | 31.928 | 166 | 79 | 4 | 2 | 133 | 125 | 290 | 3.39e-19 | 81.6 |
| Msa1055840 | MtrunA17_Chr4g0017431 | 27.439 | 164 | 86 | 4 | 3 | 133 | 127 | 290 | 1.08e-17 | 77.4 |
| Msa1055840 | MtrunA17_Chr3g0077571 | 29.448 | 163 | 85 | 3 | 1 | 133 | 122 | 284 | 1.91e-17 | 76.6 |
| Msa1055840 | MtrunA17_Chr2g0285061 | 28.313 | 166 | 85 | 7 | 2 | 133 | 126 | 291 | 4.01e-15 | 70.5 |
| Msa1055840 | MtrunA17_Chr8g0380041 | 29.091 | 165 | 83 | 7 | 3 | 133 | 125 | 289 | 1.93e-14 | 68.6 |
| Msa1055840 | MtrunA17_Chr4g0068441 | 28.571 | 168 | 80 | 6 | 3 | 133 | 130 | 294 | 2.04e-14 | 68.6 |
| Msa1055840 | MtrunA17_Chr3g0086641 | 28.659 | 164 | 84 | 6 | 3 | 133 | 133 | 296 | 6.23e-14 | 67.0 |
| Msa1055840 | MtrunA17_Chr5g0438641 | 38.272 | 81 | 48 | 1 | 55 | 133 | 210 | 290 | 1.40e-12 | 63.2 |
| Msa1055840 | MtrunA17_Chr8g0374101 | 30.189 | 106 | 72 | 1 | 30 | 133 | 197 | 302 | 5.98e-12 | 61.2 |
| Msa1055840 | MtrunA17_Chr3g0120861 | 34.021 | 97 | 61 | 2 | 40 | 133 | 200 | 296 | 9.88e-12 | 60.8 |
| Msa1055840 | MtrunA17_Chr5g0438621 | 39.506 | 81 | 47 | 1 | 55 | 133 | 208 | 288 | 1.24e-11 | 60.5 |
| Msa1055840 | MtrunA17_Chr3g0131321 | 26.974 | 152 | 88 | 3 | 5 | 133 | 145 | 296 | 4.47e-11 | 58.9 |
| Msa1055840 | MtrunA17_Chr5g0438631 | 36.364 | 88 | 53 | 1 | 49 | 133 | 200 | 287 | 8.45e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1055840 | AT5G37690.2 | 51.534 | 163 | 49 | 3 | 1 | 133 | 115 | 277 | 8.77e-45 | 149 |
| Msa1055840 | AT5G37690.1 | 51.534 | 163 | 49 | 3 | 1 | 133 | 123 | 285 | 1.09e-44 | 149 |
| Msa1055840 | AT1G74460.1 | 32.515 | 163 | 80 | 4 | 1 | 133 | 120 | 282 | 2.51e-19 | 82.4 |
| Msa1055840 | AT5G15720.2 | 36.000 | 125 | 56 | 3 | 33 | 133 | 167 | 291 | 6.78e-17 | 75.1 |
| Msa1055840 | AT5G15720.3 | 31.765 | 170 | 74 | 5 | 3 | 133 | 94 | 260 | 6.99e-17 | 75.5 |
| Msa1055840 | AT5G15720.1 | 36.000 | 125 | 56 | 3 | 33 | 133 | 167 | 291 | 1.31e-16 | 74.7 |
| Msa1055840 | AT1G71691.1 | 29.268 | 164 | 85 | 3 | 1 | 133 | 46 | 209 | 4.66e-16 | 72.8 |
| Msa1055840 | AT1G71250.1 | 29.530 | 149 | 82 | 3 | 8 | 133 | 152 | 300 | 6.12e-16 | 73.2 |
| Msa1055840 | AT1G71691.3 | 29.268 | 164 | 85 | 3 | 1 | 133 | 147 | 310 | 6.98e-16 | 72.4 |
| Msa1055840 | AT1G71691.2 | 29.268 | 164 | 85 | 3 | 1 | 133 | 147 | 310 | 1.09e-15 | 72.4 |
| Msa1055840 | AT2G04570.1 | 38.272 | 81 | 48 | 1 | 55 | 133 | 206 | 286 | 4.66e-14 | 67.8 |
| Msa1055840 | AT2G23540.1 | 27.976 | 168 | 86 | 4 | 1 | 133 | 146 | 313 | 4.17e-13 | 65.1 |
| Msa1055840 | AT2G42990.1 | 34.146 | 82 | 52 | 1 | 54 | 133 | 205 | 286 | 1.07e-12 | 63.9 |
| Msa1055840 | AT1G29670.1 | 26.667 | 165 | 88 | 6 | 2 | 133 | 125 | 289 | 2.46e-12 | 62.8 |
| Msa1055840 | AT1G20135.1 | 40.506 | 79 | 47 | 0 | 55 | 133 | 208 | 286 | 3.77e-12 | 62.4 |
| Msa1055840 | AT1G29670.2 | 26.667 | 165 | 88 | 6 | 2 | 133 | 193 | 357 | 4.04e-12 | 62.4 |
| Msa1055840 | AT1G20130.1 | 32.000 | 125 | 72 | 4 | 10 | 133 | 357 | 469 | 7.69e-12 | 61.6 |
| Msa1055840 | AT4G10950.1 | 32.432 | 111 | 68 | 3 | 30 | 133 | 216 | 326 | 8.16e-12 | 61.6 |
| Msa1055840 | AT4G10950.2 | 32.432 | 111 | 68 | 3 | 30 | 133 | 220 | 330 | 8.19e-12 | 61.6 |
| Msa1055840 | AT1G20130.2 | 32.000 | 125 | 72 | 4 | 10 | 133 | 337 | 449 | 8.83e-12 | 61.6 |
| Msa1055840 | AT4G18970.1 | 28.226 | 124 | 66 | 3 | 33 | 133 | 164 | 287 | 4.48e-11 | 59.3 |
| Msa1055840 | AT4G18970.2 | 28.455 | 123 | 65 | 3 | 34 | 133 | 165 | 287 | 5.34e-11 | 59.3 |
Find 12 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TACCTTAAGTTGTTGATCTA+AGG | 0.241725 | 7_2:+31729983 | None:intergenic |
| CTTTAAACATTGGCCTCGTT+TGG | 0.307988 | 7_2:+31729793 | None:intergenic |
| ATCGATAATCCATCTACTTA+TGG | 0.309896 | 7_2:-31729647 | None:intergenic |
| AACCTTAGATCAACAACTTA+AGG | 0.379257 | 7_2:-31729985 | Msa1055840:intron |
| GTTTAAAGCAAGTTAATGAA+TGG | 0.410689 | 7_2:-31729778 | Msa1055840:CDS |
| CATTAACTTGCTTTAAACAT+TGG | 0.463554 | 7_2:+31729783 | None:intergenic |
| TCGATTAAGTCGAGAACTAA+AGG | 0.488492 | 7_2:+31729665 | None:intergenic |
| TTGGATTTAACTCTTTGTGA+TGG | 0.494538 | 7_2:+31729812 | None:intergenic |
| TAAGTCGAGAACTAAAGGAT+AGG | 0.601850 | 7_2:+31729670 | None:intergenic |
| CTAATCATCAAACTAAACCA+TGG | 0.634969 | 7_2:-31729725 | Msa1055840:CDS |
| TGTGATGGAATACAATCGAG+TGG | 0.660749 | 7_2:+31729827 | None:intergenic |
| CAAAGAGTTAAATCCAAACG+AGG | 0.705796 | 7_2:-31729806 | Msa1055840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATTAACTTGCTTTAAACAT+TGG | + | chr7_2:31730020-31730039 | None:intergenic | 25.0% |
| !! | GTTTAAAGCAAGTTAATGAA+TGG | - | chr7_2:31730022-31730041 | Msa1055840:CDS | 25.0% |
| CTAGTAAACTACATTTATGC+AGG | - | chr7_2:31729750-31729769 | Msa1055840:CDS | 30.0% | |
| AACCTTAGATCAACAACTTA+AGG | - | chr7_2:31729815-31729834 | Msa1055840:CDS | 30.0% | |
| ! | TACCTTAAGTTGTTGATCTA+AGG | + | chr7_2:31729820-31729839 | None:intergenic | 30.0% |
| ! | GCACAAAAAATGGTTTTTCA+CGG | - | chr7_2:31729943-31729962 | Msa1055840:intron | 30.0% |
| TTGGATTTAACTCTTTGTGA+TGG | + | chr7_2:31729991-31730010 | None:intergenic | 30.0% | |
| CTAATCATCAAACTAAACCA+TGG | - | chr7_2:31730075-31730094 | Msa1055840:intron | 30.0% | |
| ATCATGAGTAGTTCAGTTCT+TGG | + | chr7_2:31729860-31729879 | None:intergenic | 35.0% | |
| ! | AAAATGGTTTTTCACGGACT+TGG | - | chr7_2:31729949-31729968 | Msa1055840:intron | 35.0% |
| CAAAGAGTTAAATCCAAACG+AGG | - | chr7_2:31729994-31730013 | Msa1055840:CDS | 35.0% | |
| ! | GCAAAGACAAGTTTTGCATT+TGG | + | chr7_2:31730105-31730124 | None:intergenic | 35.0% |
| TAAGTCGAGAACTAAAGGAT+AGG | + | chr7_2:31730133-31730152 | None:intergenic | 35.0% | |
| TCGATTAAGTCGAGAACTAA+AGG | + | chr7_2:31730138-31730157 | None:intergenic | 35.0% | |
| ! | TCAGCTAGGAGCACAAAAAA+TGG | - | chr7_2:31729933-31729952 | Msa1055840:intron | 40.0% |
| ! | TGTGATGGAATACAATCGAG+TGG | + | chr7_2:31729976-31729995 | None:intergenic | 40.0% |
| ! | CTTTAAACATTGGCCTCGTT+TGG | + | chr7_2:31730010-31730029 | None:intergenic | 40.0% |
| ! | GTTTTGCATTTGGAAGACCA+TGG | + | chr7_2:31730095-31730114 | None:intergenic | 40.0% |
| TACCAGAGACTGTATCAGCT+AGG | - | chr7_2:31729919-31729938 | Msa1055840:intron | 45.0% | |
| CTCCTAGCTGATACAGTCTC+TGG | + | chr7_2:31729924-31729943 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 31729649 | 31730173 | 31729649 | ID=Msa1055840;Name=Msa1055840 |
| chr7_2 | mRNA | 31729649 | 31730173 | 31729649 | ID=Msa1055840-mRNA-1;Parent=Msa1055840;Name=Msa1055840-mRNA-1;_AED=0.12;_eAED=0.22;_QI=0|0|0|1|0|0|3|0|133 |
| chr7_2 | exon | 31730077 | 31730173 | 31730077 | ID=Msa1055840-mRNA-1:exon:6375;Parent=Msa1055840-mRNA-1 |
| chr7_2 | exon | 31729986 | 31730050 | 31729986 | ID=Msa1055840-mRNA-1:exon:6374;Parent=Msa1055840-mRNA-1 |
| chr7_2 | exon | 31729649 | 31729885 | 31729649 | ID=Msa1055840-mRNA-1:exon:6373;Parent=Msa1055840-mRNA-1 |
| chr7_2 | CDS | 31730077 | 31730173 | 31730077 | ID=Msa1055840-mRNA-1:cds;Parent=Msa1055840-mRNA-1 |
| chr7_2 | CDS | 31729986 | 31730050 | 31729986 | ID=Msa1055840-mRNA-1:cds;Parent=Msa1055840-mRNA-1 |
| chr7_2 | CDS | 31729649 | 31729885 | 31729649 | ID=Msa1055840-mRNA-1:cds;Parent=Msa1055840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
